Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_File	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	TTotCov	TVarCov	NTotCov	NVarCov	TVarRat	NVarRat	dbSNP_AF	dbSNP_PopFreq	dbSNP_Strength	COSMIC_Codon	COSMIC_Gene	COSMIC_Gene_Freq	COSMIC_Site_Freq	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	Confidence	Algorithm
VWA3A	146177	hgsc.bcm.edu	37	16	22144375	22144375	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	69.0	27.0	91.0	0.0	0.391304	0	.	.	none	.	VWA3A	115	.	NM_173615	exon20	c.2026delA	p.T676fs	.	.	PASS	Atlas-Indel
DAAM2	23500	hgsc.bcm.edu	37	6	39869657	39869659	+	In_Frame_Del	DEL	GGA	GGA	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	GGA	GGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	45.0	22.0	57.0	0.0	0.489	.	.	.	none	.	DAAM2	101	.	NM_001201427	exon25	c.3050_3052del	p.1017_1018del	.	.	PASS	Pindel,Atlas-Indel
DNAH8	1769	hgsc.bcm.edu	37	6	38840427	38840428	+	Frame_Shift_Del	DEL	AT	AT	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	AT	AT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	128.0	43.0	117.0	0.0	0.336	.	.	.	none	.	DNAH8	1239	.	NM_001206927	exon50	c.7105_7106del	p.2369_2369del	.	.	PASS	Pindel,Atlas-Indel
ABP1	26	hgsc.bcm.edu	37	7	150558156	150558156	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	81.0	17.0	95.0	0.0	0.210	.	.	.	none	.	ABP1	92	.	NM_001272072	exon5	c.2171delA	p.D724fs	.	.	PASS	Pindel,Atlas-Indel
L1TD1	54596	hgsc.bcm.edu	37	1	62672389	62672390	+	In_Frame_Ins	INS	-	-	AACAGA	rs150799576	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	127.0	38.0	215.0	0.0	0.299	.	-|0.971;AACAGA|0.029	0.029	strong	.	L1TD1	114	.	NM_001164835	exon4	c.89_90insAACAGA	p.L30delinsLTE	.	.	PASS	Pindel,Atlas-Indel
DOC2A	8448	hgsc.bcm.edu	37	16	30018351	30018353	+	Frame_Shift_Del	DEL	CCT	CCT	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	CCT	CCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	184.0	32.0	139.0	0.0	0.174	.	.	.	none	.	DOC2A	40	.	NM_003586	exon7	c.714_714del	p.238_238del	.	.	PASS	Pindel,Atlas-Indel
GRAMD1A	57655	hgsc.bcm.edu	37	19	35505282	35505282	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	143.0	43.0	158.0	0.0	0.301	.	.	.	none	.	GRAMD1A	39	.	NM_020895	exon10	c.1059delT	p.T353fs	.	.	PASS	Pindel,Atlas-Indel
FBXW10	10517	hgsc.bcm.edu	37	17	18682351	18682352	+	Frame_Shift_Del	DEL	AA	AA	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	153.0	43.0	343.0	0.0	0.281046	0	.	.	none	.	FBXW10	82	.	NM_001267585	exon14	c.2898_2899del	p.966_967del	.	.	PASS	Atlas-Indel
MSI2	124540	hgsc.bcm.edu	37	17	55693404	55693405	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	51.0	11.0	52.0	0.0	0.216	.	.	.	none	.	MSI2	52	.	NM_138962	exon9	c.611_612insT	p.P204fs	.	.	PASS	Pindel,Atlas-Indel
RPGR	6103	hgsc.bcm.edu	37	X	38145805	38145805	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	38.0	17.0	209.0	0.0	0.447368	0	.	.	none	.	RPGR	175	.	NM_001034853	exon15	c.2448delA	p.G816fs	.	.	PASS	Atlas-Indel
APLF	200558	hgsc.bcm.edu	37	2	68805143	68805143	+	Frame_Shift_Del	DEL	A	A	-	rs149897324	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	50.0	20.0	79.0	0.0	0.400	.	A|0.991;-|0.009	0.009	strong	.	APLF	69	.	NM_173545	exon10	c.1524delG	p.M508fs	.	.	PASS	Pindel,Atlas-Indel
CCDC71	64925	hgsc.bcm.edu	37	3	49200611	49200616	+	In_Frame_Del	DEL	GCCTTG	GCCTTG	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	GCCTTG	GCCTTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	86.0	21.0	69.0	0.0	0.244	.	.	.	none	.	CCDC71	33	.	NM_022903	exon2	c.1027_1032del	p.343_344del	.	.	PASS	Pindel,Atlas-Indel
DNAH5	1767	hgsc.bcm.edu	37	5	13883045	13883045	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	164.0	26.0	142.0	0.0	0.158537	0	.	.	none	.	DNAH5	868	.	NM_001369	exon20	c.3143delT	p.V1048fs	.	.	PASS	Atlas-Indel
CCR8	1237	hgsc.bcm.edu	37	3	39374514	39374516	+	In_Frame_Del	DEL	ACA	ACA	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	ACA	ACA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	296.0	57.0	372.0	0.0	0.193	.	.	.	none	.	CCR8	34	.	NM_005201	exon2	c.691_693del	p.231_231del	.	.	PASS	Pindel,Atlas-Indel
GTF3C1	2975	hgsc.bcm.edu	37	16	27499956	27499956	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	46.0	13.0	44.0	0.0	0.283	.	.	.	none	.	GTF3C1	210	.	NM_001520	exon22	c.3431delA	p.E1144fs	.	.	PASS	Pindel,Atlas-Indel
CFTR	1080	hgsc.bcm.edu	37	7	117199645	117199647	+	In_Frame_Del	DEL	TCT	TCT	-	rs199826652	by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	TCT	TCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	49.0	17.0	81.0	0.0	0.347	.	TCT|0.994;-|0.006	0.006	strong	.	CFTR	171	.	NM_000492	exon11	c.1519_1521del	p.507_507del	.	.	PASS	Pindel,Atlas-Indel
ZNF568	374900	hgsc.bcm.edu	37	19	37440852	37440852	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	45.0	11.0	30.0	0.0	0.244444	0	.	.	none	.	ZNF568	106	.	NM_198539	exon7	c.796delA	p.I266fs	.	.	PASS	Atlas-Indel
NFKBIE	4794	hgsc.bcm.edu	37	6	44232739	44232742	+	Frame_Shift_Del	DEL	GTAA	GTAA	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	GTAA	GTAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	35.0	11.0	44.0	0.0	0.314286	0	.	.	none	.	NFKBIE	31	.	NM_004556	exon1	c.760_763del	p.254_255del	.	.	PASS	Atlas-Indel
FASTKD1	79675	hgsc.bcm.edu	37	2	170387132	170387133	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	206.0	69.0	213.0	0.0	0.335	.	.	.	none	.	FASTKD1	86	.	NM_024622	exon14	c.2407_2408insA	p.R803fs	.	.	PASS	Pindel,Atlas-Indel
COL12A1	1303	hgsc.bcm.edu	37	6	75887427	75887436	+	Frame_Shift_Del	DEL	AATATTCAGG	AATATTCAGG	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	AATATTCAGG	AATATTCAGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	155.0	16.0	155.0	0.0	0.103226	0	.	.	none	.	COL12A1	385	.	NM_004370	exon12	c.2381_2390del	p.794_797del	.	.	PASS	Atlas-Indel
TAF1	6872	hgsc.bcm.edu	37	X	70612454	70612455	+	In_Frame_Ins	INS	-	-	ATT	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	118.0	27.0	127.0	0.0	0.229	.	.	.	none	.	TAF1	439	.	NM_004606	exon19	c.2877_2878insATT	p.F959delinsFI	.	.	PASS	Pindel,Atlas-Indel
DUSP18	150290	hgsc.bcm.edu	37	22	31059499	31059500	+	Frame_Shift_Del	DEL	CA	CA	-	rs71788033		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	119.0	32.0	128.0	0.0	0.269	.	.	.	weak	.	DUSP18	10	.	NM_152511	exon2	c.492_493del	p.164_165del	.	.	PASS	Pindel,Atlas-Indel
SCN9A	6335	hgsc.bcm.edu	37	2	167144980	167144980	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	79.0	12.0	78.0	0.0	0.151899	0	.	.	none	.	SCN9A	296	.	NM_002977	exon10	c.1282delG	p.D428fs	.	.	PASS	Atlas-Indel
CCDC87	55231	hgsc.bcm.edu	37	11	66358631	66358633	+	In_Frame_Del	DEL	TCT	TCT	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	TCT	TCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	180.0	78.0	229.0	0.0	0.433	.	.	.	none	.	CCDC87	83	.	NM_018219	exon1	c.1855_1857del	p.619_619del	.	.	PASS	Pindel,Atlas-Indel
NLGN4Y	22829	hgsc.bcm.edu	37	Y	16952663	16952663	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	79.0	41.0	3.0	0.0	0.519	.	.	.	none	.	NLGN4Y	44	.	NM_014893	exon6	c.1971delG	p.G657fs	.	.	PASS	Pindel,Atlas-Indel
HLA-C	3107	hgsc.bcm.edu	37	6	31238973	31238986	+	Frame_Shift_Del	DEL	TCTGAGCCGCGGTG	TCTGAGCCGCGGTG	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	TCTGAGCCGCGGTG	TCTGAGCCGCGGTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	151.0	29.0	123.0	0.0	0.192053	0	.	.	none	.	HLA-C	92	.	NM_002117	exon3	c.484_497del	p.162_166del	.	.	PASS	Atlas-Indel
SRSF2	6427	hgsc.bcm.edu	37	17	74732390	74732395	+	In_Frame_Del	DEL	GGACTT	GGACTT	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	GGACTT	GGACTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	67.0	14.0	72.0	0.0	0.209	.	.	.	none	.	SRSF2	544	.	NM_001195427	exon2	c.515_520del	p.172_174del	.	.	PASS	Pindel,Atlas-Indel
HK3	3101	hgsc.bcm.edu	37	5	176314086	176314086	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	121.0	41.0	86.0	0.0	0.339	.	.	.	none	.	HK3	210	.	NM_002115	exon13	c.1775delA	p.Q592fs	.	.	PASS	Pindel,Atlas-Indel
HIST1H4J	8363	hgsc.bcm.edu	37	6	27792127	27792128	+	Frame_Shift_Ins	INS	-	-	CACGC	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	199.0	13.0	242.0	0.0	0.0653266	0	.	.	none	HIST1H4J,NS,carcinoma,+2,1	HIST1H4J	11	1	NM_021968	exon1	c.225_226insCACGC	p.E75fs	.	.	PASS	Atlas-Indel
VWA3A	146177	hgsc.bcm.edu	37	16	22144376	22144378	+	In_Frame_Del	DEL	CCG	CCG	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	CCG	CCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	21.0	90.0	0.0	0.296	.	.	.	none	.	VWA3A	115	.	NM_173615	exon20	c.2027_2029del	p.676_677del	.	.	PASS	Pindel
RPGR	6103	hgsc.bcm.edu	37	X	38145791	38145805	+	In_Frame_Del	DEL	CCTCTACTTCCCCTC	CCTCTACTTCCCCTC	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	CCTCTACTTCCCCTC	CCTCTACTTCCCCTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	33.0	18.0	197.0	0.0	0.545	.	.	.	none	.	RPGR	175	.	NM_001034853	exon15	c.2448_2462del	p.816_821del	.	.	PASS	Pindel
SPRR1B	6699	hgsc.bcm.edu	37	1	153004942	153005013	+	In_Frame_Del	DEL	TGCCACCCCAAGGTGCCTGAGCCCTGCCACCCCAAAGTGCCCGAGCCCTGCCAGCCCAAGGTTCCAGAGCCA	TGCCACCCCAAGGTGCCTGAGCCCTGCCACCCCAAAGTGCCCGAGCCCTGCCAGCCCAAGGTTCCAGAGCCA	-	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	TGCCACCCCAAGGTGCCTGAGCCCTGCCACCCCAAAGTGCCCGAGCCCTGCCAGCCCAAGGTTCCAGAGCCA	TGCCACCCCAAGGTGCCTGAGCCCTGCCACCCCAAAGTGCCCGAGCCCTGCCAGCCCAAGGTTCCAGAGCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	78.0	23.0	104.0	0.0	0.295	.	.	.	none	.	SPRR1B	18	.	NM_003125	exon2	c.120_191del	p.40_64del	.	.	PASS	Pindel
MUC16	94025	hgsc.bcm.edu	37	19	8999044	8999044	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	100.0	22.0	107.0	0.0	0.22	0	.	.	none	.	MUC16	4315	.	NM_024690	exon57	c.C40800T	p.S13600S	CACAGAGCTCCGC	.	PASS	Atlas-SNP
TTC39B	158219	hgsc.bcm.edu	37	9	15189791	15189791	+	Splice_Site	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	57.0	11.0	59.0	0.0	0.192982	0	.	.	none	.	TTC39B	83	.	NM_001168339	exon13	c.1100-1G>A	.	CTGTACCTAGAAA	.	PASS	Atlas-SNP
DSC1	1823	hgsc.bcm.edu	37	18	28710619	28710619	+	Missense_Mutation	SNP	C	C	A	rs985861	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	198.0	85.0	240.0	0.0	0.429293	0	C|0.914;A|0.086	0.086	strong	.	DSC1	240	.	NM_024421	exon16	c.G2543T	p.C848F	TACGAACAAACGT	.	PASS	Atlas-SNP
PPP1R32	220004	hgsc.bcm.edu	37	11	61253841	61253841	+	Missense_Mutation	SNP	C	C	A	rs11230707	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	143.0	107.0	194.0	0.0	0.748252	0	C|0.955;A|0.045	0.045	strong	.	.	.	.	NM_145017	exon8	c.C713A	p.T238N	GTGTCACCAAGTC	.	PASS	Atlas-SNP
KRT73	319101	hgsc.bcm.edu	37	12	53012053	53012053	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	118.0	69.0	108.0	0.0	0.584746	0	.	.	none	.	KRT73	101	.	NM_175068	exon1	c.T256G	p.F86V	TGCCAAACATGCT	.	PASS	Atlas-SNP
CD101	9398	hgsc.bcm.edu	37	1	117554247	117554247	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	141.0	60.0	168.0	0.0	0.425532	0	.	.	none	.	CD101	95	.	NM_001256109	exon3	c.C500T	p.T167I	CCCTCACCTGTGA	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103388015	103388015	+	Missense_Mutation	SNP	C	C	G	rs17507841	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	180.0	93.0	183.0	0.0	0.516667	0	C|0.984;G|0.016	0.016	strong	.	.	.	.	NM_001146197	exon4	c.G15032C	p.G5011A	TCTTCTCCCTGTG	.	PASS	Atlas-SNP
FASTKD1	79675	hgsc.bcm.edu	37	2	170403106	170403106	+	Silent	SNP	G	G	A	rs16857030	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	220.0	92.0	225.0	0.0	0.418182	0	G|0.902;A|0.098	0.098	strong	.	FASTKD1	86	.	NM_024622	exon8	c.C1323T	p.A441A	TAAAACGGCTTCA	.	PASS	Atlas-SNP
ANKRD36	375248	hgsc.bcm.edu	37	2	97790211	97790211	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	198.0	13.0	200.0	2.0	0.0656566	0.01	.	.	none	ANKRD36_ENST00000420699,extremity,malignant_melanoma,0,2	ANKRD36	170	2	NM_001164315	exon5	c.A608T	p.H203L	TCATACATGCTGT	.	scavenged	Atlas-SNP
ZSCAN5B	342933	hgsc.bcm.edu	37	19	56703286	56703286	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	87.0	33.0	90.0	0.0	0.37931	0	.	.	none	.	ZSCAN5B	160	.	NM_001080456	exon2	c.C521T	p.P174L	GTCCCCGGATGCA	.	PASS	Atlas-SNP
LIMD2	80774	hgsc.bcm.edu	37	17	61775992	61775992	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	102.0	27.0	94.0	0.0	0.264706	0	.	.	none	.	LIMD2	6	.	NM_030576	exon5	c.T304A	p.Y102N	CGTCGTAGTTGCC	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152746593	152746593	+	Missense_Mutation	SNP	A	A	T	rs111250109	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	142.0	95.0	230.0	0.0	0.669014	0	A|0.951;T|0.049	0.049	strong	.	SYNE1	3227	.	NM_033071	exon39	c.T5211A	p.D1737E	CACATCATCTTTG	.	PASS	Atlas-SNP
ERCC2	2068	hgsc.bcm.edu	37	19	45855478	45855478	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	114.0	30.0	91.0	0.0	0.263158	0	.	.	none	.	ERCC2	78	.	NM_000400	exon22	c.C2179T	p.P727S	GGAAGGGCTGTGC	.	PASS	Atlas-SNP
NOL6	65083	hgsc.bcm.edu	37	9	33464897	33464897	+	Missense_Mutation	SNP	T	T	C	rs142747625	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	77.0	34.0	79.0	0.0	0.441558	0	T|0.998;C|0.002	0.002	strong	.	NOL6	85	.	NM_022917	exon21	c.A2759G	p.N920S	TTGAGGTTGACAA	.	PASS	Atlas-SNP
PKDREJ	10343	hgsc.bcm.edu	37	22	46657894	46657894	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	183.0	47.0	199.0	0.0	0.256831	0	.	.	none	.	PKDREJ	195	.	NM_006071	exon1	c.G1326A	p.A442A	AGAAAACGCTGTC	.	PASS	Atlas-SNP
CAMK2G	818	hgsc.bcm.edu	37	10	75574956	75574956	+	Silent	SNP	G	G	A	rs55640406	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	143.0	142.0	195.0	0.0	0.993007	0	G|0.988;A|0.012	0.012	strong	.	CAMK2G	79	.	NM_172171	exon20	c.C1488T	p.H496H	GTGGACGTGTGGG	.	PASS	Atlas-SNP
IL10RA	3587	hgsc.bcm.edu	37	11	117869642	117869642	+	Missense_Mutation	SNP	C	C	A	rs369418818		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	53.0	43.0	47.0	0.0	0.811321	0	.	.	weak	.	IL10RA	46	.	NM_001558	exon7	c.C1023A	p.H341Q	CCCTCACCCCCAG	.	PASS	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	37	21	47817316	47817316	+	Missense_Mutation	SNP	G	G	A	rs143796569	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	100.0	27.0	93.0	0.0	0.27	0	G|0.999;A|0.001	0.001	strong	PCNT,NS,carcinoma,-2,1	PCNT	283	1	NM_006031	exon22	c.G4354A	p.G1452R	CATCGCGGGTGTG	.	PASS	Atlas-SNP
OSBPL10	114884	hgsc.bcm.edu	37	3	32022622	32022622	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	21.0	12.0	8.0	0.0	0.571429	0	.	.	none	.	OSBPL10	160	.	NM_017784	exon1	c.G50A	p.S17N	CGGCTGCTGCTGT	.	PASS	Atlas-SNP
ZNF248	57209	hgsc.bcm.edu	37	10	38121631	38121631	+	Missense_Mutation	SNP	T	T	C	rs11011379	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	56.0	29.0	90.0	0.0	0.517857	0	T|0.986;C|0.014	0.014	strong	.	ZNF248	61	.	NM_001267597	exon6	c.A652G	p.K218E	CATTTTTACTATA	.	PASS	Atlas-SNP
TAF1L	138474	hgsc.bcm.edu	37	9	32631518	32631518	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	338.0	86.0	433.0	1.0	0.254438	0.00230947	.	.	none	.	TAF1L	382	.	NM_153809	exon1	c.G4060C	p.E1354Q	GAACCTCATGCAC	.	PASS	Atlas-SNP
ARID4B	51742	hgsc.bcm.edu	37	1	235416122	235416122	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	172.0	36.0	168.0	0.0	0.209302	0	.	.	none	.	ARID4B	142	.	NM_016374	exon6	c.T277C	p.F93L	CATCAAAAACTAT	.	PASS	Atlas-SNP
ZNF623	9831	hgsc.bcm.edu	37	8	144733176	144733176	+	Silent	SNP	C	C	T	rs141224385	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	35.0	5.0	32.0	0.0	0.142857	0	C|0.999;T|0.001	0.001	strong	ZNF623,NS,carcinoma,0,1	ZNF623	63	1	NM_014789	exon1	c.C1134T	p.N378N	ATGTAACGAGTGT	.	scavenged	Atlas-SNP
ABCB8	11194	hgsc.bcm.edu	37	7	150739054	150739054	+	Missense_Mutation	SNP	G	G	A	rs56198402	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	42.0	26.0	31.0	0.0	0.619048	0	G|0.969;A|0.031	0.031	strong	.	ABCB8	65	.	NM_007188	exon14	c.G1624A	p.V542I	GAGCCCGTCCTGT	.	PASS	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	37	4	79353587	79353587	+	Missense_Mutation	SNP	C	C	G	rs35219594	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	120.0	59.0	174.0	0.0	0.491667	0	C|0.998;G|0.002	0.002	strong	FRAS1_ENST00000325942,NS,carcinoma,+2,3	FRAS1	779	3	NM_001166133	exon38	c.C5046G	p.D1682E	GGAAGACAGCATG	.	PASS	Atlas-SNP
AKD1	221264	hgsc.bcm.edu	37	6	109827528	109827528	+	Splice_Site	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	78.0	24.0	131.0	0.0	0.307692	0	.	.	none	C6orf224,NS,carcinoma,-2,2	AKD1	223	2	NM_001145128	exon36	c.4849+2T>C	.	TATCTTACCTGCT	.	PASS	Atlas-SNP
OR5H14	403273	hgsc.bcm.edu	37	3	97868959	97868959	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	140.0	73.0	181.0	0.0	0.521429	0	.	.	none	.	OR5H14	56	.	NM_001005514	exon1	c.C730A	p.H244N	GGAGCTCATCTCT	.	PASS	Atlas-SNP
HRAS	3265	hgsc.bcm.edu	37	11	534242	534242	+	Silent	SNP	A	A	G	rs12628	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	139.0	104.0	124.0	0.0	0.748201	0	A|0.663;G|0.337	0.337	strong	HRAS,arm,benign_melanocytic_nevus,0,26	HRAS	1232	26	NM_001130442	exon2	c.T81C	p.H27H	CACAAAATGGTTC	.	PASS	Atlas-SNP
APOL6	80830	hgsc.bcm.edu	37	22	36054944	36054944	+	Silent	SNP	C	C	T	rs34527373	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	69.0	41.0	67.0	0.0	0.594203	0	C|0.975;T|0.025	0.025	strong	.	APOL6	26	.	NM_030641	exon3	c.C333T	p.T111T	CTCCACCGCTGGT	.	PASS	Atlas-SNP
SIVA1	10572	hgsc.bcm.edu	37	14	105222988	105222988	+	Missense_Mutation	SNP	G	G	A	rs144031294	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	135.0	73.0	134.0	0.0	0.540741	0	G|0.998;A|0.002	0.002	strong	.	SIVA1	12	.	NM_006427	exon3	c.G361A	p.V121M	CGAGCCGTGGATG	.	PASS	Atlas-SNP
THNSL1	79896	hgsc.bcm.edu	37	10	25314005	25314005	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	139.0	30.0	149.0	0.0	0.215827	0	.	.	none	.	THNSL1	70	.	NM_024838	exon3	c.G1853A	p.W618X	CTGACTGGTGCTC	.	PASS	Atlas-SNP
LRRN3	54674	hgsc.bcm.edu	37	7	110764596	110764596	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	69.0	22.0	62.0	0.0	0.318841	0	.	.	none	.	LRRN3	132	.	NM_018334	exon2	c.A1768G	p.K590E	GAGTATAAAATTT	.	PASS	Atlas-SNP
EIF2AK3	9451	hgsc.bcm.edu	37	2	88926522	88926522	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	24.0	59.0	0.0	0.338028	0	.	.	none	.	EIF2AK3	160	.	NM_004836	exon1	c.G271T	p.E91X	CTGGTTCCGGACC	.	PASS	Atlas-SNP
MOCS2	4338	hgsc.bcm.edu	37	5	52397199	52397199	+	Missense_Mutation	SNP	G	G	A	rs2233218	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	148.0	71.0	126.0	0.0	0.47973	0	G|0.995;A|0.005	0.005	strong	.	MOCS2	28	.	NM_004531	exon5	c.C367T	p.H123Y	GTCTATGGAACAC	.	PASS	Atlas-SNP
HIST1H2BK	85236	hgsc.bcm.edu	37	6	27114289	27114289	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	105.0	34.0	90.0	0.0	0.32381	0	.	.	none	.	HIST1H2BK	68	.	NM_080593	exon1	c.A289G	p.T97A	CGGCCGTCTGGAT	.	PASS	Atlas-SNP
DOCK4	9732	hgsc.bcm.edu	37	7	111503547	111503547	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	81.0	27.0	75.0	0.0	0.333333	0	.	.	none	.	DOCK4	365	.	NM_014705	exon23	c.A2354G	p.N785S	ACCAAGTTGGCTA	.	PASS	Atlas-SNP
CYTH3	9265	hgsc.bcm.edu	37	7	6227341	6227341	+	Silent	SNP	A	A	G	rs41282682	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	80.0	58.0	89.0	0.0	0.725	0	A|0.986;G|0.014	0.014	strong	.	CYTH3	44	.	NM_004227	exon3	c.T129C	p.Y43Y	AATTTCATATTTC	.	PASS	Atlas-SNP
KIAA0319	9856	hgsc.bcm.edu	37	6	24576706	24576706	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	359.0	65.0	490.0	0.0	0.181058	0	.	.	none	.	KIAA0319	117	.	NM_001168377	exon10	c.C1624T	p.P542S	TTTGGGGCAAAGT	.	PASS	Atlas-SNP
KRTAP4-12	83755	hgsc.bcm.edu	37	17	39279944	39279944	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	55.0	16.0	60.0	0.0	0.290909	0	.	.	none	.	KRTAP4-12	32	.	NM_031854	exon1	c.G431C	p.S144T	CAGCAGCTGGGGC	.	PASS	Atlas-SNP
C6	729	hgsc.bcm.edu	37	5	41181578	41181578	+	Silent	SNP	T	T	A	rs61734263	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	154.0	94.0	146.0	0.0	0.61039	0	T|0.980;A|0.020	0.020	strong	.	C6	197	.	NM_001115131	exon7	c.A810T	p.S270S	TGAGAATGAGCCT	.	PASS	Atlas-SNP
CDCP2	200008	hgsc.bcm.edu	37	1	54605769	54605769	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	138.0	68.0	177.0	0.0	0.492754	0	.	.	none	.	CDCP2	52	.	NM_201546	exon4	c.G774A	p.Q258Q	TACCTCCTGGCAT	.	PASS	Atlas-SNP
LENG8	114823	hgsc.bcm.edu	37	19	54967408	54967408	+	Missense_Mutation	SNP	C	C	T	rs75472495	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	128.0	68.0	140.0	0.0	0.53125	0	C|0.998;T|0.002	0.002	strong	LENG8,colon,carcinoma,-1,1	LENG8	73	1	NM_052925	exon9	c.C1288T	p.R430C	CCGACGCGCCACT	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092843	1092843	+	Silent	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	67.0	5.0	48.0	0.0	0.0746269	0	.	.	none	MUC2_ENST00000441003,trunk,malignant_melanoma,+1,2	MUC2	614	2	NM_002457	exon30	c.C4662G	p.G1554G	CACCGGCACACAG	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134649709	134649709	+	Missense_Mutation	SNP	C	C	T	rs76581191	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	42.0	20.0	44.0	0.0	0.47619	0	C|0.990;T|0.010	0.010	strong	TTC40,NS,carcinoma,0,2	TTC40	100	2	NM_001200049	exon46	c.G6550A	p.G2184S	CAGCGCCGTACAG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515422	195515422	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	74.0	23.0	65.0	0.0	0.310811	0	.	.	none	.	MUC4	1505	.	NM_018406	exon2	c.C3029A	p.P1010H	GTGACAGGAAGAG	.	PASS	Atlas-SNP
ARVCF	421	hgsc.bcm.edu	37	22	19965563	19965563	+	Missense_Mutation	SNP	C	C	T	rs16982871	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	95.0	36.0	104.0	0.0	0.378947	0	C|0.995;T|0.005	0.005	strong	.	ARVCF	54	.	NM_001670	exon8	c.G1616A	p.R539Q	CGGAGTCGCCGCC	.	PASS	Atlas-SNP
C14orf159	80017	hgsc.bcm.edu	37	14	91633706	91633706	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	106.0	20.0	107.0	0.0	0.188679	0	.	.	none	.	C14orf159	57	.	NM_001102366	exon6	c.G241A	p.A81T	CAAGGTGCTATCT	.	PASS	Atlas-SNP
GCSAM	257144	hgsc.bcm.edu	37	3	111844089	111844089	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	41.0	8.0	60.0	0.0	0.195122	0	.	.	none	.	.	.	.	NM_001190259	exon5	c.C209A	p.S70X	GTAGATGACATTC	.	PASS	Atlas-SNP
ZNF883	169834	hgsc.bcm.edu	37	9	115760345	115760345	+	Silent	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	53.0	9.0	80.0	0.0	0.169811	0	.	.	none	.	.	.	.	NM_001101338	exon5	c.A195G	p.G65G	TTTCTCTCCAGTA	.	PASS	Atlas-SNP
WDR90	197335	hgsc.bcm.edu	37	16	708308	708308	+	Silent	SNP	G	G	A	rs369151964	alternate_allele	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	70.0	27.0	121.0	0.0	0.385714	0	.	.	alt	.	WDR90	107	.	NM_145294	exon22	c.G2730A	p.V910V	AGTCGTGGTGCTG	.	PASS	Atlas-SNP
LCT	3938	hgsc.bcm.edu	37	2	136547204	136547204	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	101.0	32.0	156.0	0.0	0.316832	0	.	.	none	.	LCT	309	.	NM_002299	exon16	c.G5500A	p.V1834M	GGACCACAGAGGC	.	PASS	Atlas-SNP
HOXA11	3207	hgsc.bcm.edu	37	7	27222437	27222437	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	63.0	27.0	68.0	0.0	0.428571	0	.	.	none	.	HOXA11	29	.	NM_005523	exon2	c.A920G	p.Y307C	GCTGAGTAGTACT	.	PASS	Atlas-SNP
CACNA1H	8912	hgsc.bcm.edu	37	16	1254064	1254064	+	Missense_Mutation	SNP	C	C	T	rs145376050	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	73.0	13.0	70.0	0.0	0.178082	0	C|0.998;T|0.002	0.002	strong	.	CACNA1H	317	.	NM_021098	exon10	c.C2057T	p.P686L	CCCTGCCCAGCCC	.	PASS	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	37	16	88494604	88494604	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	100.0	64.0	113.0	0.0	0.64	0	.	.	none	.	ZNF469	121	.	NM_001127464	exon1	c.C726T	p.S242S	GAATAGCTTCCCA	.	PASS	Atlas-SNP
RTN3	10313	hgsc.bcm.edu	37	11	63486204	63486204	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	42.0	12.0	67.0	0.0	0.285714	0	.	.	none	.	RTN3	104	.	NM_001265589	exon3	c.C230T	p.P77L	ATGAGCCATCTTC	.	PASS	Atlas-SNP
DEFB110	245913	hgsc.bcm.edu	37	6	49986788	49986788	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	168.0	40.0	181.0	0.0	0.238095	0	.	.	none	.	DEFB110	5	.	NM_001037497	exon2	c.A106T	p.R36X	CTATTCTGCACTC	.	PASS	Atlas-SNP
FSCB	84075	hgsc.bcm.edu	37	14	44975349	44975349	+	Missense_Mutation	SNP	G	G	A	rs139581441	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	89.0	37.0	109.0	0.0	0.41573	0	G|0.997;A|0.003	0.003	strong	FSCB,NS,carcinoma,0,1	FSCB	173	1	NM_032135	exon1	c.C842T	p.A281V	GGCTCCGCTTTAG	.	PASS	Atlas-SNP
ANO8	57719	hgsc.bcm.edu	37	19	17439450	17439450	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	22.0	4.0	25.0	0.0	0.181818	0	.	.	none	.	ANO8	67	.	NM_020959	exon13	c.G1747A	p.E583K	CGTCCTCCTCCTT	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103394421	103394421	+	Missense_Mutation	SNP	T	T	C	rs111294175	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	191.0	96.0	202.0	0.0	0.502618	0	T|0.998;C|0.002	0.002	strong	.	.	.	.	NM_001146197	exon4	c.A8626G	p.K2876E	TGTCTTTTGGCTT	.	PASS	Atlas-SNP
GUCY2D	3000	hgsc.bcm.edu	37	17	7909890	7909890	+	Silent	SNP	C	C	T	rs61749678	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	79.0	37.0	91.0	0.0	0.468354	0	C|0.999;T|0.001	0.001	strong	.	GUCY2D	82	.	NM_000180	exon4	c.C1236T	p.D412D	GGGAGACCGGCTT	.	PASS	Atlas-SNP
PSG8	440533	hgsc.bcm.edu	37	19	43259169	43259169	+	Missense_Mutation	SNP	C	C	T	rs140722778	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	28.0	15.0	55.0	0.0	0.535714	0	C|0.998;T|0.002	0.002	strong	PSG8_ENST00000404209,NS,carcinoma,0,5	PSG8	101	5	NM_001130167	exon4	c.G959A	p.R320H	TAACTGCGGATGC	.	PASS	Atlas-SNP
ACAD8	27034	hgsc.bcm.edu	37	11	134128923	134128923	+	Missense_Mutation	SNP	C	C	G	rs113488591	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	138.0	26.0	121.0	0.0	0.188406	0	C|0.985;G|0.015	0.015	strong	.	ACAD8	33	.	NM_014384	exon5	c.C512G	p.S171C	CTGCCTCTCTTCT	.	PASS	Atlas-SNP
VCAN	1462	hgsc.bcm.edu	37	5	82816190	82816190	+	Missense_Mutation	SNP	A	A	G	rs61754531	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	64.0	34.0	88.0	0.0	0.53125	0	A|0.993;G|0.007	0.007	strong	.	VCAN	498	.	NM_004385	exon7	c.A2065G	p.T689A	ACAGAAACACTAA	.	PASS	Atlas-SNP
ZNF217	7764	hgsc.bcm.edu	37	20	52193542	52193542	+	Silent	SNP	C	C	T	rs61748380	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	122.0	68.0	126.0	0.0	0.557377	0	C|0.998;T|0.002	0.002	strong	.	ZNF217	227	.	NM_006526	exon3	c.G1761A	p.L587L	GCTGCCCAGAACA	.	PASS	Atlas-SNP
KIAA1217	56243	hgsc.bcm.edu	37	10	24813585	24813585	+	Silent	SNP	G	G	A	rs145162894	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	61.0	32.0	63.0	0.0	0.52459	0	G|0.996;A|0.004	0.004	strong	.	KIAA1217	235	.	NM_019590	exon13	c.G2790A	p.S930S	GATGTCGCAGGCT	.	PASS	Atlas-SNP
FFAR4	338557	hgsc.bcm.edu	37	10	95347041	95347041	+	Missense_Mutation	SNP	G	G	A	rs116454156	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	97.0	59.0	112.0	0.0	0.608247	0	G|0.987;A|0.013	0.013	strong	.	.	.	.	NM_181745	exon4	c.G809A	p.R270H	AGATCCGCGTGTC	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126336201	126336201	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	156.0	15.0	137.0	0.0	0.0961538	0	.	.	none	.	FAT4	1752	.	NM_024582	exon5	c.C6083T	p.A2028V	TTCCAGCCTCCAG	.	PASS	Atlas-SNP
ROBO2	6092	hgsc.bcm.edu	37	3	77607099	77607099	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	103.0	32.0	109.0	0.0	0.31068	0	.	.	none	.	ROBO2	527	.	NM_002942	exon9	c.G1236C	p.L412F	AGTTTTGACAGAT	.	PASS	Atlas-SNP
RET	5979	hgsc.bcm.edu	37	10	43615633	43615633	+	Silent	SNP	C	C	G	rs1800863	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	90.0	40.0	102.0	0.0	0.444444	0	C|0.844;G|0.156	0.156	strong	.	RET	916	.	NM_020630	exon15	c.C2712G	p.S904S	GGATTCCTACGTG	.	PASS	Atlas-SNP
DNPH1	10591	hgsc.bcm.edu	37	6	43193877	43193877	+	Silent	SNP	G	G	A	rs7832	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	27.0	6.0	40.0	0.0	0.222222	0	G|0.942;A|0.058	0.058	strong	C6orf108_ENST00000393987,NS,carcinoma,0,2	.	.	2	NM_006443	exon3	c.C270T	p.V90V	TGCCACGACCACT	.	PASS	Atlas-SNP
COL28A1	340267	hgsc.bcm.edu	37	7	7398423	7398423	+	Silent	SNP	C	C	T	rs373840985		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	166.0	40.0	201.0	0.0	0.240964	0	.	.	weak	.	COL28A1	113	.	NM_001037763	exon35	c.G3219A	p.L1073L	GGCTTCCAAACAT	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144859792	144859792	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	151.0	10.0	143.0	0.0	0.0662252	0	.	.	none	.	PDE4DIP	817	.	NM_014644	exon38	c.A6292G	p.T2098A	GGTCAGTGCTGGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515411	195515411	+	Missense_Mutation	SNP	G	G	C	rs55803325	bycluster;byfrequency;alternate_allele	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	72.0	26.0	61.0	0.0	0.361111	0	G|0.993;T|0.007	.	alt	.	MUC4	1505	.	NM_018406	exon2	c.C3040G	p.P1014A	AGGAAGGGCTGGT	.	PASS	Atlas-SNP
MFHAS1	9258	hgsc.bcm.edu	37	8	8748013	8748013	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	53.0	30.0	61.0	0.0	0.566038	0	.	.	none	.	MFHAS1	58	.	NM_004225	exon1	c.C2556G	p.C852W	CACATAGCATGGG	.	PASS	Atlas-SNP
OR56A4	120793	hgsc.bcm.edu	37	11	6024031	6024031	+	Silent	SNP	G	G	A	rs143488149	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	160.0	110.0	132.0	0.0	0.6875	0	G|0.999;A|0.001	0.001	strong	.	OR56A4	66	.	NM_001005179	exon1	c.C348T	p.Y116Y	GAGCAGGTAGTAC	.	PASS	Atlas-SNP
FGFR2	2263	hgsc.bcm.edu	37	10	123239112	123239112	+	Silent	SNP	G	G	A	rs1047057	bycluster;byfrequency;bysubmitter;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	76.0	35.0	95.0	0.0	0.460526	0	G|0.609;A|0.391	0.391	strong	FGFR2_ENST00000357555,NS,carcinoma,0,1	FGFR2	758	1	NM_001144915	exon17	c.C2107T	p.L703L	CAGCCAGTACGCA	.	PASS	Atlas-SNP
PHKG2	5261	hgsc.bcm.edu	37	16	30762886	30762886	+	Silent	SNP	C	C	T	rs56029513	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	672.0	239.0	533.0	1.0	0.355655	0.00187617	C|0.997;T|0.003	0.003	strong	.	PHKG2	29	.	NM_001172432	exon4	c.C288T	p.S96S	CGATTCCTACGAG	.	PASS	Atlas-SNP
SGK1	6446	hgsc.bcm.edu	37	6	134494619	134494619	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	89.0	19.0	105.0	0.0	0.213483	0	.	.	none	.	SGK1	387	.	NM_001143676	exon6	c.G599C	p.G200A	CCCTTTCCGATCA	.	PASS	Atlas-SNP
DFNB59	494513	hgsc.bcm.edu	37	2	179325714	179325714	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	4.0	84.0	0.0	0.056338	0	.	.	none	.	DFNB59	37	.	NM_001042702	exon7	c.A772G	p.R258G	GATAGAAGAGTGA	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138345	37138345	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	63.0	15.0	39.0	0.0	0.238095	0	.	.	none	.	PIM1	71	.	NM_001243186	exon1	c.G267A	p.E89E	CCTGGAGGTTGGG	.	PASS	Atlas-SNP
SGK1	6446	hgsc.bcm.edu	37	6	134494661	134494661	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	70.0	14.0	90.0	0.0	0.2	0	.	.	none	SGK1_ENST00000367858,lymph_node,lymphoid_neoplasm,0,3	SGK1	387	3	NM_001143676	exon6	c.C557G	p.P186R	GCATGAGGATTGG	.	PASS	Atlas-SNP
KDR	3791	hgsc.bcm.edu	37	4	55972946	55972946	+	Missense_Mutation	SNP	A	A	G	rs34231037	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	176.0	89.0	187.0	0.0	0.505682	0	A|0.980;G|0.020	0.020	strong	KDR,middle_lobe,carcinoma,+2,1	KDR	307	1	NM_002253	exon11	c.T1444C	p.C482R	CTTCACAAGGGTA	.	PASS	Atlas-SNP
SLC8A3	6547	hgsc.bcm.edu	37	14	70633998	70633998	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	148.0	40.0	139.0	0.0	0.27027	0	.	.	none	.	SLC8A3	234	.	NM_183002	exon2	c.C1142T	p.S381F	ATGCTGGAGGCCT	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60889385	60889385	+	Missense_Mutation	SNP	G	G	T	rs117480847	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	75.0	36.0	94.0	1.0	0.48	0.0106383	G|0.986;T|0.014	0.014	strong	LAMA5,NS,haematopoietic_neoplasm,0,1	LAMA5	268	1	NM_005560	exon62	c.C8479A	p.Q2827K	CGAACTGCTCCCC	.	scavenged	Atlas-SNP
SEMA6B	10501	hgsc.bcm.edu	37	19	4555084	4555084	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	46.0	17.0	59.0	0.0	0.369565	0	.	.	none	.	SEMA6B	51	.	NM_032108	exon8	c.G586T	p.V196F	CGGTAACAGTAGC	.	PASS	Atlas-SNP
NOTCH1	4851	hgsc.bcm.edu	37	9	139397707	139397707	+	Silent	SNP	G	G	A	rs10521	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	73.0	37.0	85.0	0.0	0.506849	0	G|0.466;A|0.534	0.534	strong	NOTCH1_ENST00000277541,colon,carcinoma,0,19	NOTCH1	1980	19	NM_017617	exon27	c.C5094T	p.D1698D	GGCCACGTCGGTG	.	PASS	Atlas-SNP
NAV2	89797	hgsc.bcm.edu	37	11	20124807	20124807	+	Missense_Mutation	SNP	C	C	T	rs34329467	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	75.0	20.0	114.0	0.0	0.266667	0	C|0.997;T|0.003	0.003	strong	.	NAV2	255	.	NM_001244963	exon35	c.C6601T	p.R2201C	GAATTGCGCCAGT	.	PASS	Atlas-SNP
TRIM50	135892	hgsc.bcm.edu	37	7	72732848	72732848	+	Silent	SNP	G	G	T	rs201525569		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	457.0	32.0	463.0	0.0	0.0700219	0	G|0.999;T|0.001	0.001	weak	.	TRIM50	78	.	NM_178125	exon4	c.C699A	p.G233G	CTCATTGCCGAAC	.	PASS	Atlas-SNP
SLC30A3	7781	hgsc.bcm.edu	37	2	27481661	27481661	+	Silent	SNP	G	G	A	rs41288821	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	91.0	62.0	84.0	0.0	0.681319	0	G|0.993;A|0.007	0.007	strong	.	SLC30A3	39	.	NM_003459	exon2	c.C237T	p.A79A	GGCACAGGCAGCA	.	PASS	Atlas-SNP
IWS1	55677	hgsc.bcm.edu	37	2	128244216	128244216	+	Silent	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	142.0	29.0	121.0	0.0	0.204225	0	.	.	none	.	IWS1	61	.	NM_017969	exon13	c.A2241G	p.G747G	ACAGAATCCAGGA	.	PASS	Atlas-SNP
GLRB	2743	hgsc.bcm.edu	37	4	158060077	158060077	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	124.0	20.0	139.0	0.0	0.16129	0	.	.	none	GLRB,caecum,carcinoma,-2,1	GLRB	74	1	NM_000824	exon7	c.T727A	p.C243S	GGTAACTGTACAA	.	PASS	Atlas-SNP
DHX33	56919	hgsc.bcm.edu	37	17	5347788	5347788	+	Missense_Mutation	SNP	G	G	A	rs75426953	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	96.0	54.0	119.0	1.0	0.5625	0.00840336	A|0.014;C|0.000;G|0.986	0.014	strong	DHX33,NS,carcinoma,0,1	DHX33	41	1	NM_020162	exon12	c.C1861T	p.R621C	AGCGGCGGACACT	.	scavenged	Atlas-SNP
FCHSD1	89848	hgsc.bcm.edu	37	5	141026182	141026182	+	Missense_Mutation	SNP	G	G	T	rs3749760	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	63.0	32.0	88.0	0.0	0.507937	0	G|0.981;T|0.019	0.019	strong	.	FCHSD1	51	.	NM_033449	exon11	c.C1032A	p.N344K	CCCATGGTTCTGG	.	PASS	Atlas-SNP
DIRAS1	148252	hgsc.bcm.edu	37	19	2717513	2717513	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	21.0	84.0	0.0	0.295775	0	.	.	none	.	DIRAS1	26	.	NM_145173	exon2	c.G292C	p.G98R	TGGGCCCCAGCTC	.	PASS	Atlas-SNP
USP40	55230	hgsc.bcm.edu	37	2	234442134	234442134	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	125.0	32.0	128.0	0.0	0.256	0	.	.	none	.	USP40	174	.	NM_018218	exon10	c.C1495G	p.P499A	CAGGGGGTCTCTG	.	PASS	Atlas-SNP
STAG2	10735	hgsc.bcm.edu	37	X	123176493	123176493	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	257.0	68.0	446.0	1.0	0.264591	0.00224215	.	.	none	.	STAG2	309	.	NM_001042749	exon7	c.G460A	p.E154K	TTCGATGAGGTAA	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126336347	126336347	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	108.0	8.0	127.0	0.0	0.0740741	0	.	.	none	.	FAT4	1752	.	NM_024582	exon5	c.C6229A	p.P2077T	ACTGACCCAGATA	.	PASS	Atlas-SNP
RAPGEF5	9771	hgsc.bcm.edu	37	7	22233635	22233635	+	Missense_Mutation	SNP	G	G	A	rs375862364		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	77.0	12.0	103.0	0.0	0.155844	0	.	.	weak	.	RAPGEF5	96	.	NM_012294	exon10	c.C554T	p.T185M	ACAGTCGTCACTT	.	PASS	Atlas-SNP
DOCK5	80005	hgsc.bcm.edu	37	8	25220581	25220581	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	84.0	47.0	120.0	0.0	0.559524	0	.	.	none	.	DOCK5	167	.	NM_024940	exon29	c.T2968A	p.F990I	GAAACTTTTATCA	.	PASS	Atlas-SNP
AIRE	326	hgsc.bcm.edu	37	21	45712983	45712983	+	Silent	SNP	T	T	C	rs61737072	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	63.0	24.0	40.0	0.0	0.380952	0	T|0.951;C|0.049	0.049	strong	.	AIRE	61	.	NM_000383	exon10	c.T1203C	p.P401P	TCCGCCTTCTGCA	.	PASS	Atlas-SNP
ENDOG	2021	hgsc.bcm.edu	37	9	131584729	131584729	+	Missense_Mutation	SNP	G	G	T	rs61737988	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	143.0	74.0	147.0	0.0	0.517483	0	G|0.998;T|0.002	0.002	strong	.	ENDOG	8	.	NM_004435	exon3	c.G734T	p.R245L	AGCTCCGCACCTA	.	PASS	Atlas-SNP
SMIM11	54065	hgsc.bcm.edu	37	21	35757787	35757787	+	Silent	SNP	C	C	T	rs61747964	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	290.0	107.0	307.0	0.0	0.368966	0	C|0.971;T|0.029	0.029	strong	.	.	.	.	NM_058182	exon3	c.C24T	p.H8H	TGAGCACGTGCCC	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100676968	100676968	+	Silent	SNP	G	G	A	rs138994021	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	58.0	29.0	48.0	0.0	0.5	0	G|0.991;A|0.009	0.009	strong	.	MUC17	804	.	NM_001040105	exon3	c.G2271A	p.T757T	CAAAACGCTGTTG	.	PASS	Atlas-SNP
CAB39L	81617	hgsc.bcm.edu	37	13	49956980	49956980	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	254.0	63.0	225.0	0.0	0.248031	0	.	.	none	.	CAB39L	35	.	NM_030925	exon2	c.G67T	p.D23Y	AATTGTCTTTCAG	.	PASS	Atlas-SNP
TUB	7275	hgsc.bcm.edu	37	11	8122143	8122143	+	Missense_Mutation	SNP	C	C	T	rs139170512	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	79.0	55.0	81.0	0.0	0.696203	0	C|1.000;T|0.000	0.000	weak	TUB,NS,carcinoma,-1,1	TUB	71	1	NM_003320	exon11	c.C1375T	p.R459C	CGCCCCCGCAACG	.	PASS	Atlas-SNP
ZNF285	26974	hgsc.bcm.edu	37	19	44890651	44890651	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	87.0	18.0	89.0	0.0	0.206897	0	.	.	none	.	ZNF285	86	.	NM_152354	exon4	c.C1756T	p.Q586X	CTCTCTGCTCATG	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179482633	179482633	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	276.0	76.0	323.0	0.0	0.275362	0	.	.	none	.	TTN	18412	.	NM_001267550	exon253	c.C47445A	p.D15815E	AGACAGGTCTTCA	.	PASS	Atlas-SNP
ADAM32	203102	hgsc.bcm.edu	37	8	39044565	39044565	+	Splice_Site	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	38.0	18.0	44.0	0.0	0.473684	0	.	.	none	.	ADAM32	70	.	NM_145004	exon11	c.1052+1G>A	.	AGTTGTGTAAGTT	.	PASS	Atlas-SNP
SPATA18	132671	hgsc.bcm.edu	37	4	52946016	52946016	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	191.0	45.0	227.0	0.0	0.235602	0	.	.	none	.	SPATA18	222	.	NM_145263	exon9	c.C1286A	p.A429E	CCTTTGCAATGCA	.	PASS	Atlas-SNP
ULK2	9706	hgsc.bcm.edu	37	17	19720109	19720109	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	113.0	17.0	161.0	0.0	0.150442	0	.	.	none	.	ULK2	142	.	NM_001142610	exon13	c.C1049T	p.T350M	TCATCCGTGTCAC	.	PASS	Atlas-SNP
MYH14	79784	hgsc.bcm.edu	37	19	50812315	50812315	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	196.0	98.0	187.0	0.0	0.5	0	.	.	none	.	MYH14	261	.	NM_001145809	exon42	c.C5841T	p.A1947A	GGAGGCCGAGGAG	.	PASS	Atlas-SNP
XDH	7498	hgsc.bcm.edu	37	2	31588395	31588395	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	135.0	45.0	140.0	0.0	0.333333	0	.	.	none	.	XDH	191	.	NM_000379	exon23	c.G2472A	p.V824V	GCATCGCACAGGG	.	PASS	Atlas-SNP
LTB	4050	hgsc.bcm.edu	37	6	31549364	31549364	+	Missense_Mutation	SNP	G	G	A	rs4647186	bycluster;alternate_allele	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	92.0	31.0	144.0	0.0	0.336957	0	G|0.994;C|0.006	.	alt	LTB,NS,lymphoid_neoplasm,0,1	LTB	19	1	NM_009588	exon2	c.C206T	p.A69V	CCCGGGGCTGAGA	.	PASS	Atlas-SNP
HAP1	9001	hgsc.bcm.edu	37	17	39888636	39888636	+	Missense_Mutation	SNP	G	G	T	rs142535684	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	93.0	43.0	68.0	0.0	0.462366	0	G|0.998;T|0.002	0.002	strong	.	HAP1	48	.	NM_001079870	exon3	c.C584A	p.P195H	CAGACAGGTGGGA	.	PASS	Atlas-SNP
ZNF169	169841	hgsc.bcm.edu	37	9	97062852	97062852	+	Missense_Mutation	SNP	A	A	T	rs61154129	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	37.0	24.0	47.0	0.0	0.648649	0	A|0.985;T|0.015	0.015	strong	.	ZNF169	60	.	NM_194320	exon5	c.A1012T	p.R338W	CACCAGAGGACGC	.	PASS	Atlas-SNP
EPS15	2060	hgsc.bcm.edu	37	1	51869184	51869184	+	Silent	SNP	T	T	G	rs144030750	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	203.0	104.0	242.0	0.0	0.512315	0	T|0.999;G|0.001	0.001	strong	.	EPS15	72	.	NM_001981	exon17	c.A1698C	p.L566L	AGGCAGTAGTTCA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515412	195515412	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	72.0	26.0	61.0	0.0	0.361111	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,-2,2	MUC4	1505	2	NM_018406	exon2	c.C3039T	p.S1013S	GGAAGGGCTGGTG	.	PASS	Atlas-SNP
VWA3B	200403	hgsc.bcm.edu	37	2	98928323	98928323	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	202.0	53.0	219.0	0.0	0.262376	0	.	.	none	.	VWA3B	138	.	NM_144992	exon27	c.C3563T	p.P1188L	TCTGGCCACTGAA	.	PASS	Atlas-SNP
NANOS2	339345	hgsc.bcm.edu	37	19	46417625	46417625	+	Silent	SNP	A	A	G	rs142962668	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	78.0	40.0	106.0	0.0	0.512821	0	A|0.993;G|0.007	0.007	strong	.	NANOS2	10	.	NM_001029861	exon1	c.T327C	p.H109H	GAGCGTATGGGCC	.	PASS	Atlas-SNP
TSC22D1	8848	hgsc.bcm.edu	37	13	45147305	45147305	+	Missense_Mutation	SNP	T	T	A	rs144252895	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	90.0	47.0	91.0	0.0	0.522222	0	T|0.998;A|0.002	0.002	strong	.	TSC22D1	88	.	NM_183422	exon1	c.A2906T	p.D969V	CTCTCATCCTCGC	.	PASS	Atlas-SNP
PVRL2	5819	hgsc.bcm.edu	37	19	45391553	45391553	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	198.0	114.0	185.0	0.0	0.575758	0	.	.	none	.	PVRL2	58	.	NM_001042724	exon9	c.A1534G	p.I512V	AACCCCATCTATG	.	PASS	Atlas-SNP
KIAA0368	23392	hgsc.bcm.edu	37	9	114172438	114172438	+	Silent	SNP	C	C	T	rs61744546	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	159.0	63.0	212.0	0.0	0.396226	0	C|0.993;T|0.007	0.007	strong	.	KIAA0368	144	.	NM_001080398	exon24	c.G2967A	p.L989L	TTCACCCAGGGCT	.	PASS	Atlas-SNP
FOXO1	2308	hgsc.bcm.edu	37	13	41134629	41134629	+	Silent	SNP	G	G	A	rs139436481	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	157.0	81.0	173.0	0.0	0.515924	0	G|0.996;A|0.004	0.004	strong	.	FOXO1	110	.	NM_002015	exon2	c.C999T	p.T333T	CTGTTCGGTCATA	.	PASS	Atlas-SNP
CRIPAK	285464	hgsc.bcm.edu	37	4	1388944	1388944	+	Missense_Mutation	SNP	G	G	A	rs200759023	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	12.0	12.0	61.0	0.0	1	0	.	.	weak	.	CRIPAK	185	.	NM_175918	exon1	c.G645A	p.M215I	GCCCATGTGGAGT	.	PASS	Atlas-SNP
SYMPK	8189	hgsc.bcm.edu	37	19	46329624	46329624	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	53.0	31.0	64.0	0.0	0.584906	0	.	.	none	.	SYMPK	104	.	NM_004819	exon17	c.C2189T	p.S730F	GCCTGGGAGCGCA	.	PASS	Atlas-SNP
TLN2	83660	hgsc.bcm.edu	37	15	62939591	62939591	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	110.0	7.0	102.0	0.0	0.0636364	0	.	.	none	.	TLN2	253	.	NM_015059	exon1	c.T82C	p.Y28H	GCTGTGTACGATG	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103384712	103384712	+	Missense_Mutation	SNP	G	G	A	rs17507827	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	190.0	95.0	207.0	1.0	0.5	0.00483092	G|0.983;A|0.017	0.017	strong	.	.	.	.	NM_001146197	exon4	c.C18335T	p.T6112M	CGCCCCGTGATAT	.	PASS	Atlas-SNP
NUP214	8021	hgsc.bcm.edu	37	9	134073622	134073622	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	106.0	30.0	98.0	0.0	0.283019	0	.	.	none	.	NUP214	166	.	NM_005085	exon29	c.G4741C	p.A1581P	ACGGAGGCAGTAC	.	PASS	Atlas-SNP
GRAMD1A	57655	hgsc.bcm.edu	37	19	35504539	35504539	+	Missense_Mutation	SNP	C	C	T	rs201394899	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	101.0	57.0	92.0	0.0	0.564356	0	.	.	weak	.	GRAMD1A	39	.	NM_020895	exon9	c.C814T	p.R272C	GGTTCGCGCCGTG	.	PASS	Atlas-SNP
RBP3	5949	hgsc.bcm.edu	37	10	48388508	48388508	+	Silent	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	144.0	60.0	153.0	0.0	0.416667	0	.	.	none	.	RBP3	152	.	NM_002900	exon1	c.C2370G	p.S790S	GGCCGTGGAGTAG	.	PASS	Atlas-SNP
NOTCH1	4851	hgsc.bcm.edu	37	9	139413908	139413908	+	Silent	SNP	C	C	T	rs2229975	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	85.0	38.0	97.0	0.0	0.447059	0	T|0.113;G|0.000;C|0.886	0.113	strong	.	NOTCH1	1980	.	NM_017617	exon5	c.G852A	p.P284P	CTCTGGCGGGCAG	.	PASS	Atlas-SNP
HIST1H2AM	8336	hgsc.bcm.edu	37	6	27860579	27860579	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	181.0	41.0	214.0	0.0	0.226519	0	.	.	none	.	HIST1H2AM	27	.	NM_003514	exon1	c.C349T	p.L117F	TGGGGAGCAGTAC	.	PASS	Atlas-SNP
RTL1	388015	hgsc.bcm.edu	37	14	101350274	101350274	+	Silent	SNP	C	C	T	rs61993320	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	49.0	22.0	69.0	0.0	0.44898	0	C|0.983;T|0.017	0.017	strong	.	RTL1	120	.	NM_001134888	exon1	c.G852A	p.L284L	CACACGCAGTGCC	.	PASS	Atlas-SNP
ZFP106	64397	hgsc.bcm.edu	37	15	42743209	42743209	+	Missense_Mutation	SNP	G	G	A	rs201738274	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	187.0	37.0	158.0	0.0	0.197861	0	G|0.999;A|0.001	0.001	weak	.	ZFP106	117	.	NM_022473	exon2	c.C1192T	p.R398C	AATTACGTGTTTC	.	PASS	Atlas-SNP
EXOC3L1	283849	hgsc.bcm.edu	37	16	67221737	67221737	+	Missense_Mutation	SNP	G	G	A	rs149684674	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	83.0	45.0	73.0	0.0	0.542169	0	G|0.999;A|0.001	0.001	strong	LOC283849,caecum,carcinoma,0,2	EXOC3L1	52	2	NM_178516	exon5	c.C431T	p.P144L	GCAGCCGGCACTA	.	PASS	Atlas-SNP
DPP4	1803	hgsc.bcm.edu	37	2	162876789	162876789	+	Silent	SNP	T	T	C	rs200990780		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	73.0	35.0	85.0	0.0	0.479452	0	.	.	weak	.	DPP4	90	.	NM_001935	exon14	c.A1194G	p.T398T	GCCTTTTGTAATA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506661	195506661	+	Silent	SNP	G	G	C	rs143659849	by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	95.0	89.0	203.0	0.0	0.936842	0	G|0.964;C|0.036	0.036	strong	.	MUC4	1505	.	NM_018406	exon2	c.C11790G	p.S3930S	TCCTGTGGATGCC	.	PASS	Atlas-SNP
GANAB	23193	hgsc.bcm.edu	37	11	62397114	62397114	+	Missense_Mutation	SNP	T	T	C	rs76572368	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	151.0	29.0	193.0	0.0	0.192053	0	T|0.974;C|0.026	0.026	strong	.	GANAB	110	.	NM_198335	exon16	c.A1846G	p.M616V	GTTCCATGCCCCC	.	PASS	Atlas-SNP
USP35	57558	hgsc.bcm.edu	37	11	77911745	77911745	+	Missense_Mutation	SNP	C	C	T	rs147270370	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	100.0	20.0	109.0	0.0	0.2	0	C|0.996;T|0.004	0.004	strong	USP35_ENST00000263311,rectum,carcinoma,-1,2	USP35	179	2	NM_020798	exon6	c.C1088T	p.S363L	AGGACTCGAACTC	.	PASS	Atlas-SNP
FAM171A1	221061	hgsc.bcm.edu	37	10	15256440	15256440	+	Missense_Mutation	SNP	C	C	T	rs150647132	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	73.0	34.0	71.0	0.0	0.465753	0	C|0.999;T|0.001	0.001	strong	.	FAM171A1	252	.	NM_001010924	exon8	c.G1147A	p.G383S	GGCGGCCGTGGCT	.	PASS	Atlas-SNP
TRIM6-TRIM34	445372	hgsc.bcm.edu	37	11	5653866	5653866	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	90.0	49.0	107.0	0.0	0.544444	0	.	.	none	.	TRIM6-TRIM34	68	.	NM_001003819	exon8	c.A1367G	p.E456G	ATGGAGAGAAACT	.	PASS	Atlas-SNP
EXOSC8	11340	hgsc.bcm.edu	37	13	37577073	37577073	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	120.0	5.0	153.0	0.0	0.0416667	0	.	.	none	.	EXOSC8	16	.	NM_181503	exon4	c.T121C	p.S41P	TCAGGTTCAATTA	.	PASS	Atlas-SNP
MCCD1	401250	hgsc.bcm.edu	37	6	31496834	31496834	+	Missense_Mutation	SNP	C	C	T	rs146742941	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	46.0	25.0	68.0	0.0	0.543478	0	C|1.000;T|0.000	0.000	strong	MCCD1,NS,carcinoma,-1,1	MCCD1	3	1	NM_001011700	exon1	c.C43T	p.R15C	TTCCTTCGCCTCC	.	PASS	Atlas-SNP
GNAT3	346562	hgsc.bcm.edu	37	7	80117993	80117993	+	Splice_Site	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	61.0	13.0	76.0	0.0	0.213115	0	.	.	none	.	GNAT3	65	.	NM_001102386	exon4	c.162-1G>T	.	ATGATCCTATAAT	.	PASS	Atlas-SNP
PLXNA4	91584	hgsc.bcm.edu	37	7	131883311	131883311	+	Missense_Mutation	SNP	C	C	T	rs62622406	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	45.0	21.0	42.0	0.0	0.466667	0	C|0.991;T|0.009	0.009	strong	.	PLXNA4	873	.	NM_020911	exon13	c.G2671A	p.A891T	GGGAGGCGATGTC	.	PASS	Atlas-SNP
VPS52	6293	hgsc.bcm.edu	37	6	33236826	33236826	+	Silent	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	156.0	64.0	165.0	0.0	0.410256	0	.	.	none	.	VPS52	56	.	NM_022553	exon6	c.T513C	p.L171L	ATCAACAAGCTCC	.	PASS	Atlas-SNP
TH	7054	hgsc.bcm.edu	37	11	2191006	2191006	+	Silent	SNP	C	C	T	rs34510659	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	107.0	90.0	75.0	0.0	0.841121	0	C|0.971;T|0.029	0.029	strong	.	TH	43	.	NM_199292	exon3	c.G279A	p.S93S	GGGCTCCGAGGGG	.	PASS	Atlas-SNP
ANKRD18B	441459	hgsc.bcm.edu	37	9	33548043	33548043	+	Silent	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	106.0	21.0	115.0	0.0	0.198113	0	.	.	none	.	ANKRD18B	46	.	NM_001244752	exon9	c.T1068C	p.S356S	TGACAGTCTCAGA	.	PASS	Atlas-SNP
KIAA0368	23392	hgsc.bcm.edu	37	9	114124354	114124354	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	128.0	28.0	161.0	0.0	0.21875	0	.	.	none	.	KIAA0368	144	.	NM_001080398	exon51	c.G6010T	p.E2004X	CTTTCTCCTGCAG	.	PASS	Atlas-SNP
DNAJC9	23234	hgsc.bcm.edu	37	10	75006868	75006868	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	88.0	42.0	79.0	0.0	0.477273	0	.	.	none	.	DNAJC9	19	.	NM_015190	exon1	c.C80T	p.S27F	CCGTCGGAGGCCT	.	PASS	Atlas-SNP
MAML1	9794	hgsc.bcm.edu	37	5	179201226	179201226	+	Missense_Mutation	SNP	A	A	C	rs148053500	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	39.0	25.0	46.0	0.0	0.641026	0	A|0.997;C|0.003	0.003	strong	.	MAML1	118	.	NM_014757	exon5	c.A2399C	p.N800T	GGCAGAACTCTCT	.	PASS	Atlas-SNP
BIN2	51411	hgsc.bcm.edu	37	12	51695839	51695839	+	Missense_Mutation	SNP	T	T	C	rs143984628	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	151.0	74.0	172.0	0.0	0.490066	0	T|1.000;C|0.000	0.000	strong	.	BIN2	58	.	NM_016293	exon5	c.A373G	p.M125V	TTTCCATGGTCCT	.	PASS	Atlas-SNP
SRP72	6731	hgsc.bcm.edu	37	4	57367891	57367891	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	198.0	43.0	243.0	0.0	0.217172	0	.	.	none	.	SRP72	59	.	NM_006947	exon19	c.G1880T	p.R627I	CCCCAAGACCTGG	.	PASS	Atlas-SNP
CD96	10225	hgsc.bcm.edu	37	3	111286403	111286403	+	Missense_Mutation	SNP	T	T	C	rs147832650	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	72.0	43.0	92.0	0.0	0.597222	0	T|1.000;C|0.000	0.000	strong	.	CD96	75	.	NM_005816	exon3	c.T452C	p.I151T	ATACGATAGAAAT	.	PASS	Atlas-SNP
FARSA	2193	hgsc.bcm.edu	37	19	13041558	13041558	+	Silent	SNP	G	G	A	rs373756496		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	14.0	9.0	23.0	0.0	0.642857	0	.	.	weak	.	FARSA	46	.	NM_004461	exon2	c.C153T	p.I51I	AGCCTCGATGACC	.	PASS	Atlas-SNP
WNK3	65267	hgsc.bcm.edu	37	X	54265469	54265469	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	50.0	34.0	63.0	0.0	0.68	0	.	.	none	.	WNK3	218	.	NM_001002838	exon18	c.G3715A	p.G1239S	CTCCACCGCTTGA	.	PASS	Atlas-SNP
OXGR1	27199	hgsc.bcm.edu	37	13	97639827	97639827	+	Silent	SNP	T	T	G	rs9300380	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	145.0	71.0	173.0	0.0	0.489655	0	T|0.939;G|0.061	0.061	strong	.	OXGR1	46	.	NM_080818	exon4	c.A187C	p.R63R	AAGGTCTCATTTT	.	PASS	Atlas-SNP
SMIM11	54065	hgsc.bcm.edu	37	21	35757915	35757915	+	Missense_Mutation	SNP	A	A	G	rs34016792	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	119.0	49.0	120.0	0.0	0.411765	0	A|0.979;G|0.021	0.021	strong	.	.	.	.	NM_058182	exon3	c.A152G	p.K51R	GGAAGAAGCAATC	.	PASS	Atlas-SNP
CCDC67	159989	hgsc.bcm.edu	37	11	93141575	93141575	+	Missense_Mutation	SNP	T	T	C	rs371785641		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	84.0	19.0	110.0	1.0	0.22619	0.00909091	.	.	weak	CCDC67,NS,carcinoma,+1,1	CCDC67	57	1	NM_181645	exon12	c.T1505C	p.V502A	TAAAAGTGGAACA	.	scavenged	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138412	37138412	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	39.0	11.0	18.0	0.0	0.282051	0	.	.	none	.	PIM1	71	.	NM_001243186	exon1	c.C334A	p.H112N	GACCTGCACGCCA	.	PASS	Atlas-SNP
HOMEZ	57594	hgsc.bcm.edu	37	14	23746340	23746340	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	63.0	29.0	71.0	0.0	0.460317	0	.	.	none	.	HOMEZ	80	.	NM_020834	exon2	c.G97A	p.G33S	TGAGACCGCTGGC	.	PASS	Atlas-SNP
HIVEP1	3096	hgsc.bcm.edu	37	6	12124257	12124257	+	Missense_Mutation	SNP	C	C	G	rs372404420		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	97.0	36.0	104.0	0.0	0.371134	0	.	.	weak	.	HIVEP1	242	.	NM_002114	exon4	c.C4229G	p.P1410R	CTTCACCTTCTCG	.	PASS	Atlas-SNP
ANKRD13A	88455	hgsc.bcm.edu	37	12	110449872	110449872	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	72.0	15.0	101.0	0.0	0.208333	0	.	.	none	.	ANKRD13A	39	.	NM_033121	exon2	c.T159A	p.H53Q	GGGACATTTGGAA	.	PASS	Atlas-SNP
ALOX15	246	hgsc.bcm.edu	37	17	4535314	4535314	+	Missense_Mutation	SNP	G	G	A	rs34210653	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	63.0	32.0	61.0	0.0	0.507937	0	G|0.988;A|0.012	0.012	strong	.	ALOX15	70	.	NM_001140	exon13	c.C1679T	p.T560M	CGCATCGTGCAGG	.	PASS	Atlas-SNP
PCDHA10	56139	hgsc.bcm.edu	37	5	140235875	140235875	+	Missense_Mutation	SNP	G	G	A	rs143002904	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	31.0	31.0	91.0	0.0	1	0	G|0.995;A|0.005	0.005	strong	.	PCDHA10	358	.	NM_031859	exon1	c.G242A	p.G81D	AGAATGGCATTTT	.	PASS	Atlas-SNP
TMEM97	27346	hgsc.bcm.edu	37	17	26646320	26646320	+	Missense_Mutation	SNP	C	C	G	rs202198126	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	196.0	88.0	210.0	0.0	0.44898	0	C|0.999;G|0.001	0.001	weak	.	TMEM97	27	.	NM_014573	exon1	c.C55G	p.L19V	TACTTCCTCAGCC	.	PASS	Atlas-SNP
STAT6	6778	hgsc.bcm.edu	37	12	57496654	57496654	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	120.0	14.0	114.0	0.0	0.116667	0	.	.	none	.	STAT6	69	.	NM_001178079	exon12	c.T1263A	p.N421K	TTTGGCATTGTTG	.	PASS	Atlas-SNP
CNOT4	4850	hgsc.bcm.edu	37	7	135047811	135047811	+	Missense_Mutation	SNP	G	G	C	rs200460078	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	139.0	75.0	110.0	0.0	0.539568	0	G|0.998;C|0.002	0.002	strong	CNOT4_ENST00000541284,NS,carcinoma,0,3	CNOT4	146	3	NM_001190850	exon12	c.C1968G	p.H656Q	GGCGCTGTGGTGG	.	PASS	Atlas-SNP
HN1	51155	hgsc.bcm.edu	37	17	73143748	73143748	+	Missense_Mutation	SNP	C	C	G	rs200749518		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	24.0	14.0	34.0	0.0	0.583333	0	C|0.999;G|0.001	0.001	weak	.	HN1	17	.	NM_016185	exon3	c.G200C	p.G67A	TTGGCACCTAAAA	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29911213	29911213	+	Nonsense_Mutation	SNP	G	G	A	rs199474545	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	132.0	32.0	293.0	0.0	0.242424	0	.	.	weak	.	HLA-A	89	.	NM_001242758	exon3	c.G512A	p.W171X	GCAAGTGGGAGGC	.	PASS	Atlas-SNP
PDCD2L	84306	hgsc.bcm.edu	37	19	34895647	34895647	+	Missense_Mutation	SNP	G	G	A	rs141960904	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	76.0	37.0	68.0	0.0	0.486842	0	G|0.998;A|0.002	0.002	strong	.	PDCD2L	27	.	NM_032346	exon2	c.G202A	p.G68S	CTGGAAGGCTCCC	.	PASS	Atlas-SNP
RET	5979	hgsc.bcm.edu	37	10	43610119	43610119	+	Missense_Mutation	SNP	G	G	A	rs1799939	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	46.0	20.0	75.0	1.0	0.434783	0.0133333	G|0.839;A|0.161	0.161	strong	RET_ENST00000340058,adrenal_gland,pheochromocytoma,0,2	RET	916	2	NM_020630	exon11	c.G2071A	p.G691S	TCTTCCGGTGCCC	.	scavenged	Atlas-SNP
ZC3HC1	51530	hgsc.bcm.edu	37	7	129664301	129664301	+	Silent	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	95.0	22.0	83.0	0.0	0.231579	0	.	.	none	.	ZC3HC1	45	.	NM_016478	exon7	c.A822G	p.Q274Q	CATACATTGCGAA	.	PASS	Atlas-SNP
CYP4V2	285440	hgsc.bcm.edu	37	4	187118114	187118114	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	55.0	16.0	66.0	0.0	0.290909	0	.	.	none	.	CYP4V2	49	.	NM_207352	exon4	c.C434T	p.S145F	GGCGCTCCAGGAG	.	PASS	Atlas-SNP
CBS	875	hgsc.bcm.edu	37	21	44488631	44488631	+	Missense_Mutation	SNP	T	T	G	rs34040148	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	137.0	51.0	101.0	0.0	0.372263	0	T|0.985;G|0.015	0.015	strong	.	CBS	85	.	NM_000071	exon4	c.A304C	p.K102Q	CACACTTCAGGCC	.	PASS	Atlas-SNP
TMEM71	137835	hgsc.bcm.edu	37	8	133764112	133764112	+	Missense_Mutation	SNP	T	T	C	rs117725783	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	145.0	27.0	161.0	0.0	0.186207	0	T|0.988;C|0.012	0.012	strong	.	TMEM71	55	.	NM_144649	exon4	c.A233G	p.D78G	AAGCTGTCTTCAG	.	PASS	Atlas-SNP
ZNF354C	30832	hgsc.bcm.edu	37	5	178506075	178506075	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	16.0	62.0	0.0	0.225352	0	.	.	none	.	ZNF354C	77	.	NM_014594	exon5	c.A642T	p.K214N	AGGAAAACCTCAC	.	PASS	Atlas-SNP
ZNF563	147837	hgsc.bcm.edu	37	19	12429509	12429509	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	46.0	3.0	72.0	0.0	0.0652174	0	.	.	none	ZNF563,colon,carcinoma,+2,1	ZNF563	77	1	NM_145276	exon4	c.A1330G	p.T444A	CTCCCGTATGCAT	.	scavenged	Atlas-SNP
ZNF695	57116	hgsc.bcm.edu	37	1	247162688	247162688	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	107.0	29.0	124.0	0.0	0.271028	0	.	.	none	.	ZNF695	55	.	NM_001204221	exon3	c.C221A	p.P74H	TTCCAGGGCTCTT	.	PASS	Atlas-SNP
FRG1	2483	hgsc.bcm.edu	37	4	190876283	190876283	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	162.0	9.0	136.0	0.0	0.0555556	0	.	.	none	.	FRG1	76	.	NM_004477	exon5	c.C409A	p.Q137K	AGAGAACAATGGG	.	PASS	Atlas-SNP
TSC22D1	8848	hgsc.bcm.edu	37	13	45148708	45148708	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	142.0	6.0	143.0	2.0	0.0422535	0.013986	.	.	none	TSC22D1,NS,carcinoma,0,4	TSC22D1	88	4	NM_183422	exon1	c.G1503A	p.Q501Q	TTGTTGCTGCTGC	.	scavenged	Atlas-SNP
ZNF560	147741	hgsc.bcm.edu	37	19	9580305	9580305	+	Splice_Site	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	89.0	4.0	80.0	0.0	0.0449438	0	.	.	none	.	ZNF560	162	.	NM_152476	exon9	c.529+1G>A	.	CACTCACCTTGGA	.	PASS	Atlas-SNP
WNK2	65268	hgsc.bcm.edu	37	9	96024182	96024182	+	Silent	SNP	G	G	C	rs12000967	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	76.0	36.0	52.0	0.0	0.473684	0	G|0.836;C|0.164	0.164	strong	.	WNK2	277	.	NM_006648	exon12	c.G3153C	p.S1051S	CCTCTCGCCGCCT	.	PASS	Atlas-SNP
HPSE	10855	hgsc.bcm.edu	37	4	84222157	84222157	+	Missense_Mutation	SNP	A	A	C	rs145560091	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	133.0	56.0	120.0	0.0	0.421053	0	A|0.999;C|0.001	0.001	strong	.	HPSE	55	.	NM_001098540	exon11	c.T1428G	p.D476E	GTATTTATCCACT	.	PASS	Atlas-SNP
MYOZ1	58529	hgsc.bcm.edu	37	10	75394457	75394457	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	80.0	29.0	101.0	0.0	0.3625	0	.	.	none	.	MYOZ1	24	.	NM_021245	exon4	c.G287T	p.G96V	AGCTGTCCCCCCA	.	PASS	Atlas-SNP
MTTP	4547	hgsc.bcm.edu	37	4	100518224	100518224	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	33.0	11.0	35.0	0.0	0.333333	0	.	.	none	.	MTTP	127	.	NM_000253	exon9	c.C910T	p.L304F	TTGCAGCTCTCGG	.	PASS	Atlas-SNP
CHD8	57680	hgsc.bcm.edu	37	14	21868678	21868678	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	54.0	15.0	70.0	0.0	0.277778	0	.	.	none	.	CHD8	339	.	NM_001170629	exon22	c.G4464A	p.V1488V	ACAGTACACGAGA	.	PASS	Atlas-SNP
HERC4	26091	hgsc.bcm.edu	37	10	69695974	69695974	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	62.0	15.0	68.0	0.0	0.241935	0	.	.	none	.	HERC4	78	.	NM_022079	exon23	c.G2614A	p.G872S	TTGCACCAAAGTT	.	PASS	Atlas-SNP
DST	667	hgsc.bcm.edu	37	6	56420158	56420158	+	Missense_Mutation	SNP	C	C	T	rs62621210	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	145.0	72.0	149.0	0.0	0.496552	0	C|0.959;T|0.041	0.041	strong	.	DST	1427	.	NM_015548	exon41	c.G7252A	p.V2418I	GTTCAACATCCTT	.	PASS	Atlas-SNP
SENP5	205564	hgsc.bcm.edu	37	3	196612959	196612959	+	Missense_Mutation	SNP	C	C	T	rs151102982	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	55.0	21.0	69.0	0.0	0.381818	0	C|0.993;T|0.007	0.007	strong	.	SENP5	68	.	NM_152699	exon2	c.C907T	p.H303Y	TGTCGGCATCAGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506303	195506303	+	Missense_Mutation	SNP	G	G	T	rs192584273	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	136.0	102.0	160.0	0.0	0.75	0	G|0.925;T|0.075	0.075	strong	MUC4_ENST00000463781,NS,carcinoma,0,4	MUC4	1505	4	NM_018406	exon2	c.C12148A	p.P4050T	TGACAGGAAGAGG	.	PASS	Atlas-SNP
MAP2K2	5605	hgsc.bcm.edu	37	19	4117483	4117483	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	89.0	38.0	79.0	0.0	0.426966	0	.	.	none	.	MAP2K2	72	.	NM_030662	exon2	c.C237T	p.G79G	GCCCGCGCCCAGC	.	PASS	Atlas-SNP
PLXNB2	23654	hgsc.bcm.edu	37	22	50726134	50726134	+	Missense_Mutation	SNP	C	C	T	rs375580670		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	37.0	11.0	21.0	0.0	0.297297	0	.	.	weak	.	PLXNB2	172	.	NM_012401	exon7	c.G1570A	p.A524T	GCTGGGCGCTGGT	.	PASS	Atlas-SNP
POM121C	100101267	hgsc.bcm.edu	37	7	75050958	75050958	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	409.0	125.0	397.0	1.0	0.305623	0.00251889	.	.	none	.	POM121C	46	.	NM_001099415	exon13	c.C2577T	p.S859S	GGTGGCGCTGGAG	.	PASS	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	37	7	151878589	151878589	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	130.0	74.0	202.0	0.0	0.569231	0	.	.	none	.	MLL3	1564	.	NM_170606	exon36	c.C6356T	p.P2119L	GTTCCAGGCTGGG	.	PASS	Atlas-SNP
DST	667	hgsc.bcm.edu	37	6	56327856	56327856	+	Silent	SNP	C	C	T	rs144012429	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	141.0	78.0	167.0	0.0	0.553191	0	C|0.983;T|0.017	0.017	strong	.	DST	1427	.	NM_015548	exon82	c.G15117A	p.V5039V	AGATGGCACGGGA	.	PASS	Atlas-SNP
MICALL2	79778	hgsc.bcm.edu	37	7	1477844	1477844	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	129.0	103.0	132.0	0.0	0.79845	0	.	.	none	.	MICALL2	63	.	NM_182924	exon12	c.T2200C	p.Y734H	AGAGGTAGTCGGG	.	PASS	Atlas-SNP
CABIN1	23523	hgsc.bcm.edu	37	22	24487739	24487739	+	Missense_Mutation	SNP	G	G	A	rs117908385	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	120.0	60.0	115.0	0.0	0.5	0	G|0.987;A|0.013	0.013	strong	.	CABIN1	153	.	NM_001199281	exon24	c.G3728A	p.R1243H	CTGCCCGCTACCC	.	PASS	Atlas-SNP
HIPK1	204851	hgsc.bcm.edu	37	1	114514543	114514543	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	182.0	94.0	222.0	1.0	0.516484	0.0045045	.	.	none	.	HIPK1	195	.	NM_198268	exon15	c.G3111A	p.G1037G	CGGGGGGACCAGT	.	PASS	Atlas-SNP
TTC3	7267	hgsc.bcm.edu	37	21	38534308	38534308	+	Missense_Mutation	SNP	C	C	G	rs377155188		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	145.0	79.0	165.0	0.0	0.544828	0	.	.	weak	.	TTC3	182	.	NM_001001894	exon31	c.C3113G	p.S1038C	TTGGGTCTGGAAC	.	PASS	Atlas-SNP
METTL20	254013	hgsc.bcm.edu	37	12	31815167	31815167	+	Missense_Mutation	SNP	G	G	T	rs61736289	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	48.0	23.0	60.0	0.0	0.479167	0	G|0.968;T|0.032	0.032	strong	.	METTL20	23	.	NM_173802	exon2	c.G280T	p.A94S	TACTGGGCAATCT	.	PASS	Atlas-SNP
TTC21A	199223	hgsc.bcm.edu	37	3	39156124	39156124	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	128.0	19.0	141.0	0.0	0.148438	0	.	.	none	.	TTC21A	96	.	NM_145755	exon6	c.G607A	p.V203M	GAGGTGGTGAACC	.	PASS	Atlas-SNP
PTPRM	5797	hgsc.bcm.edu	37	18	8253407	8253407	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	86.0	19.0	104.0	0.0	0.22093	0	.	.	none	.	PTPRM	185	.	NM_001105244	exon19	c.T2749A	p.Y917N	GAGGAATACGAGG	.	PASS	Atlas-SNP
C2orf61	285051	hgsc.bcm.edu	37	2	47357129	47357129	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	186.0	27.0	93.0	0.0	0.145161	0	.	.	none	.	C2orf61	31	.	NM_173649	exon5	c.G470A	p.C157Y	AATACACAGCTCC	.	PASS	Atlas-SNP
DUOX2	50506	hgsc.bcm.edu	37	15	45400296	45400296	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	109.0	73.0	88.0	0.0	0.669725	0	.	.	none	.	DUOX2	137	.	NM_014080	exon13	c.T1523C	p.F508S	CGTACAAACTGGT	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11543610	11543610	+	Missense_Mutation	SNP	A	A	G	rs61740059	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	66.0	28.0	73.0	0.0	0.424242	0	A|0.981;G|0.019	0.019	strong	.	DNAH9	695	.	NM_001372	exon10	c.A1810G	p.M604V	AAGAACATGCCCA	.	PASS	Atlas-SNP
FIGNL1	63979	hgsc.bcm.edu	37	7	50513721	50513721	+	Missense_Mutation	SNP	A	A	C	rs146680091	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	110.0	75.0	154.0	0.0	0.681818	0	A|0.997;C|0.003	0.003	strong	.	FIGNL1	73	.	NM_001042762	exon4	c.T1265G	p.L422W	GGCCTCAACATGG	.	PASS	Atlas-SNP
ZNF136	7695	hgsc.bcm.edu	37	19	12298164	12298164	+	Missense_Mutation	SNP	G	G	A	rs200700405		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	39.0	22.0	36.0	0.0	0.564103	0	G|0.999;A|0.001	0.001	weak	ZNF136,colon,carcinoma,+1,1	ZNF136	57	1	NM_003437	exon4	c.G971A	p.R324Q	CCCTTCGACTACA	.	PASS	Atlas-SNP
TNKS1BP1	85456	hgsc.bcm.edu	37	11	57080938	57080938	+	Silent	SNP	C	C	A	rs145901431	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	50.0	41.0	66.0	0.0	0.82	0	C|0.998;A|0.002	0.002	strong	.	TNKS1BP1	148	.	NM_033396	exon5	c.G1224T	p.G408G	CTCCTCCCCGCCA	.	PASS	Atlas-SNP
SERPIND1	3053	hgsc.bcm.edu	37	22	21133831	21133831	+	Missense_Mutation	SNP	C	C	A	rs5903	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	133.0	65.0	126.0	0.0	0.488722	0	A|0.004;C|0.984;T|0.013	0.004	strong	.	SERPIND1	92	.	NM_000185	exon2	c.C231A	p.D77E	GGACGACGACTAT	.	PASS	Atlas-SNP
C14orf39	317761	hgsc.bcm.edu	37	14	60945066	60945066	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	166.0	90.0	200.0	0.0	0.542169	0	.	.	none	.	C14orf39	79	.	NM_174978	exon5	c.A275G	p.Y92C	TGCATATAATCTT	.	PASS	Atlas-SNP
C3	718	hgsc.bcm.edu	37	19	6718146	6718146	+	Missense_Mutation	SNP	T	T	G	rs147859257	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	87.0	47.0	97.0	0.0	0.54023	0	T|0.998;G|0.002	0.002	strong	.	C3	192	.	NM_000064	exon4	c.A463C	p.K155Q	GCAGCTTGTGGTT	.	PASS	Atlas-SNP
FFAR3	2865	hgsc.bcm.edu	37	19	35850408	35850408	+	Missense_Mutation	SNP	C	C	T	rs138920343	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	405.0	113.0	417.0	0.0	0.279012	0	C|0.997;T|0.003	0.003	strong	.	FFAR3	40	.	NM_005304	exon2	c.C616T	p.R206C	TACAGCCGCCTGG	.	PASS	Atlas-SNP
NEUROD6	63974	hgsc.bcm.edu	37	7	31378795	31378795	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	61.0	12.0	82.0	0.0	0.196721	0	.	.	none	.	NEUROD6	84	.	NM_022728	exon2	c.C88T	p.Q30X	TAATTTGCTTCTG	.	PASS	Atlas-SNP
SLC45A3	85414	hgsc.bcm.edu	37	1	205628616	205628616	+	Missense_Mutation	SNP	C	C	T	rs137949511	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	128.0	71.0	115.0	0.0	0.554688	0	C|0.994;T|0.006	0.006	strong	.	SLC45A3	54	.	NM_033102	exon5	c.G1408A	p.V470I	CACGTACGGAGAC	.	PASS	Atlas-SNP
C9orf3	84909	hgsc.bcm.edu	37	9	97717527	97717527	+	Missense_Mutation	SNP	C	C	T	rs143555020	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	32.0	7.0	51.0	0.0	0.21875	0	C|1.000;T|0.000	0.000	strong	.	C9orf3	100	.	NM_001193329	exon7	c.C1730T	p.P577L	TTAATCCGGAGAA	.	PASS	Atlas-SNP
HSDL2	84263	hgsc.bcm.edu	37	9	115167994	115167994	+	Missense_Mutation	SNP	A	A	T	rs41280175	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	43.0	26.0	63.0	0.0	0.604651	0	A|0.995;T|0.005	0.005	strong	.	HSDL2	24	.	NM_032303	exon3	c.A272T	p.K91I	TCAAGAAATTTGG	.	PASS	Atlas-SNP
SNTB2	6645	hgsc.bcm.edu	37	16	69318149	69318149	+	Splice_Site	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	88.0	4.0	85.0	0.0	0.0454545	0	.	.	none	.	SNTB2	22	.	NM_006750	exon5	c.1345+2T>C	.	TCTAGGTAGAGAT	.	PASS	Atlas-SNP
MKNK1	8569	hgsc.bcm.edu	37	1	47028362	47028362	+	Missense_Mutation	SNP	C	C	T	rs55791614	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	171.0	104.0	181.0	0.0	0.608187	0	C|0.996;T|0.004	0.004	strong	.	MKNK1	36	.	NM_003684	exon11	c.G922A	p.D308N	CACAGTCGGCCCC	.	PASS	Atlas-SNP
CDC20B	166979	hgsc.bcm.edu	37	5	54424381	54424381	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	184.0	64.0	199.0	0.0	0.347826	0	.	.	none	.	CDC20B	61	.	NM_001170402	exon7	c.C762T	p.Y254Y	CCAGATGTATACA	.	PASS	Atlas-SNP
PPP6R3	55291	hgsc.bcm.edu	37	11	68377475	68377475	+	Missense_Mutation	SNP	A	A	G	rs79540432	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	58.0	41.0	57.0	0.0	0.706897	0	A|0.992;G|0.008	0.008	strong	.	PPP6R3	159	.	NM_001164160	exon24	c.A2572G	p.S858G	CCCAGCAGCAGTC	.	PASS	Atlas-SNP
CACNB4	785	hgsc.bcm.edu	37	2	152955482	152955482	+	Missense_Mutation	SNP	G	G	C	rs200662010	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	124.0	61.0	117.0	0.0	0.491935	0	G|1.000;C|0.000	0.000	strong	.	CACNB4	108	.	NM_001145798	exon1	c.C44G	p.P15R	GAGTGCGGCCCGT	.	PASS	Atlas-SNP
HAUS4	54930	hgsc.bcm.edu	37	14	23421593	23421593	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	183.0	97.0	206.0	0.0	0.530055	0	.	.	none	.	HAUS4	34	.	NM_001166270	exon4	c.C274T	p.L92F	CCACAAGCAACTC	.	PASS	Atlas-SNP
SCIN	85477	hgsc.bcm.edu	37	7	12617727	12617727	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	148.0	64.0	144.0	0.0	0.432432	0	.	.	none	.	SCIN	105	.	NM_001112706	exon2	c.A238C	p.I80L	GCTGCCATCTTCA	.	PASS	Atlas-SNP
SYNGAP1	8831	hgsc.bcm.edu	37	6	33405994	33405994	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	285.0	149.0	276.0	2.0	0.522807	0.00724638	.	.	none	SYNGAP1_ENST00000293748,right_lower_lobe,carcinoma,0,2	SYNGAP1	202	2	NM_006772	exon8	c.G1312A	p.A438T	GAGCCCGCCCTGA	.	scavenged	Atlas-SNP
ZC3H4	23211	hgsc.bcm.edu	37	19	47571039	47571039	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	33.0	6.0	46.0	0.0	0.181818	0	.	.	none	.	ZC3H4	96	.	NM_015168	exon15	c.C2486T	p.S829F	CGGCTGGACGTCT	.	PASS	Atlas-SNP
SLCO1C1	53919	hgsc.bcm.edu	37	12	20876168	20876168	+	Missense_Mutation	SNP	C	C	T	rs144285413	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	213.0	111.0	296.0	0.0	0.521127	0	C|0.994;T|0.006	0.006	strong	.	SLCO1C1	216	.	NM_017435	exon9	c.C1166T	p.S389F	CATCCTCCAGGGC	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179643775	179643775	+	Missense_Mutation	SNP	C	C	T	rs36021856	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	144.0	76.0	174.0	0.0	0.527778	0	C|0.993;T|0.007	0.007	strong	.	TTN	18412	.	NM_001267550	exon24	c.G4034A	p.G1345D	GCTCTGCCATCTT	.	PASS	Atlas-SNP
LILRB2	10288	hgsc.bcm.edu	37	19	54783836	54783836	+	Silent	SNP	G	G	A	rs111453734	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	84.0	49.0	92.0	0.0	0.583333	0	G|0.997;A|0.003	0.003	strong	.	LILRB2	94	.	NM_005874	exon4	c.C165T	p.A55A	CTCCTGGGCTTCA	.	PASS	Atlas-SNP
CAPS	828	hgsc.bcm.edu	37	19	5915300	5915300	+	Missense_Mutation	SNP	C	C	A	rs147363394	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	111.0	57.0	97.0	0.0	0.513514	0	C|0.999;A|0.001	0.001	strong	.	CAPS	14	.	NM_004058	exon5	c.C537A	p.F179L	GGAGTTCGTGGCC	.	PASS	Atlas-SNP
BCAS3	54828	hgsc.bcm.edu	37	17	58952044	58952044	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	49.0	25.0	48.0	0.0	0.510204	0	.	.	none	.	BCAS3	90	.	NM_001099432	exon9	c.G606A	p.Q202Q	CTTGCAGGAGAAA	.	PASS	Atlas-SNP
CASZ1	54897	hgsc.bcm.edu	37	1	10703243	10703243	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	51.0	16.0	59.0	0.0	0.313726	0	.	.	none	.	CASZ1	150	.	NM_001079843	exon19	c.A3994T	p.N1332Y	CGAAGTTCTTCCC	.	PASS	Atlas-SNP
SHPRH	257218	hgsc.bcm.edu	37	6	146267376	146267376	+	Silent	SNP	T	T	C	rs201477770	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	20.0	10.0	57.0	0.0	0.5	0	T|1.000;C|0.000	0.000	strong	.	SHPRH	169	.	NM_173082	exon7	c.A1314G	p.Q438Q	AGGGCATTGAACT	.	PASS	Atlas-SNP
ANO7	50636	hgsc.bcm.edu	37	2	242147054	242147054	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	49.0	11.0	50.0	0.0	0.22449	0	.	.	none	.	ANO7	136	.	NM_001001891	exon11	c.G1208A	p.W403X	CTTTCTGGCTGCT	.	PASS	Atlas-SNP
JSRP1	126306	hgsc.bcm.edu	37	19	2253687	2253687	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	20.0	9.0	15.0	0.0	0.45	0	.	.	none	.	JSRP1	18	.	NM_144616	exon5	c.C368T	p.S123L	TTGAGCGACAGGT	.	PASS	Atlas-SNP
TMEM151A	256472	hgsc.bcm.edu	37	11	66062014	66062014	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	68.0	38.0	52.0	0.0	0.558824	0	.	.	none	.	TMEM151A	39	.	NM_153266	exon2	c.G297A	p.L99L	CTACCTGTACATC	.	PASS	Atlas-SNP
GRK7	131890	hgsc.bcm.edu	37	3	141497368	141497368	+	Missense_Mutation	SNP	G	G	A	rs34429284	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	108.0	46.0	120.0	0.0	0.425926	0	G|0.998;A|0.002	0.002	strong	.	GRK7	65	.	NM_139209	exon1	c.G242A	p.R81H	CGTTCCGCAAGGC	.	PASS	Atlas-SNP
INHBA	3624	hgsc.bcm.edu	37	7	41729843	41729843	+	Missense_Mutation	SNP	C	C	T	rs138819536	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	54.0	43.0	82.0	0.0	0.796296	0	C|0.998;T|0.002	0.002	strong	INHBA,NS,carcinoma,0,1	INHBA	118	1	NM_002192	exon3	c.G686A	p.R229Q	AGCAACCGCTGGA	.	PASS	Atlas-SNP
GPR149	344758	hgsc.bcm.edu	37	3	154147336	154147336	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	146.0	33.0	167.0	0.0	0.226027	0	.	.	none	GPR149,NS,carcinoma,-1,1	GPR149	134	1	NM_001038705	exon1	c.G69A	p.T23T	AAGGTCCGTAGAA	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4856904	4856904	+	Missense_Mutation	SNP	T	T	C	rs201312293	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	100.0	65.0	124.0	0.0	0.65	0	T|0.997;C|0.003	0.003	strong	RADIL,right_upper_lobe,carcinoma,0,1	RADIL	110	1	NM_018059	exon7	c.A1694G	p.Y565C	AAGGCGTACAGCA	.	PASS	Atlas-SNP
KIF21B	23046	hgsc.bcm.edu	37	1	200978027	200978027	+	Missense_Mutation	SNP	G	G	A	rs140589352	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	51.0	26.0	42.0	0.0	0.509804	0	G|0.987;A|0.013	0.013	strong	.	KIF21B	208	.	NM_017596	exon3	c.C317T	p.S106L	TCCTCCGACGTTG	.	PASS	Atlas-SNP
SHROOM3	57619	hgsc.bcm.edu	37	4	77661017	77661017	+	Missense_Mutation	SNP	A	A	C	rs76656494	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	50.0	26.0	79.0	0.0	0.52	0	A|0.988;C|0.012	0.012	strong	.	SHROOM3	134	.	NM_020859	exon5	c.A1691C	p.E564A	TGCCTGAAAATGA	.	PASS	Atlas-SNP
KRT84	3890	hgsc.bcm.edu	37	12	52778829	52778829	+	Missense_Mutation	SNP	C	C	A	rs140632920	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	98.0	55.0	111.0	0.0	0.561224	0	C|0.998;A|0.002	0.002	strong	.	KRT84	61	.	NM_033045	exon1	c.G541T	p.D181Y	CCTTGTCAATGAA	.	PASS	Atlas-SNP
AP5Z1	9907	hgsc.bcm.edu	37	7	4830971	4830971	+	Silent	SNP	G	G	T	rs77393809	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	153.0	39.0	142.0	0.0	0.254902	0	G|0.985;T|0.015	0.015	strong	.	.	.	.	NM_014855	exon17	c.G2379T	p.T793T	GCGCACGGTCAGC	.	PASS	Atlas-SNP
PDLIM5	10611	hgsc.bcm.edu	37	4	95496940	95496940	+	Silent	SNP	G	G	A	rs115743950	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	205.0	115.0	203.0	0.0	0.560976	0	G|0.991;A|0.009	0.009	strong	PDLIM5,NS,carcinoma,+1,2	PDLIM5	76	2	NM_006457	exon5	c.G465A	p.A155A	CCATGCGACCACC	.	PASS	Atlas-SNP
HIST1H3G	8355	hgsc.bcm.edu	37	6	26271208	26271208	+	Silent	SNP	T	T	C	rs141036055	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	50.0	22.0	84.0	0.0	0.44	0	T|0.999;C|0.001	0.001	strong	.	HIST1H3G	20	.	NM_003534	exon1	c.A405G	p.R135R	CTACGCTCTCTCC	.	PASS	Atlas-SNP
ZNF804A	91752	hgsc.bcm.edu	37	2	185801871	185801871	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	60.0	20.0	69.0	0.0	0.333333	0	.	.	none	.	ZNF804A	322	.	NM_194250	exon4	c.A1748T	p.K583I	GGTTGAAAGAGAC	.	PASS	Atlas-SNP
NSMAF	8439	hgsc.bcm.edu	37	8	59508166	59508166	+	Silent	SNP	A	A	G	rs149564750	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	185.0	41.0	270.0	0.0	0.221622	0	A|0.994;G|0.006	0.006	strong	.	NSMAF	156	.	NM_001144772	exon22	c.T1938C	p.N646N	GATGTTATTCCAG	.	PASS	Atlas-SNP
ARHGAP6	395	hgsc.bcm.edu	37	X	11682921	11682921	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	110.0	37.0	114.0	0.0	0.336364	0	.	.	none	.	ARHGAP6	130	.	NM_006125	exon1	c.G28T	p.V10F	AGAAGACGCTGTG	.	PASS	Atlas-SNP
HIST1H1E	3008	hgsc.bcm.edu	37	6	26156817	26156817	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	72.0	10.0	90.0	0.0	0.138889	0	.	.	none	.	HIST1H1E	69	.	NM_005321	exon1	c.G199A	p.A67T	GCGCTGGCAGCCG	.	PASS	Atlas-SNP
BRWD1	54014	hgsc.bcm.edu	37	21	40608530	40608530	+	Silent	SNP	A	A	C	rs143020455	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	115.0	56.0	107.0	0.0	0.486957	0	A|0.999;C|0.001	0.001	strong	.	BRWD1	325	.	NM_018963	exon23	c.T2757G	p.P919P	CTTCTTAGGCTTA	.	PASS	Atlas-SNP
HMCN1	83872	hgsc.bcm.edu	37	1	186121996	186121996	+	Missense_Mutation	SNP	C	C	T	rs114629728	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	170.0	88.0	215.0	0.0	0.517647	0	C|0.996;T|0.004	0.004	strong	.	HMCN1	797	.	NM_031935	exon96	c.C15011T	p.T5004I	AAGTCACTGTAAA	.	PASS	Atlas-SNP
ZNF85	7639	hgsc.bcm.edu	37	19	21132453	21132453	+	Missense_Mutation	SNP	C	C	G	rs146063134	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	18.0	8.0	41.0	0.0	0.444444	0	C|0.999;G|0.001	0.001	strong	.	ZNF85	72	.	NM_001256171	exon5	c.C1223G	p.A408G	GAAAAGCCTTTAA	.	PASS	Atlas-SNP
R3HDM1	23518	hgsc.bcm.edu	37	2	136467084	136467084	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	307.0	149.0	425.0	1.0	0.485342	0.00235294	.	.	none	.	R3HDM1	84	.	NM_015361	exon21	c.G2436A	p.Q812Q	CCAGCAGCTTCAA	.	PASS	Atlas-SNP
LIMS1	3987	hgsc.bcm.edu	37	2	109276110	109276110	+	Missense_Mutation	SNP	G	G	A	rs146149508	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	859.0	303.0	630.0	0.0	0.352736	0	G|0.994;A|0.006	0.006	strong	.	LIMS1	38	.	NM_001193485	exon2	c.G232A	p.G78S	AAGGGCGGCTTTG	.	PASS	Atlas-SNP
SORCS1	114815	hgsc.bcm.edu	37	10	108380256	108380256	+	Missense_Mutation	SNP	G	G	A	rs144056795	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	112.0	25.0	98.0	0.0	0.223214	0	G|0.999;A|0.001	0.001	strong	SORCS1_ENST00000344440,right_upper_lobe,carcinoma,+1,3	SORCS1	534	3	NM_001206572	exon20	c.C2726T	p.A909V	GCCGTCGCATTGA	.	PASS	Atlas-SNP
AMBN	258	hgsc.bcm.edu	37	4	71469006	71469006	+	Silent	SNP	C	C	T	rs113360877	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	149.0	65.0	186.0	0.0	0.436242	0	C|0.987;T|0.013	0.013	strong	.	AMBN	73	.	NM_016519	exon10	c.C678T	p.H226H	TTCTCACGGACCA	.	PASS	Atlas-SNP
LRRC37A3	374819	hgsc.bcm.edu	37	17	62856646	62856646	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	38.0	21.0	38.0	0.0	0.552632	0	.	.	none	.	LRRC37A3	75	.	NM_199340	exon11	c.C3618T	p.L1206L	ACTTCCGAGCCTT	.	PASS	Atlas-SNP
FAM102A	399665	hgsc.bcm.edu	37	9	130742271	130742271	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	72.0	17.0	68.0	0.0	0.236111	0	.	.	none	.	FAM102A	32	.	NM_001035254	exon1	c.G146A	p.R49K	TCCTACCTTGACG	.	PASS	Atlas-SNP
ETFB	2109	hgsc.bcm.edu	37	19	51857774	51857774	+	Missense_Mutation	SNP	T	T	G	rs143144671	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	94.0	65.0	106.0	0.0	0.691489	0	T|0.998;G|0.002	0.002	strong	.	ETFB	46	.	NM_001014763	exon1	c.A119C	p.E40A	AGCCATTCCTGGG	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092948	1092948	+	Silent	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	56.0	4.0	37.0	0.0	0.0714286	0	.	.	none	MUC2_ENST00000441003,NS,carcinoma,+1,12	MUC2	614	12	NM_002457	exon30	c.C4767G	p.T1589T	CACCACCACTACG	.	scavenged	Atlas-SNP
UMODL1	89766	hgsc.bcm.edu	37	21	43531345	43531345	+	Silent	SNP	G	G	A	rs76618631	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	35.0	14.0	27.0	0.0	0.4	0	G|0.983;A|0.017	0.017	strong	.	UMODL1	186	.	NM_173568	exon11	c.G2013A	p.A671A	CCAGGCGAGCCCC	.	PASS	Atlas-SNP
PABPC1	26986	hgsc.bcm.edu	37	8	101721785	101721785	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	220.0	73.0	256.0	0.0	0.331818	0	.	.	none	.	PABPC1	76	.	NM_002568	exon8	c.A1147T	p.M383L	TCTGCATATACTG	.	PASS	Atlas-SNP
NBAS	51594	hgsc.bcm.edu	37	2	15607853	15607853	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	246.0	136.0	211.0	1.0	0.552846	0.00473934	.	.	none	.	NBAS	246	.	NM_015909	exon18	c.C1953T	p.A651A	ATTCTTGGCAGGC	.	PASS	Atlas-SNP
PDIA4	9601	hgsc.bcm.edu	37	7	148709061	148709061	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	60.0	10.0	70.0	0.0	0.166667	0	.	.	none	.	PDIA4	57	.	NM_004911	exon6	c.C856T	p.P286S	TGGAGGGAGGCCC	.	PASS	Atlas-SNP
CLCF1	23529	hgsc.bcm.edu	37	11	67132804	67132804	+	Missense_Mutation	SNP	G	G	A	rs78755659	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	81.0	20.0	86.0	0.0	0.246914	0	G|0.992;A|0.008	0.008	strong	.	CLCF1	15	.	NM_013246	exon3	c.C481T	p.P161S	GCAGCGGCTGGGG	.	PASS	Atlas-SNP
KIF18A	81930	hgsc.bcm.edu	37	11	28045367	28045367	+	Silent	SNP	G	G	A	rs35440657	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	115.0	20.0	143.0	0.0	0.173913	0	G|0.995;A|0.005	0.005	strong	KIF18A,caecum,carcinoma,0,1	KIF18A	92	1	NM_031217	exon16	c.C2535T	p.D845D	ATTTACGTCTGCA	.	PASS	Atlas-SNP
ANGPTL2	23452	hgsc.bcm.edu	37	9	129870763	129870763	+	Missense_Mutation	SNP	C	C	T	rs370920897		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	63.0	14.0	52.0	0.0	0.222222	0	.	.	weak	ANGPTL2,colon,carcinoma,-1,1	ANGPTL2	46	1	NM_012098	exon2	c.G248A	p.R83Q	TGCACTCGGTTCT	.	PASS	Atlas-SNP
SPNS1	83985	hgsc.bcm.edu	37	16	28995211	28995211	+	Silent	SNP	C	C	T	rs113165798	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	65.0	33.0	56.0	0.0	0.507692	0	C|0.995;T|0.005	0.005	strong	.	SPNS1	47	.	NM_001142448	exon12	c.C1425T	p.G475G	GGGCGGCGCAGCC	.	PASS	Atlas-SNP
MYO1F	4542	hgsc.bcm.edu	37	19	8616999	8616999	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	102.0	23.0	121.0	0.0	0.22549	0	.	.	none	.	MYO1F	128	.	NM_012335	exon7	c.G554A	p.G185D	ATCTTGCCCCCAT	.	PASS	Atlas-SNP
GOLGB1	2804	hgsc.bcm.edu	37	3	121413362	121413362	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	87.0	41.0	123.0	0.0	0.471264	0	.	.	none	.	GOLGB1	319	.	NM_001256486	exon13	c.A6008G	p.Q2003R	TCTTTCTGAGCAC	.	PASS	Atlas-SNP
MTUS1	57509	hgsc.bcm.edu	37	8	17611916	17611916	+	Silent	SNP	C	C	T	rs61740538	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	145.0	26.0	214.0	0.0	0.17931	0	C|0.982;T|0.018	0.018	strong	.	MTUS1	144	.	NM_001001924	exon2	c.G1401A	p.S467S	CTCCTTCGAGTCT	.	PASS	Atlas-SNP
APMAP	57136	hgsc.bcm.edu	37	20	24954303	24954303	+	Silent	SNP	G	G	C	rs148400044	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	116.0	62.0	131.0	0.0	0.534483	0	G|0.998;C|0.002	0.002	strong	.	APMAP	3	.	NM_020531	exon4	c.C399G	p.A133A	AAACCGGGCAATG	.	PASS	Atlas-SNP
PCDH18	54510	hgsc.bcm.edu	37	4	138452706	138452706	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	119.0	31.0	167.0	0.0	0.260504	0	.	.	none	.	PCDH18	229	.	NM_019035	exon1	c.T537A	p.N179K	AAAATCATTGGCA	.	PASS	Atlas-SNP
GAD1	2571	hgsc.bcm.edu	37	2	171716266	171716266	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	90.0	19.0	99.0	0.0	0.211111	0	.	.	none	.	GAD1	79	.	NM_000817	exon17	c.G1659C	p.M553I	GACCATGGTTGGC	.	PASS	Atlas-SNP
ARHGEF1	9138	hgsc.bcm.edu	37	19	42409189	42409189	+	Splice_Site	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	78.0	16.0	78.0	0.0	0.205128	0	.	.	none	ARHGEF1,NS,carcinoma,+1,1	ARHGEF1	95	1	NM_004706	exon23	c.2249+1G>A	.	GAAAAAGTGAGGG	.	PASS	Atlas-SNP
CNTNAP4	85445	hgsc.bcm.edu	37	16	76461498	76461498	+	Splice_Site	SNP	T	T	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	168.0	74.0	134.0	0.0	0.440476	0	.	.	none	.	CNTNAP4	600	.	NM_033401	exon4	c.537+2T>G	.	ATACAGTAAGTGT	.	PASS	Atlas-SNP
ZCWPW2	152098	hgsc.bcm.edu	37	3	28454627	28454627	+	Missense_Mutation	SNP	A	A	G	rs148504648	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	83.0	28.0	131.0	0.0	0.337349	0	A|0.998;G|0.002	0.002	strong	.	ZCWPW2	49	.	NM_001040432	exon2	c.A68G	p.N23S	TGGAAAACATGTA	.	PASS	Atlas-SNP
PGAP1	80055	hgsc.bcm.edu	37	2	197711870	197711870	+	Silent	SNP	G	G	A	rs149815494	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	147.0	59.0	204.0	0.0	0.401361	0	G|0.993;A|0.007	0.007	strong	.	PGAP1	84	.	NM_024989	exon22	c.C2007T	p.A669A	AATGACGGCATCT	.	PASS	Atlas-SNP
C14orf37	145407	hgsc.bcm.edu	37	14	58605043	58605043	+	Missense_Mutation	SNP	G	G	A	rs61741199	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	112.0	112.0	139.0	0.0	1	0	G|0.928;A|0.072	0.072	strong	.	C14orf37	87	.	NM_001001872	exon2	c.C1034T	p.T345I	TGTGCTGTCTGAG	.	PASS	Atlas-SNP
ZNF304	57343	hgsc.bcm.edu	37	19	57868483	57868483	+	Missense_Mutation	SNP	G	G	A	rs45612632	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	73.0	50.0	67.0	0.0	0.684932	0	G|0.981;A|0.019	0.019	strong	.	ZNF304	74	.	NM_020657	exon3	c.G1246A	p.A416T	ACCGGGGCAAGGC	.	PASS	Atlas-SNP
ICAM3	3385	hgsc.bcm.edu	37	19	10445806	10445806	+	Silent	SNP	C	C	T	rs3181047	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	90.0	47.0	93.0	0.0	0.522222	0	C|0.995;T|0.005	0.005	strong	.	ICAM3	29	.	NM_002162	exon4	c.G873A	p.E291E	GACGATCTCCCGG	.	PASS	Atlas-SNP
ACTN1	87	hgsc.bcm.edu	37	14	69341653	69341653	+	Missense_Mutation	SNP	T	T	A	rs11557769	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	42.0	15.0	76.0	0.0	0.357143	0	T|0.988;A|0.012	0.012	strong	ACTN1,NS,carcinoma,+2,1	ACTN1	77	1	NM_001130004	exon22	c.A2668T	p.T890S	GGCCGGTGTAGGG	.	PASS	Atlas-SNP
DSC1	1823	hgsc.bcm.edu	37	18	28710615	28710615	+	Silent	SNP	C	C	A	rs1816634	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	201.0	85.0	246.0	0.0	0.422886	0	C|0.914;A|0.086	0.086	strong	.	DSC1	240	.	NM_024421	exon16	c.G2547T	p.S849S	GTTATACGAACAA	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1270647	1270647	+	Missense_Mutation	SNP	G	G	C	rs185838223	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	732.0	153.0	731.0	0.0	0.209016	0	G|0.952;C|0.048	0.048	strong	.	MUC5B	473	.	NM_002458	exon31	c.G12537C	p.Q4179H	GGCCCAGCCTGGT	.	PASS	Atlas-SNP
ADAMTS19	171019	hgsc.bcm.edu	37	5	128796860	128796860	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	14.0	13.0	8.0	0.0	0.928571	0	.	.	none	.	ADAMTS19	216	.	NM_133638	exon2	c.C139A	p.P47T	CGGGAGCCGGTGG	.	PASS	Atlas-SNP
LRIT3	345193	hgsc.bcm.edu	37	4	110791273	110791273	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	73.0	37.0	110.0	0.0	0.506849	0	.	.	none	.	LRIT3	107	.	NM_198506	exon4	c.G1368T	p.K456N	GGCAAAGAATGGA	.	PASS	Atlas-SNP
CDON	50937	hgsc.bcm.edu	37	11	125871721	125871721	+	Missense_Mutation	SNP	G	G	C	rs145983470	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	101.0	77.0	138.0	0.0	0.762376	0	G|0.994;C|0.006	0.006	strong	CDON,right_lower_lobe,carcinoma,0,1	CDON	137	1	NM_016952	exon11	c.C2051G	p.T684S	GCCTGGGTGTTTT	.	PASS	Atlas-SNP
GJA8	2703	hgsc.bcm.edu	37	1	147380460	147380460	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	42.0	11.0	63.0	0.0	0.261905	0	.	.	none	GJA8,NS,carcinoma,+2,1	GJA8	108	1	NM_005267	exon2	c.G378A	p.Q126Q	GGACCAGGGCAGC	.	PASS	Atlas-SNP
CWF19L1	55280	hgsc.bcm.edu	37	10	101995477	101995477	+	Silent	SNP	T	T	G	rs139693285	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	38.0	16.0	51.0	0.0	0.421053	0	T|0.999;G|0.001	0.001	strong	.	CWF19L1	39	.	NM_018294	exon13	c.A1419C	p.T473T	TTCTCCTGTGTCA	.	PASS	Atlas-SNP
CDH1	999	hgsc.bcm.edu	37	16	68862165	68862165	+	Silent	SNP	C	C	T	rs33964119	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	84.0	34.0	85.0	0.0	0.404762	0	A|0.000;C|0.956;G|0.000;T|0.043	0.043	strong	CDH1,colon,carcinoma,0,3	CDH1	535	3	NM_004360	exon14	c.C2253T	p.N751N	GGACAACGTTTAT	.	PASS	Atlas-SNP
RIF1	55183	hgsc.bcm.edu	37	2	152311612	152311612	+	Missense_Mutation	SNP	A	A	G	rs61750444	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	143.0	76.0	179.0	1.0	0.531469	0.00558659	A|0.976;G|0.024	0.024	strong	RIF1,NS,carcinoma,-2,1	RIF1	244	1	NM_018151	exon22	c.A2548G	p.M850V	CCTTCTATGATCC	.	scavenged	Atlas-SNP
TG	7038	hgsc.bcm.edu	37	8	133980076	133980076	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	78.0	43.0	100.0	0.0	0.551282	0	.	.	none	TG,colon,carcinoma,0,1	TG	416	1	NM_003235	exon31	c.G5724A	p.E1908E	CGCAGAGATAACA	.	PASS	Atlas-SNP
ESPN	83715	hgsc.bcm.edu	37	1	6500762	6500762	+	Missense_Mutation	SNP	G	G	A	rs200602012	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	35.0	13.0	12.0	0.0	0.371429	0	G|0.991;A|0.010	0.010	weak	.	ESPN	32	.	NM_031475	exon4	c.G752A	p.G251D	GCCGCGGCCACAC	.	PASS	Atlas-SNP
EXOSC6	118460	hgsc.bcm.edu	37	16	70285780	70285780	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	18.0	9.0	5.0	0.0	0.5	0	.	.	none	.	EXOSC6	1	.	NM_058219	exon1	c.C24G	p.I8M	GCCGCGGATGCGG	.	PASS	Atlas-SNP
NRXN1	9378	hgsc.bcm.edu	37	2	50779939	50779939	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	261.0	55.0	134.0	0.0	0.210728	0	.	.	none	NRXN1_ENST00000536085,rectum,carcinoma,0,6	NRXN1	1118	6	NM_001135659	exon10	c.C1665T	p.G555G	GATGAGGCCATTT	.	PASS	Atlas-SNP
INO80	54617	hgsc.bcm.edu	37	15	41277551	41277551	+	Silent	SNP	T	T	C	rs61757083	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	99.0	50.0	159.0	0.0	0.50505	0	T|0.992;C|0.008	0.008	strong	.	INO80	122	.	NM_017553	exon32	c.A3906G	p.E1302E	ATACTTTTCCCGC	.	PASS	Atlas-SNP
ZFP42	132625	hgsc.bcm.edu	37	4	188924523	188924523	+	Missense_Mutation	SNP	A	A	G	rs138176771	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	87.0	46.0	89.0	0.0	0.528736	0	A|0.999;G|0.001	0.001	strong	ZFP42,NS,carcinoma,-2,1	ZFP42	87	1	NM_174900	exon4	c.A562G	p.I188V	AGCGCAATCGCTT	.	PASS	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	37	6	51768466	51768466	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	98.0	34.0	114.0	0.0	0.346939	0	.	.	none	PKHD1,colon,carcinoma,0,1	PKHD1	927	1	NM_170724	exon43	c.G6925A	p.E2309K	GTCCCTCGGCACC	.	PASS	Atlas-SNP
FCHSD1	89848	hgsc.bcm.edu	37	5	141030640	141030640	+	Silent	SNP	C	C	T	rs17287002	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	74.0	32.0	70.0	0.0	0.432432	0	C|0.962;T|0.038	0.038	strong	.	FCHSD1	51	.	NM_033449	exon2	c.G66A	p.L22L	GATGCTCAGCTGT	.	PASS	Atlas-SNP
ZNF536	9745	hgsc.bcm.edu	37	19	31039939	31039939	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	93.0	4.0	107.0	0.0	0.0430108	0	.	.	none	.	ZNF536	424	.	NM_014717	exon4	c.A3413G	p.K1138R	ATGGAAAGGCCCA	.	PASS	Atlas-SNP
NEGR1	257194	hgsc.bcm.edu	37	1	72748169	72748169	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	273.0	76.0	295.0	0.0	0.278388	0	.	.	none	.	NEGR1	60	.	NM_173808	exon1	c.G9C	p.M3I	CAGCATCATGTCC	.	PASS	Atlas-SNP
MFHAS1	9258	hgsc.bcm.edu	37	8	8748148	8748148	+	Silent	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	61.0	35.0	82.0	0.0	0.57377	0	.	.	none	.	MFHAS1	58	.	NM_004225	exon1	c.T2421G	p.L807L	AGGCTTAAGCAGC	.	PASS	Atlas-SNP
GLI3	2737	hgsc.bcm.edu	37	7	42007201	42007201	+	Missense_Mutation	SNP	T	T	C	rs62622373	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	182.0	132.0	226.0	1.0	0.725275	0.00442478	T|0.999;C|0.001	0.001	strong	.	GLI3	312	.	NM_000168	exon14	c.A2424G	p.I808M	ATTTCCTATGAGA	.	PASS	Atlas-SNP
OR52H1	390067	hgsc.bcm.edu	37	11	5566076	5566076	+	Silent	SNP	G	G	A	rs139835065	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	123.0	108.0	108.0	0.0	0.878049	0	G|0.998;A|0.002	0.002	strong	.	OR52H1	46	.	NM_001005289	exon1	c.C678T	p.Y226Y	GTGTGCGTAGGAA	.	PASS	Atlas-SNP
RFFL	117584	hgsc.bcm.edu	37	17	33348541	33348541	+	Missense_Mutation	SNP	C	C	T	rs34747500	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	91.0	4.0	109.0	0.0	0.043956	0	C|0.986;T|0.014	0.014	strong	.	RFFL	27	.	NM_001017368	exon3	c.G440A	p.R147H	GAGGCACGAGTCC	.	PASS	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	37	10	134726272	134726272	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	63.0	34.0	76.0	0.0	0.539683	0	.	.	none	.	TTC40	100	.	NM_001200049	exon19	c.A2386G	p.I796V	AGCTGATGATCAG	.	PASS	Atlas-SNP
GRIA1	2890	hgsc.bcm.edu	37	5	153078582	153078582	+	Silent	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	104.0	25.0	126.0	0.0	0.240385	0	.	.	none	GRIA1_ENST00000544403,NS,carcinoma,+1,2	GRIA1	321	2	NM_001258021	exon10	c.A1431C	p.R477R	AGCCCGAGACCCT	.	PASS	Atlas-SNP
KRTAP10-11	386678	hgsc.bcm.edu	37	21	46067194	46067194	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	108.0	5.0	88.0	1.0	0.0462963	0.0113636	.	.	none	KRTAP10-11,NS,carcinoma,0,1	KRTAP10-11	36	1	NM_198692	exon1	c.C819T	p.C273C	CTCCTGCGTGTCC	.	scavenged	Atlas-SNP
ORM1	5004	hgsc.bcm.edu	37	9	117087412	117087412	+	Missense_Mutation	SNP	G	G	A	rs1126801	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	128.0	67.0	150.0	0.0	0.523438	0	G|0.972;A|0.028	0.028	strong	.	ORM1	20	.	NM_000607	exon5	c.G520A	p.V174M	GATGTCGTGTACA	.	PASS	Atlas-SNP
KIF26A	26153	hgsc.bcm.edu	37	14	104643650	104643650	+	Missense_Mutation	SNP	C	C	T	rs372336742		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	97.0	58.0	62.0	0.0	0.597938	0	.	.	weak	KIF26A,NS,carcinoma,0,1	KIF26A	84	1	NM_015656	exon12	c.C4525T	p.R1509W	GGGTCGCGGGCTC	.	PASS	Atlas-SNP
CCDC33	80125	hgsc.bcm.edu	37	15	74625175	74625175	+	Missense_Mutation	SNP	C	C	A	rs200735867	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	66.0	36.0	59.0	0.0	0.545455	0	.	.	weak	.	CCDC33	160	.	NM_025055	exon16	c.C1927A	p.Q643K	CAGCAACAGGCCC	.	PASS	Atlas-SNP
EIF2AK3	9451	hgsc.bcm.edu	37	2	88926536	88926536	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	55.0	19.0	44.0	0.0	0.345455	0	.	.	none	.	EIF2AK3	160	.	NM_004836	exon1	c.A257G	p.E86G	CGAGGCTCCTGCT	.	PASS	Atlas-SNP
EPHA3	2042	hgsc.bcm.edu	37	3	89391215	89391215	+	Silent	SNP	G	G	A	rs56112995	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	72.0	31.0	81.0	0.0	0.430556	0	G|0.995;A|0.005	0.005	strong	EPHA3_ENST00000452448,caecum,carcinoma,0,4	EPHA3	501	4	NM_005233	exon5	c.G1281A	p.A427A	TGCTGCGGTCAGC	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230348	23230348	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	143.0	28.0	149.0	0.0	0.195804	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.C115G	p.L39V	GGCCTGCTGCGCC	.	PASS	Atlas-SNP
COL28A1	340267	hgsc.bcm.edu	37	7	7514293	7514293	+	Missense_Mutation	SNP	T	T	C	rs199518824	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	81.0	63.0	81.0	0.0	0.777778	0	.	.	weak	.	COL28A1	113	.	NM_001037763	exon15	c.A1241G	p.K414R	GAACCTTTTTCAC	.	PASS	Atlas-SNP
MED24	9862	hgsc.bcm.edu	37	17	38189328	38189328	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	48.0	10.0	75.0	0.0	0.208333	0	.	.	none	.	MED24	89	.	NM_014815	exon8	c.C803T	p.T268M	ACCATCGTCAGCT	.	PASS	Atlas-SNP
PXDNL	137902	hgsc.bcm.edu	37	8	52321238	52321238	+	Silent	SNP	G	G	A	rs141024159	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	67.0	46.0	75.0	0.0	0.686567	0	G|0.989;A|0.011	0.011	strong	.	PXDNL	414	.	NM_144651	exon17	c.C2946T	p.A982A	CTCCGTGGCCATC	.	PASS	Atlas-SNP
NPHS1	4868	hgsc.bcm.edu	37	19	36340009	36340009	+	Missense_Mutation	SNP	G	G	A	rs113825926	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	48.0	19.0	58.0	0.0	0.395833	0	G|0.992;A|0.008	0.008	strong	.	NPHS1	165	.	NM_004646	exon8	c.C881T	p.T294I	GCCTGGGTGTGCT	.	PASS	Atlas-SNP
PCDHGB4	8641	hgsc.bcm.edu	37	5	140769334	140769334	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	36.0	11.0	38.0	0.0	0.305556	0	.	.	none	.	PCDHGB4	125	.	NM_032098	exon1	c.G1883C	p.R628P	CAGCGCGTGCCTT	.	PASS	Atlas-SNP
CACNA1S	779	hgsc.bcm.edu	37	1	201058530	201058530	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	117.0	72.0	133.0	0.0	0.615385	0	.	.	none	CACNA1S,colon,carcinoma,-2,1	CACNA1S	249	1	NM_000069	exon6	c.C756T	p.R252R	GCACCGGCGCCCT	.	PASS	Atlas-SNP
MAP3K6	9064	hgsc.bcm.edu	37	1	27686373	27686373	+	Silent	SNP	G	G	A	rs138787990		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	183.0	89.0	176.0	0.0	0.486339	0	G|1.000;A|0.000	0.000	weak	.	MAP3K6	134	.	NM_004672	exon17	c.C2295T	p.N765N	GATGTGGTTGTCG	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105410417	105410417	+	Silent	SNP	G	G	A	rs200284292	byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	117.0	9.0	140.0	0.0	0.0769231	0	G|0.993;A|0.007	0.007	strong	.	AHNAK2	719	.	NM_138420	exon7	c.C11371T	p.L3791L	CGGCCAGGGACAG	.	PASS	Atlas-SNP
EAF1	85403	hgsc.bcm.edu	37	3	15477861	15477861	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	161.0	32.0	151.0	0.0	0.198758	0	.	.	none	.	EAF1	16	.	NM_033083	exon5	c.A539G	p.E180G	GGGCTGAAGTTGA	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1270691	1270691	+	Missense_Mutation	SNP	G	G	C	rs201822010	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	1023.0	155.0	882.0	1.0	0.151515	0.00113379	G|0.996;C|0.004	0.004	strong	.	MUC5B	473	.	NM_002458	exon31	c.G12581C	p.S4194T	AATGCAGCCTGGA	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13716796	13716796	+	Missense_Mutation	SNP	C	C	T	rs138045391	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	103.0	43.0	88.0	0.0	0.417476	0	A|0.001;C|0.999	.	weak	.	DNAH5	868	.	NM_001369	exon74	c.G12709A	p.V4237I	AGGAGACACCCTG	.	PASS	Atlas-SNP
ZNF93	81931	hgsc.bcm.edu	37	19	20044886	20044886	+	Silent	SNP	T	T	C	rs10401345	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	36.0	36.0	56.0	0.0	1	0	T|0.908;C|0.092	0.092	strong	ZNF93,NS,carcinoma,0,1	ZNF93	81	1	NM_031218	exon4	c.T1122C	p.C374C	AGAATGTGGCAAA	.	PASS	Atlas-SNP
VCX3A	51481	hgsc.bcm.edu	37	X	6451834	6451834	+	Silent	SNP	C	C	T	rs146638597		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	927.0	82.0	1050.0	0.0	0.0884574	0	.	.	weak	.	VCX3A	17	.	NM_016379	exon3	c.G513A	p.E171E	TGGTTCCTCCACC	.	PASS	Atlas-SNP
NUP210	23225	hgsc.bcm.edu	37	3	13364836	13364836	+	Missense_Mutation	SNP	C	C	T	rs199752879	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	64.0	23.0	78.0	0.0	0.359375	0	.	.	weak	NUP210,NS,carcinoma,0,1	NUP210	182	1	NM_024923	exon34	c.G4741A	p.V1581M	CTCCCACGGCAAC	.	PASS	Atlas-SNP
SCFD2	152579	hgsc.bcm.edu	37	4	54218834	54218834	+	Missense_Mutation	SNP	G	G	A	rs147606542	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	196.0	90.0	207.0	1.0	0.459184	0.00483092	G|0.998;A|0.002	0.002	strong	SCFD2,NS,NS,0,1	SCFD2	78	1	NM_152540	exon2	c.C938T	p.A313V	GTGAGCGCTATCA	.	scavenged	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	37	1	225237950	225237950	+	Missense_Mutation	SNP	A	A	G	rs78320839	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	181.0	80.0	172.0	0.0	0.441989	0	A|0.991;G|0.009	0.009	strong	.	DNAH14	300	.	NM_001373	exon16	c.A1951G	p.I651V	CTGTCTATCTTCA	.	PASS	Atlas-SNP
PAPPA	5069	hgsc.bcm.edu	37	9	119028233	119028233	+	Missense_Mutation	SNP	A	A	C	rs117124330	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	68.0	39.0	81.0	0.0	0.573529	0	A|0.988;C|0.012	0.012	strong	.	PAPPA	243	.	NM_002581	exon8	c.A2830C	p.S944R	CATGGAAGTGGGT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195510073	195510073	+	Missense_Mutation	SNP	G	G	A	rs200663432	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	92.0	14.0	55.0	0.0	0.152174	0	G|0.756;A|0.244	0.244	strong	.	MUC4	1505	.	NM_018406	exon2	c.C8378T	p.A2793V	GTGGATGCTGAGG	.	PASS	Atlas-SNP
NAGLU	4669	hgsc.bcm.edu	37	17	40696122	40696122	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	54.0	18.0	58.0	0.0	0.333333	0	.	.	none	.	NAGLU	36	.	NM_000263	exon6	c.A2098C	p.N700H	GACAAAAATGTCT	.	PASS	Atlas-SNP
GABRB3	2562	hgsc.bcm.edu	37	15	26825545	26825545	+	Silent	SNP	G	G	A	rs75965657	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	90.0	43.0	92.0	0.0	0.477778	0	G|0.982;A|0.018	0.018	strong	.	GABRB3	338	.	NM_021912	exon6	c.C603T	p.T201T	CACTCCGGTAACA	.	PASS	Atlas-SNP
ZNF461	92283	hgsc.bcm.edu	37	19	37130419	37130419	+	Silent	SNP	G	G	A	rs61746298	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	81.0	39.0	99.0	0.0	0.481481	0	G|0.980;A|0.020	0.020	strong	.	ZNF461	73	.	NM_153257	exon6	c.C828T	p.N276N	ACATTCGTTACAT	.	PASS	Atlas-SNP
SLC37A2	219855	hgsc.bcm.edu	37	11	124953735	124953735	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	98.0	4.0	127.0	0.0	0.0408163	0	.	.	none	.	SLC37A2	105	.	NM_001145290	exon11	c.G1001A	p.G334E	AGGCTGGGGACCT	.	PASS	Atlas-SNP
PTCHD3	374308	hgsc.bcm.edu	37	10	27687437	27687437	+	Missense_Mutation	SNP	C	C	A	rs139600575	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	76.0	35.0	133.0	0.0	0.460526	0	C|0.999;A|0.001	0.001	strong	.	PTCHD3	140	.	NM_001034842	exon4	c.G2090T	p.W697L	TCTAACCAAAACT	.	PASS	Atlas-SNP
CYFIP2	26999	hgsc.bcm.edu	37	5	156741411	156741411	+	Silent	SNP	C	C	T	rs139943836	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	38.0	103.0	0.0	0.535211	0	C|0.999;T|0.001	0.001	strong	.	CYFIP2	354	.	NM_001037332	exon12	c.C1170T	p.F390F	GCTCTTCGACCTA	.	PASS	Atlas-SNP
TOR3A	64222	hgsc.bcm.edu	37	1	179064145	179064145	+	Missense_Mutation	SNP	T	T	C	rs138598531	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	192.0	98.0	213.0	0.0	0.510417	0	T|0.999;C|0.001	0.001	strong	.	TOR3A	28	.	NM_022371	exon6	c.T986C	p.I329T	ACCTGATTGACTA	.	PASS	Atlas-SNP
KPTN	11133	hgsc.bcm.edu	37	19	47978739	47978739	+	Silent	SNP	C	C	T	rs1046273	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	95.0	31.0	82.0	0.0	0.326316	0	C|0.982;T|0.018	0.018	strong	.	KPTN	34	.	NM_007059	exon12	c.G1245A	p.R415R	ACGTCTCCTCTGC	.	PASS	Atlas-SNP
HDAC7	51564	hgsc.bcm.edu	37	12	48189061	48189061	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	46.0	16.0	42.0	1.0	0.347826	0.0238095	.	.	none	HDAC7,NS,carcinoma,+1,1	HDAC7	71	1	NM_015401	exon11	c.C1190T	p.S397L	GGCTCTGAGCGAG	.	scavenged	Atlas-SNP
CDH9	1007	hgsc.bcm.edu	37	5	26902724	26902724	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	147.0	35.0	120.0	0.0	0.238095	0	.	.	none	.	CDH9	305	.	NM_016279	exon7	c.A1114C	p.I372L	CAGATATTTTGAC	.	PASS	Atlas-SNP
KIF7	374654	hgsc.bcm.edu	37	15	90195948	90195948	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	120.0	71.0	100.0	0.0	0.591667	0	.	.	none	.	KIF7	130	.	NM_198525	exon2	c.C214G	p.Q72E	AGGCCTGGTACAC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195508490	195508490	+	Missense_Mutation	SNP	C	C	A	rs200820395		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	37.0	8.0	112.0	0.0	0.216216	0	.	.	weak	.	MUC4	1505	.	NM_018406	exon2	c.G9961T	p.A3321S	TGGATGCTGAGGA	.	PASS	Atlas-SNP
OR8J1	219477	hgsc.bcm.edu	37	11	56128031	56128031	+	Silent	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	187.0	49.0	216.0	0.0	0.262032	0	.	.	none	.	OR8J1	87	.	NM_001005205	exon1	c.G309C	p.G103G	GGGAGGGTTCTTG	.	PASS	Atlas-SNP
ZNF180	7733	hgsc.bcm.edu	37	19	44981009	44981009	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	81.0	15.0	90.0	0.0	0.185185	0	.	.	none	.	ZNF180	103	.	NM_013256	exon5	c.C1689A	p.H563Q	AACAAGGTGAGAA	.	PASS	Atlas-SNP
NUP188	23511	hgsc.bcm.edu	37	9	131752487	131752487	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	187.0	38.0	202.0	0.0	0.203209	0	.	.	none	.	NUP188	140	.	NM_015354	exon25	c.G2622A	p.L874L	TCAGCTGCTGAAA	.	PASS	Atlas-SNP
NAGLU	4669	hgsc.bcm.edu	37	17	40696120	40696120	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	53.0	17.0	59.0	0.0	0.320755	0	.	.	none	.	NAGLU	36	.	NM_000263	exon6	c.A2096T	p.K699I	TTGACAAAAATGT	.	PASS	Atlas-SNP
NPHP4	261734	hgsc.bcm.edu	37	1	5940243	5940243	+	Missense_Mutation	SNP	G	G	A	rs17472401	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	72.0	26.0	111.0	0.0	0.361111	0	G|0.986;A|0.014	0.014	strong	.	NPHP4	119	.	NM_015102	exon19	c.C2542T	p.R848W	TGACCCGAGATCT	.	PASS	Atlas-SNP
FAM102A	399665	hgsc.bcm.edu	37	9	130742413	130742413	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	68.0	27.0	75.0	0.0	0.397059	0	.	.	none	.	FAM102A	32	.	NM_001035254	exon1	c.G4A	p.A2T	AGAAAGCCATGAG	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230428	23230428	+	Missense_Mutation	SNP	C	C	G	rs151173231	by1000genomes;alternate_allele	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	86.0	22.0	107.0	0.0	0.255814	0	C|1.000;T|0.000	.	alt	IGLL5,caecum,carcinoma,+1,1	IGLL5	26	1	NM_001178126	exon1	c.C195G	p.S65R	GCGGAGCCTGTGG	.	PASS	Atlas-SNP
GIGYF2	26058	hgsc.bcm.edu	37	2	233697708	233697708	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	77.0	29.0	68.0	0.0	0.376623	0	.	.	none	.	GIGYF2	288	.	NM_001103147	exon24	c.C2734T	p.R912W	GTCCAGCGGCAGA	.	PASS	Atlas-SNP
DEF8	54849	hgsc.bcm.edu	37	16	90028509	90028509	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	107.0	74.0	78.0	0.0	0.691589	0	.	.	none	.	DEF8	28	.	NM_207514	exon9	c.C1080T	p.Y360Y	CAGCTACGTGGAG	.	PASS	Atlas-SNP
PARVA	55742	hgsc.bcm.edu	37	11	12540037	12540037	+	Silent	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	189.0	33.0	221.0	0.0	0.174603	0	.	.	none	.	PARVA	27	.	NM_018222	exon12	c.T1135C	p.L379L	GGAGGGTTGGAAA	.	PASS	Atlas-SNP
WWP2	11060	hgsc.bcm.edu	37	16	69922079	69922079	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	127.0	51.0	95.0	0.0	0.401575	0	.	.	none	.	WWP2	88	.	NM_001270454	exon8	c.G841A	p.G281R	GCTGAAGGAGAGG	.	PASS	Atlas-SNP
KRT37	8688	hgsc.bcm.edu	37	17	39580310	39580310	+	Missense_Mutation	SNP	G	G	A	rs142829376		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	73.0	47.0	91.0	1.0	0.643836	0.010989	G|1.000;A|0.000	0.000	weak	KRT37,hand,carcinoma,0,1	KRT37	61	1	NM_003770	exon1	c.C466T	p.R156C	TTGTACGGAAGTA	.	scavenged	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60898654	60898654	+	Silent	SNP	G	G	A	rs11696243	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	97.0	47.0	58.0	0.0	0.484536	0	G|0.980;A|0.020	0.020	strong	.	LAMA5	268	.	NM_005560	exon45	c.C5922T	p.N1974N	GTCACCGTTGCCG	.	PASS	Atlas-SNP
GAR1	54433	hgsc.bcm.edu	37	4	110739212	110739212	+	Missense_Mutation	SNP	A	A	G	rs143266987	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	60.0	30.0	81.0	0.0	0.5	0	A|1.000;G|0.000	0.000	weak	.	GAR1	16	.	NM_018983	exon3	c.A335G	p.K112R	TTGGAAAAGTGGA	.	PASS	Atlas-SNP
RYR3	6263	hgsc.bcm.edu	37	15	33954552	33954552	+	Silent	SNP	T	T	C	rs200740143	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	122.0	56.0	91.0	0.0	0.459016	0	T|0.999;C|0.001	0.001	strong	.	RYR3	760	.	NM_001243996	exon35	c.T4821C	p.Y1607Y	TTTCTATGACCTG	.	PASS	Atlas-SNP
CCDC89	220388	hgsc.bcm.edu	37	11	85396746	85396746	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	102.0	85.0	119.0	0.0	0.833333	0	.	.	none	.	CCDC89	45	.	NM_152723	exon1	c.A428G	p.Y143C	CTCTTGTATTCAT	.	PASS	Atlas-SNP
H2AFY	9555	hgsc.bcm.edu	37	5	134670756	134670756	+	Silent	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	236.0	70.0	250.0	0.0	0.29661	0	.	.	none	.	H2AFY	61	.	NM_138610	exon9	c.C1029G	p.S343S	GGAAGAGGACATT	.	PASS	Atlas-SNP
HMCN1	83872	hgsc.bcm.edu	37	1	186121995	186121995	+	Missense_Mutation	SNP	A	A	T	rs114364265	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	170.0	87.0	215.0	0.0	0.511765	0	A|0.996;T|0.004	0.004	strong	.	HMCN1	797	.	NM_031935	exon96	c.A15010T	p.T5004S	GAAGTCACTGTAA	.	PASS	Atlas-SNP
ESPN	83715	hgsc.bcm.edu	37	1	6500712	6500712	+	Silent	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	12.0	10.0	9.0	0.0	0.833333	0	.	.	none	.	ESPN	32	.	NM_031475	exon4	c.C702G	p.S234S	CCTGTCCGAGCAG	.	PASS	Atlas-SNP
CADM2	253559	hgsc.bcm.edu	37	3	85935455	85935455	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	124.0	31.0	188.0	0.0	0.25	0	.	.	none	.	CADM2	195	.	NM_001167675	exon5	c.C507A	p.F169L	ATGGTTCAAAAAT	.	PASS	Atlas-SNP
SREBF2	6721	hgsc.bcm.edu	37	22	42290890	42290890	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	73.0	21.0	60.0	0.0	0.287671	0	.	.	none	.	SREBF2	99	.	NM_004599	exon13	c.T2444C	p.L815S	AGTCCTTGGTGAA	.	PASS	Atlas-SNP
IRF8	3394	hgsc.bcm.edu	37	16	85942659	85942659	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	107.0	24.0	87.0	0.0	0.224299	0	.	.	none	IRF8,NS,neuroblastoma,-1,1	IRF8	65	1	NM_002163	exon3	c.A238G	p.T80A	TGGAAGACGAGGT	.	PASS	Atlas-SNP
LRRC15	131578	hgsc.bcm.edu	37	3	194080174	194080174	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	142.0	45.0	133.0	0.0	0.316901	0	.	.	none	.	LRRC15	137	.	NM_001135057	exon3	c.C1617T	p.T539T	GGCCTGGGTCATG	.	PASS	Atlas-SNP
KRT84	3890	hgsc.bcm.edu	37	12	52777466	52777466	+	Silent	SNP	C	C	A	rs138204915	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	129.0	69.0	144.0	0.0	0.534884	0	C|0.998;A|0.002	0.002	strong	.	KRT84	61	.	NM_033045	exon2	c.G663T	p.L221L	CCTCCGCAGGTTG	.	PASS	Atlas-SNP
FER	2241	hgsc.bcm.edu	37	5	108294979	108294979	+	Silent	SNP	T	T	C	rs34869483	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	108.0	64.0	138.0	0.0	0.592593	0	T|0.988;C|0.012	0.012	strong	.	FER	100	.	NM_005246	exon13	c.T1587C	p.D529D	TATAGATCATCAC	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79027030	79027030	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	100.0	20.0	139.0	0.0	0.2	0	.	.	none	.	CMYA5	643	.	NM_153610	exon2	c.A2442T	p.K814N	AAAGAAAATAATC	.	PASS	Atlas-SNP
SAMD8	142891	hgsc.bcm.edu	37	10	76910705	76910705	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	88.0	20.0	115.0	0.0	0.227273	0	.	.	none	.	SAMD8	57	.	NM_144660	exon2	c.A419T	p.H140L	ACAAACATTCTGT	.	PASS	Atlas-SNP
TUT1	64852	hgsc.bcm.edu	37	11	62343141	62343141	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	133.0	111.0	152.0	0.0	0.834586	0	.	.	none	.	TUT1	122	.	NM_022830	exon9	c.G2164A	p.G722S	CCCCACCGTCCCC	.	PASS	Atlas-SNP
ANKRD30A	91074	hgsc.bcm.edu	37	10	37442545	37442545	+	Missense_Mutation	SNP	G	G	T	rs200557667	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	714.0	132.0	779.0	0.0	0.184874	0	G|0.999;T|0.001	0.001	weak	ANKRD30A,NS,carcinoma,0,1	ANKRD30A	448	1	NM_052997	exon13	c.G1585T	p.A529S	CCCAAGGCTACAC	.	scavenged	Atlas-SNP
TEKT5	146279	hgsc.bcm.edu	37	16	10788624	10788624	+	Missense_Mutation	SNP	T	T	C	rs145995713	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	69.0	56.0	73.0	0.0	0.811594	0	T|0.994;C|0.006	0.006	strong	.	TEKT5	66	.	NM_144674	exon1	c.A107G	p.Y36C	GGCTGATAGCATT	.	PASS	Atlas-SNP
MFHAS1	9258	hgsc.bcm.edu	37	8	8748686	8748686	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	39.0	15.0	55.0	0.0	0.384615	0	.	.	none	.	MFHAS1	58	.	NM_004225	exon1	c.G1883C	p.S628T	CTGCAGCTAACAG	.	PASS	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56202470	56202470	+	Missense_Mutation	SNP	G	G	A	rs55656447	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	40.0	21.0	62.0	0.0	0.525	0	G|0.987;A|0.013	0.013	strong	.	ALPK2	487	.	NM_052947	exon5	c.C4949T	p.A1650V	GTCTTCGCTGAGG	.	PASS	Atlas-SNP
MFSD3	113655	hgsc.bcm.edu	37	8	145735120	145735120	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	32.0	18.0	29.0	0.0	0.5625	0	.	.	none	.	MFSD3	17	.	NM_138431	exon1	c.G404C	p.G135A	GGCCGGGCAATAC	.	PASS	Atlas-SNP
SWAP70	23075	hgsc.bcm.edu	37	11	9685781	9685781	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	251.0	57.0	161.0	0.0	0.227092	0	.	.	none	.	SWAP70	40	.	NM_015055	exon1	c.C55G	p.L19V	ACCGCACTCGACC	.	PASS	Atlas-SNP
DCLK3	85443	hgsc.bcm.edu	37	3	36759599	36759599	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	89.0	28.0	67.0	0.0	0.314607	0	.	.	none	.	DCLK3	95	.	NM_033403	exon4	c.C1655G	p.P552R	CGGAATGGGGGAA	.	PASS	Atlas-SNP
CRIPAK	285464	hgsc.bcm.edu	37	4	1389046	1389046	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	59.0	9.0	82.0	0.0	0.152542	0	.	.	none	CRIPAK,colon,carcinoma,0,1	CRIPAK	185	1	NM_175918	exon1	c.C747T	p.A249A	GAGTGCCCGCCTG	.	PASS	Atlas-SNP
WDR66	144406	hgsc.bcm.edu	37	12	122413481	122413481	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	132.0	59.0	150.0	0.0	0.44697	0	.	.	none	.	WDR66	143	.	NM_144668	exon19	c.C2896T	p.R966C	CAGCTCCGCAGTC	.	PASS	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	37	6	152763258	152763258	+	Silent	SNP	T	T	C	rs138705766	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	43.0	33.0	66.0	0.0	0.767442	0	T|0.983;C|0.017	0.017	strong	.	SYNE1	3227	.	NM_033071	exon31	c.A3981G	p.T1327T	ATCCAGTGTGCTC	.	PASS	Atlas-SNP
SNAPC4	6621	hgsc.bcm.edu	37	9	139276448	139276448	+	Silent	SNP	A	A	G	rs150900916	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	112.0	62.0	157.0	0.0	0.553571	0	A|0.999;G|0.001	0.001	strong	.	SNAPC4	82	.	NM_003086	exon17	c.T2145C	p.H715H	CTGCACATGGGAT	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201163306	201163306	+	Missense_Mutation	SNP	C	C	G	rs41313898	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	116.0	116.0	122.0	0.0	1	0	C|0.999;G|0.001	0.001	strong	.	IGFN1	220	.	NM_001164586	exon3	c.C32G	p.P11R	ACATCCCTGGAGT	.	PASS	Atlas-SNP
PCNXL3	399909	hgsc.bcm.edu	37	11	65386029	65386029	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	53.0	16.0	47.0	0.0	0.301887	0	.	.	none	.	PCNXL3	140	.	NM_032223	exon6	c.G1196A	p.R399Q	CCCTGCGAAGACA	.	PASS	Atlas-SNP
ZNF345	25850	hgsc.bcm.edu	37	19	37368492	37368492	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	41.0	13.0	64.0	0.0	0.317073	0	.	.	none	.	ZNF345	68	.	NM_001242476	exon4	c.G760C	p.G254R	CATACCGGTGAGA	.	PASS	Atlas-SNP
SPAG9	9043	hgsc.bcm.edu	37	17	49067870	49067870	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	146.0	75.0	192.0	0.0	0.513699	0	.	.	none	.	SPAG9	151	.	NM_001130528	exon20	c.C2558T	p.T853M	GCTCCCGTCACAC	.	PASS	Atlas-SNP
C19orf45	374877	hgsc.bcm.edu	37	19	7569245	7569245	+	Missense_Mutation	SNP	A	A	G	rs145077335	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	116.0	70.0	111.0	0.0	0.603448	0	A|0.999;G|0.001	0.001	strong	.	C19orf45	36	.	NM_198534	exon4	c.A730G	p.T244A	GGATCAACGTGTT	.	PASS	Atlas-SNP
TMCO4	255104	hgsc.bcm.edu	37	1	20072082	20072082	+	Missense_Mutation	SNP	C	C	T	rs35760408	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	130.0	54.0	160.0	0.0	0.415385	0	C|0.981;T|0.019	0.019	strong	.	TMCO4	46	.	NM_181719	exon10	c.G820A	p.G274S	GCCTGCCCTCCGT	.	PASS	Atlas-SNP
PCNX	22990	hgsc.bcm.edu	37	14	71502824	71502824	+	Missense_Mutation	SNP	G	G	T	rs117405927	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	191.0	98.0	242.0	0.0	0.513089	0	G|0.999;T|0.001	0.001	strong	.	PCNX	198	.	NM_014982	exon19	c.G3817T	p.G1273C	GTAATTGGTGTGC	.	PASS	Atlas-SNP
ASB17	127247	hgsc.bcm.edu	37	1	76397871	76397871	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	147.0	42.0	172.0	0.0	0.285714	0	.	.	none	.	ASB17	53	.	NM_080868	exon1	c.G106A	p.G36S	ACTGACCCAAAAA	.	PASS	Atlas-SNP
SEMA3A	10371	hgsc.bcm.edu	37	7	83764113	83764113	+	Silent	SNP	T	T	C	rs74349534	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	72.0	38.0	56.0	0.0	0.527778	0	T|0.993;C|0.007	0.007	strong	.	SEMA3A	121	.	NM_006080	exon2	c.A267G	p.Q89Q	TACCTTTTGAAAA	.	PASS	Atlas-SNP
PANK4	55229	hgsc.bcm.edu	37	1	2449631	2449631	+	Missense_Mutation	SNP	C	C	G	rs144881953	alternate_allele	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	26.0	8.0	47.0	0.0	0.307692	0	C|1.000;T|0.000	.	alt	.	PANK4	64	.	NM_018216	exon9	c.G1190C	p.G397A	GCCGGGCCGAGCT	.	PASS	Atlas-SNP
LILRA6	79168	hgsc.bcm.edu	37	19	54744711	54744711	+	Missense_Mutation	SNP	C	C	G	rs77137660	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	147.0	16.0	202.0	0.0	0.108844	0	C|0.976;G|0.024	0.024	strong	.	LILRA6	75	.	NM_024318	exon5	c.G951C	p.M317I	ACCTGCCATCAGG	.	PASS	Atlas-SNP
SPATA31C2	645961	hgsc.bcm.edu	37	9	90746159	90746159	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	78.0	20.0	106.0	0.0	0.25641	0	.	.	none	.	.	.	.	NM_001166137	exon4	c.G1793A	p.R598Q	CAGGATCGACGCA	.	PASS	Atlas-SNP
DIRAS3	9077	hgsc.bcm.edu	37	1	68512893	68512893	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	86.0	23.0	100.0	2.0	0.267442	0.02	.	.	none	DIRAS3,NS,carcinoma,+2,1	DIRAS3	31	1	NM_004675	exon2	c.A88C	p.K30Q	GGGGCTTGAAGGC	.	scavenged	Atlas-SNP
GPR88	54112	hgsc.bcm.edu	37	1	101005554	101005554	+	Silent	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	16.0	5.0	5.0	0.0	0.3125	0	.	.	none	.	GPR88	17	.	NM_022049	exon2	c.C1032A	p.R344R	GTTCCGCCGCTCC	.	PASS	Atlas-SNP
ADRM1	11047	hgsc.bcm.edu	37	20	60883192	60883192	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	48.0	12.0	72.0	0.0	0.25	0	.	.	none	.	ADRM1	28	.	NM_175573	exon8	c.G972A	p.A324A	GACCGCGGATGAG	.	PASS	Atlas-SNP
ABCB5	340273	hgsc.bcm.edu	37	7	20767981	20767981	+	Missense_Mutation	SNP	T	T	C	rs117749018	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	134.0	31.0	160.0	0.0	0.231343	0	T|0.992;C|0.008	0.008	strong	.	ABCB5	357	.	NM_001163941	exon23	c.T2770C	p.F924L	TATGCATTCAGCC	.	PASS	Atlas-SNP
SLC4A4	8671	hgsc.bcm.edu	37	4	72363294	72363294	+	Missense_Mutation	SNP	A	A	T	rs35891845	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	140.0	66.0	126.0	0.0	0.471429	0	A|0.998;T|0.002	0.002	strong	.	SLC4A4	269	.	NM_001098484	exon16	c.A2051T	p.N684I	TCGGGAACAACTG	.	PASS	Atlas-SNP
IFT140	9742	hgsc.bcm.edu	37	16	1652418	1652418	+	Missense_Mutation	SNP	C	C	T	rs146128830	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	85.0	15.0	79.0	0.0	0.176471	0	C|0.993;T|0.007	0.007	strong	IFT140,NS,carcinoma,0,1	IFT140	128	1	NM_014714	exon4	c.G322A	p.V108M	GGAGCACGGTGAT	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230394	23230394	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	114.0	24.0	135.0	0.0	0.210526	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.C161T	p.A54V	CTGGAGCCTCAGT	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228464303	228464303	+	Missense_Mutation	SNP	G	G	T	rs75280352	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	232.0	134.0	234.0	0.0	0.577586	0	G|0.993;T|0.007	0.007	strong	.	OBSCN	2142	.	NM_001271223	exon26	c.G7498T	p.A2500S	CACCTGGCTGTGC	.	PASS	Atlas-SNP
GGCX	2677	hgsc.bcm.edu	37	2	85788528	85788528	+	Silent	SNP	C	C	T	rs371622780		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	137.0	67.0	126.0	0.0	0.489051	0	.	.	weak	.	GGCX	44	.	NM_000821	exon1	c.G24A	p.A8A	GGTCCGCGCGGAC	.	PASS	Atlas-SNP
ZKSCAN4	387032	hgsc.bcm.edu	37	6	28213527	28213527	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	138.0	54.0	152.0	0.0	0.391304	0	.	.	none	.	ZKSCAN4	42	.	NM_019110	exon5	c.G1005A	p.L335L	TTTAGTCAGGCCT	.	PASS	Atlas-SNP
CLDND2	125875	hgsc.bcm.edu	37	19	51871194	51871194	+	Missense_Mutation	SNP	C	C	T	rs61736500	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	118.0	68.0	133.0	0.0	0.576271	0	C|0.995;T|0.005	0.005	strong	.	CLDND2	11	.	NM_152353	exon2	c.G256A	p.D86N	CCTCGTCGCACCG	.	PASS	Atlas-SNP
MTRR	4552	hgsc.bcm.edu	37	5	7900056	7900056	+	Missense_Mutation	SNP	A	A	G	rs148909799	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	129.0	67.0	153.0	0.0	0.51938	0	A|0.998;G|0.002	0.002	strong	.	MTRR	74	.	NM_024010	exon15	c.A2063G	p.H688R	ATGTACATGATGC	.	PASS	Atlas-SNP
ATP10B	23120	hgsc.bcm.edu	37	5	160115007	160115007	+	Silent	SNP	C	C	T	rs201071012	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	146.0	86.0	177.0	1.0	0.589041	0.00564972	C|0.996;T|0.005	0.005	strong	.	ATP10B	201	.	NM_025153	exon5	c.G75A	p.S25S	GGTTTCCGATGGA	.	PASS	Atlas-SNP
CHDH	55349	hgsc.bcm.edu	37	3	53855738	53855738	+	Silent	SNP	G	G	C	rs35064726	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	38.0	96.0	0.0	0.535211	0	G|0.958;C|0.042	0.042	strong	.	CHDH	34	.	NM_018397	exon5	c.C921G	p.L307L	GCCAGAGAGCATG	.	PASS	Atlas-SNP
HAS1	3036	hgsc.bcm.edu	37	19	52217174	52217174	+	Missense_Mutation	SNP	C	C	T	rs45625331	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	17.0	8.0	21.0	0.0	0.470588	0	C|0.997;T|0.003	0.003	strong	.	HAS1	61	.	NM_001523	exon5	c.G1243A	p.V415M	CCGCCACGAAGAA	.	PASS	Atlas-SNP
KRTAP4-11	653240	hgsc.bcm.edu	37	17	39274266	39274266	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	32.0	8.0	37.0	0.0	0.25	0	.	.	none	.	KRTAP4-11	94	.	NM_033059	exon1	c.G302A	p.R101H	CTGGGGCGGCAGC	.	PASS	Atlas-SNP
DAPK1	1612	hgsc.bcm.edu	37	9	90252966	90252966	+	Silent	SNP	C	C	T	rs55800264	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	75.0	32.0	110.0	0.0	0.426667	0	C|0.991;T|0.009	0.009	strong	.	DAPK1	329	.	NM_004938	exon4	c.C393T	p.H131H	CCTGCACTCCCTT	.	PASS	Atlas-SNP
OR13C3	138803	hgsc.bcm.edu	37	9	107298270	107298270	+	Silent	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	108.0	22.0	141.0	0.0	0.203704	0	.	.	none	.	OR13C3	45	.	NM_001001961	exon1	c.G825T	p.L275L	CACAGTCAGGTGA	.	PASS	Atlas-SNP
PTHLH	5744	hgsc.bcm.edu	37	12	28116465	28116465	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	169.0	38.0	214.0	0.0	0.224852	0	.	.	none	.	PTHLH	36	.	NM_198964	exon3	c.T340C	p.Y114H	CTTTGTACGTCTC	.	PASS	Atlas-SNP
C1orf110	339512	hgsc.bcm.edu	37	1	162824960	162824960	+	Silent	SNP	G	G	A	rs190249067	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	215.0	103.0	242.0	0.0	0.47907	0	G|0.999;A|0.001	0.001	strong	.	C1orf110	22	.	NM_178550	exon4	c.C504T	p.D168D	GTCTACGTCCTTA	.	PASS	Atlas-SNP
PHPT1	29085	hgsc.bcm.edu	37	9	139744578	139744578	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	146.0	39.0	111.0	0.0	0.267123	0	.	.	none	.	PHPT1	14	.	NM_001135861	exon2	c.G274A	p.G92S	GTGTACGGCTATT	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4841614	4841614	+	Missense_Mutation	SNP	C	C	T	rs117943885	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	119.0	22.0	89.0	0.0	0.184874	0	C|0.984;T|0.016	0.016	strong	.	RADIL	110	.	NM_018059	exon12	c.G2512A	p.V838M	GGACCACGTGGTG	.	PASS	Atlas-SNP
PPP2R3A	5523	hgsc.bcm.edu	37	3	135721208	135721208	+	Missense_Mutation	SNP	A	A	G	rs146596318	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	44.0	22.0	51.0	0.0	0.5	0	A|1.000;G|0.000	0.000	strong	.	PPP2R3A	114	.	NM_002718	exon2	c.A868G	p.K290E	TATCTGAAAAAGT	.	PASS	Atlas-SNP
RC3H2	54542	hgsc.bcm.edu	37	9	125639808	125639808	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	60.0	37.0	73.0	0.0	0.616667	0	.	.	none	.	RC3H2	150	.	NM_018835	exon9	c.G1267A	p.G423R	AACCCCCTTGCTG	.	PASS	Atlas-SNP
PIPOX	51268	hgsc.bcm.edu	37	17	27371919	27371919	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	108.0	18.0	109.0	0.0	0.166667	0	.	.	none	PIPOX,NS,carcinoma,-1,1	PIPOX	42	1	NM_016518	exon2	c.C157T	p.R53W	CAAAGCCGGATAA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195506676	195506676	+	Silent	SNP	G	G	A	rs147667126	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	117.0	112.0	205.0	0.0	0.957265	0	G|0.740;A|0.260	0.260	strong	.	MUC4	1505	.	NM_018406	exon2	c.C11775T	p.D3925D	GGAAACGTCGGTG	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40399508	40399508	+	Missense_Mutation	SNP	C	C	T	rs6508919	bycluster;by2hit2allele	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	126.0	22.0	128.0	0.0	0.174603	0	.	.	weak	FCGBP,NS,carcinoma,0,1	FCGBP	416	1	NM_003890	exon13	c.G6187A	p.G2063S	GGCAGCCGTGCTG	.	scavenged	Atlas-SNP
KIF13A	63971	hgsc.bcm.edu	37	6	17764896	17764896	+	Missense_Mutation	SNP	G	G	C	rs41267712	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	67.0	37.0	83.0	0.0	0.552239	0	G|0.995;C|0.005	0.005	strong	.	KIF13A	276	.	NM_022113	exon39	c.C4863G	p.D1621E	CAGCTGGTCTGAG	.	PASS	Atlas-SNP
PPP1R32	220004	hgsc.bcm.edu	37	11	61252200	61252200	+	Missense_Mutation	SNP	A	A	G	rs146231065	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	84.0	48.0	106.0	0.0	0.571429	0	A|0.995;G|0.005	0.005	strong	.	.	.	.	NM_001170753	exon5	c.A422G	p.Q141R	GGCCTCAGGCCAT	.	PASS	Atlas-SNP
TRIM63	84676	hgsc.bcm.edu	37	1	26384973	26384973	+	Nonsense_Mutation	SNP	G	G	A	rs148395034	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	160.0	73.0	153.0	0.0	0.45625	0	G|0.999;A|0.001	0.001	strong	.	TRIM63	33	.	NM_032588	exon5	c.C739T	p.Q247X	ACTGCTGGATGAG	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100683796	100683796	+	Silent	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	35.0	2.0	24.0	0.0	0.0571429	0	.	.	none	MUC17,caecum,carcinoma,+2,2	MUC17	804	2	NM_001040105	exon3	c.T9099C	p.G3033G	TGAAGGTACCGGC	.	scavenged	Atlas-SNP
SCAPER	49855	hgsc.bcm.edu	37	15	77025687	77025687	+	Silent	SNP	C	C	T	rs144694379	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	189.0	103.0	180.0	0.0	0.544974	0	C|0.988;T|0.012	0.012	strong	SCAPER_ENST00000538941,NS,carcinoma,-2,2	SCAPER	160	2	NM_020843	exon15	c.G1905A	p.Q635Q	TTTATTCTGGGCT	.	PASS	Atlas-SNP
TMEM44	93109	hgsc.bcm.edu	37	3	194346704	194346704	+	Missense_Mutation	SNP	A	A	G	rs140271606	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	195.0	90.0	218.0	0.0	0.461538	0	A|0.998;G|0.002	0.002	strong	.	TMEM44	42	.	NM_138399	exon3	c.T280C	p.Y94H	CTAGGTAGGCACC	.	PASS	Atlas-SNP
HSPA6	3310	hgsc.bcm.edu	37	1	161495344	161495344	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	75.0	17.0	101.0	0.0	0.226667	0	.	.	none	.	HSPA6	53	.	NM_002155	exon1	c.T896C	p.I299T	CGTCCATCACTCG	.	PASS	Atlas-SNP
SLIT2	9353	hgsc.bcm.edu	37	4	20487867	20487867	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	163.0	45.0	269.0	0.0	0.276074	0	.	.	none	.	SLIT2	290	.	NM_004787	exon7	c.T584C	p.F195S	CAAGTTTCAACCA	.	PASS	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	37	14	105417683	105417683	+	Missense_Mutation	SNP	C	C	T	rs367930189		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	88.0	4.0	0.0	0.0	0.0454545	.	.	.	weak	AHNAK2_ENST00000333244,NS,carcinoma,+2,1	AHNAK2	719	1	NM_138420	exon7	c.G4105A	p.G1369R	GGTCCCCCTGCAT	.	PASS	Atlas-SNP
LGALS14	56891	hgsc.bcm.edu	37	19	40196548	40196548	+	Missense_Mutation	SNP	A	A	G	rs140242272	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	156.0	72.0	157.0	0.0	0.461538	0	A|0.999;G|0.001	0.001	strong	.	LGALS14	38	.	NM_203471	exon2	c.A1G	p.M1V	CCAGTTATGTCCC	.	PASS	Atlas-SNP
ENGASE	64772	hgsc.bcm.edu	37	17	77082174	77082174	+	Missense_Mutation	SNP	C	C	T	rs117014247	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	63.0	42.0	70.0	0.0	0.666667	0	C|0.982;T|0.018	0.018	strong	.	ENGASE	55	.	NM_001042573	exon14	c.C1975T	p.R659C	CAAGTCCGTTGCT	.	PASS	Atlas-SNP
UTRN	7402	hgsc.bcm.edu	37	6	144774982	144774982	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	58.0	30.0	87.0	0.0	0.517241	0	.	.	none	.	UTRN	327	.	NM_007124	exon18	c.T2261G	p.I754S	GACAAATCCTTGT	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230312	23230312	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	159.0	41.0	152.0	0.0	0.257862	0	.	.	none	IGLL5,NS,lymphoid_neoplasm,-2,1	IGLL5	26	1	NM_001178126	exon1	c.C79T	p.L27L	CCCCTGCTGCTGC	.	PASS	Atlas-SNP
WNK1	65125	hgsc.bcm.edu	37	12	939268	939268	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	293.0	72.0	280.0	0.0	0.245734	0	.	.	none	.	WNK1	403	.	NM_001184985	exon4	c.C1253A	p.S418Y	CTACATCTGAATA	.	PASS	Atlas-SNP
HCN4	10021	hgsc.bcm.edu	37	15	73615097	73615097	+	Missense_Mutation	SNP	T	T	C	rs142735148	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	33.0	19.0	24.0	0.0	0.575758	0	T|0.992;C|0.008	0.008	strong	.	HCN4	150	.	NM_005477	exon8	c.A3337G	p.M1113V	CAGCCATGGACTC	.	PASS	Atlas-SNP
CNST	163882	hgsc.bcm.edu	37	1	246829147	246829147	+	Missense_Mutation	SNP	C	C	G	rs138848173	alternate_allele	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	128.0	54.0	137.0	0.0	0.421875	0	C|1.000;T|0.000	.	alt	.	CNST	73	.	NM_152609	exon11	c.C2118G	p.F706L	GGACTTCTATTAC	.	PASS	Atlas-SNP
MAP4K4	9448	hgsc.bcm.edu	37	2	102314984	102314984	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	312.0	90.0	402.0	1.0	0.288462	0.00248756	.	.	none	.	MAP4K4	111	.	NM_004834	exon2	c.A107T	p.Y36F	GCACCTATGGACA	.	PASS	Atlas-SNP
TEAD4	7004	hgsc.bcm.edu	37	12	3120180	3120180	+	Silent	SNP	G	G	A	rs147476820	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	139.0	78.0	127.0	0.0	0.561151	0	G|0.999;A|0.001	0.001	strong	.	TEAD4	45	.	NM_003213	exon4	c.G237A	p.E79E	GAACGAGCTGATT	.	PASS	Atlas-SNP
OR2M3	127062	hgsc.bcm.edu	37	1	248366632	248366632	+	Missense_Mutation	SNP	G	G	T	rs139107079	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	142.0	68.0	207.0	0.0	0.478873	0	G|0.999;T|0.001	0.001	strong	.	OR2M3	116	.	NM_001004689	exon1	c.G263T	p.G88V	TGTCTGGCAGCAA	.	PASS	Atlas-SNP
MINA	84864	hgsc.bcm.edu	37	3	97686159	97686159	+	Silent	SNP	C	C	T	rs34097037	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	107.0	51.0	103.0	0.0	0.476636	0	C|0.996;T|0.004	0.004	strong	.	MINA	39	.	NM_001261829	exon2	c.G279A	p.G93G	GTACATCCCCCGG	.	PASS	Atlas-SNP
LAMA3	3909	hgsc.bcm.edu	37	18	21453038	21453038	+	Silent	SNP	C	C	T	rs145044428	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	86.0	41.0	97.0	0.0	0.476744	0	C|0.999;T|0.001	0.001	strong	.	LAMA3	397	.	NM_001127718	exon1	c.C30T	p.C10C	AGCCTGCAGCATG	.	PASS	Atlas-SNP
MCM10	55388	hgsc.bcm.edu	37	10	13230915	13230915	+	Missense_Mutation	SNP	C	C	T	rs35114749	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	88.0	38.0	106.0	0.0	0.431818	0	C|0.991;T|0.009	0.009	strong	.	MCM10	76	.	NM_182751	exon10	c.C1253T	p.A418V	TCCAGGCTCAGTA	.	PASS	Atlas-SNP
CMKLR1	1240	hgsc.bcm.edu	37	12	108686572	108686572	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	117.0	28.0	169.0	0.0	0.239316	0	.	.	none	CMKLR1,NS,carcinoma,-2,1	CMKLR1	67	1	NM_001142344	exon3	c.G168A	p.L56L	ATTGCCCAGAATC	.	PASS	Atlas-SNP
KLHL13	90293	hgsc.bcm.edu	37	X	117035896	117035896	+	Silent	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	112.0	34.0	157.0	0.0	0.303571	0	.	.	none	.	KLHL13	87	.	NM_001168299	exon7	c.T1389C	p.C463C	ATTGTAACATTCT	.	PASS	Atlas-SNP
STOX2	56977	hgsc.bcm.edu	37	4	184930961	184930961	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	51.0	11.0	64.0	0.0	0.215686	0	.	.	none	.	STOX2	142	.	NM_020225	exon3	c.G970A	p.V324M	CTGACCGTGGAAA	.	PASS	Atlas-SNP
BTBD6	90135	hgsc.bcm.edu	37	14	105716854	105716854	+	Missense_Mutation	SNP	G	G	A	rs146426875	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	56.0	29.0	70.0	0.0	0.517857	0	G|0.997;A|0.003	0.003	strong	.	BTBD6	24	.	NM_033271	exon5	c.G1303A	p.V435I	AGTGCCGTCCTGG	.	PASS	Atlas-SNP
ZFAT	57623	hgsc.bcm.edu	37	8	135622851	135622851	+	Missense_Mutation	SNP	G	G	A	rs75596750	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	286.0	62.0	309.0	0.0	0.216783	0	G|0.999;A|0.001	0.001	strong	.	ZFAT	265	.	NM_020863	exon4	c.C496T	p.R166W	TTTCCCGATCATC	.	PASS	Atlas-SNP
UNC13A	23025	hgsc.bcm.edu	37	19	17749893	17749893	+	Missense_Mutation	SNP	G	G	A	rs200328448	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	67.0	39.0	86.0	0.0	0.58209	0	G|0.996;A|0.004	0.004	strong	UNC13A_ENST00000519716,NS,carcinoma,0,2	UNC13A	299	2	NM_001080421	exon24	c.C3080T	p.P1027L	CTCACCGGGTCTG	.	PASS	Atlas-SNP
SH3BP4	23677	hgsc.bcm.edu	37	2	235951183	235951183	+	Silent	SNP	G	G	A	rs140262787	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	73.0	38.0	104.0	0.0	0.520548	0	G|0.992;A|0.008	0.008	strong	SH3BP4,NS,carcinoma,+2,1	SH3BP4	109	1	NM_014521	exon4	c.G1770A	p.R590R	GCTGCGGGTTCAG	.	PASS	Atlas-SNP
PIGS	94005	hgsc.bcm.edu	37	17	26881923	26881923	+	Silent	SNP	C	C	T	rs146249165	byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	111.0	53.0	134.0	0.0	0.477477	0	C|1.000;T|0.000	0.000	strong	.	PIGS	42	.	NM_033198	exon11	c.G1338A	p.A446A	AAGCTGCGCCAGG	.	PASS	Atlas-SNP
SF3B1	23451	hgsc.bcm.edu	37	2	198257075	198257075	+	Silent	SNP	G	G	A	rs78516934	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	106.0	40.0	111.0	0.0	0.377358	0	G|0.993;A|0.007	0.007	strong	.	SF3B1	1038	.	NM_012433	exon25	c.C3867T	p.N1289N	ATCATCGTTGTAG	.	PASS	Atlas-SNP
CAV1	857	hgsc.bcm.edu	37	7	116165140	116165140	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	92.0	37.0	122.0	0.0	0.402174	0	.	.	none	.	CAV1	13	.	NM_001753	exon1	c.C24A	p.D8E	CGTAGACTCGGAG	.	PASS	Atlas-SNP
RAVER1	125950	hgsc.bcm.edu	37	19	10439501	10439501	+	Silent	SNP	C	C	T	rs3745263	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	187.0	86.0	249.0	0.0	0.459893	0	C|0.971;T|0.029	0.029	strong	.	RAVER1	67	.	NM_133452	exon3	c.G624A	p.S208S	CAGGTCCGACTTG	.	PASS	Atlas-SNP
CBX3	11335	hgsc.bcm.edu	37	7	26245986	26245986	+	Splice_Site	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	26.0	6.0	37.0	1.0	0.230769	0.027027	.	.	none	CBX3,colon,adenoma,0,1	CBX3	25	1	NM_007276	exon3	c.25-2A>T	.	TATTTTAGCAAAA	.	scavenged	Atlas-SNP
PCNXL4	64430	hgsc.bcm.edu	37	14	60592491	60592491	+	Missense_Mutation	SNP	A	A	G	rs145320435	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	101.0	48.0	99.0	0.0	0.475248	0	A|0.998;G|0.002	0.002	strong	.	.	.	.	NM_022495	exon9	c.A2515G	p.I839V	GAAGCAATTTTAC	.	PASS	Atlas-SNP
HSD17B3	3293	hgsc.bcm.edu	37	9	99064378	99064378	+	Silent	SNP	G	G	A	rs139582148	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	109.0	56.0	97.0	0.0	0.513761	0	G|0.999;A|0.001	0.001	strong	.	HSD17B3	32	.	NM_000197	exon1	c.C9T	p.D3D	CAGGACGTCCCCC	.	PASS	Atlas-SNP
SSPO	23145	hgsc.bcm.edu	37	7	149520553	149520553	+	Silent	SNP	G	G	A	rs141884347	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	45.0	18.0	37.0	0.0	0.4	0	G|0.990;A|0.010	0.010	strong	.	.	.	.	NM_198455	exon92	c.G13371A	p.P4457P	CCAGCCGGGCTGC	.	PASS	Atlas-SNP
HIST1H2AC	8334	hgsc.bcm.edu	37	6	26124563	26124563	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	100.0	32.0	99.0	0.0	0.32	0	.	.	none	.	HIST1H2AC	29	.	NM_003512	exon1	c.C103G	p.L35V	CGCCTGCTCCGTA	.	PASS	Atlas-SNP
PSPH	5723	hgsc.bcm.edu	37	7	56084977	56084977	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	508.0	130.0	548.0	1.0	0.255906	0.00182482	.	.	none	.	PSPH	23	.	NM_004577	exon6	c.A371G	p.N124S	GGGATATTGAGCT	.	PASS	Atlas-SNP
MKS1	54903	hgsc.bcm.edu	37	17	56294075	56294075	+	Missense_Mutation	SNP	G	G	C	rs142813109	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	151.0	71.0	158.0	0.0	0.470199	0	G|0.996;C|0.004	0.004	strong	MKS1_ENST00000337050,NS,carcinoma,0,2	MKS1	100	2	NM_017777	exon3	c.C213G	p.D71E	CTCTTCGTCTTCC	.	PASS	Atlas-SNP
PRCC	5546	hgsc.bcm.edu	37	1	156756948	156756948	+	Silent	SNP	C	C	T	rs201827573	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	327.0	157.0	405.0	0.0	0.480122	0	C|0.999;T|0.001	0.001	strong	.	PRCC	39	.	NM_005973	exon3	c.C1065T	p.A355A	CAATGCCGCTGGT	.	PASS	Atlas-SNP
NCOA2	10499	hgsc.bcm.edu	37	8	71126255	71126255	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	77.0	4.0	108.0	0.0	0.0519481	0	.	.	none	NCOA2,NS,carcinoma,0,1	NCOA2	147	1	NM_006540	exon4	c.G142A	p.E48K	CAAGTTCTTCTAT	.	PASS	Atlas-SNP
GGT1	2678	hgsc.bcm.edu	37	22	25023881	25023881	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	431.0	104.0	538.0	0.0	0.241299	0	.	.	none	.	GGT1	68	.	NM_013430	exon13	c.T1271G	p.F424C	ACGACTTCAGCTC	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230419	23230419	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	97.0	25.0	113.0	0.0	0.257732	0	.	.	none	.	IGLL5	26	.	NM_001256296	exon1	c.C80T	p.A27V	ATCCAGCCTGCGG	.	PASS	Atlas-SNP
DARS2	55157	hgsc.bcm.edu	37	1	173822936	173822936	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	63.0	15.0	93.0	0.0	0.238095	0	.	.	none	.	DARS2	61	.	NM_018122	exon15	c.C1567T	p.R523C	TAGGCCCGTAGCC	.	PASS	Atlas-SNP
GH1	2688	hgsc.bcm.edu	37	17	61995189	61995189	+	Silent	SNP	G	G	A	rs370785603		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	101.0	30.0	131.0	1.0	0.29703	0.00763359	.	.	weak	GH1,caecum,carcinoma,0,1	GH1	39	1	NM_000515	exon4	c.C387T	p.Y129Y	GGCGCCGTACACC	.	scavenged	Atlas-SNP
TLN2	83660	hgsc.bcm.edu	37	15	62994208	62994208	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	129.0	65.0	104.0	0.0	0.503876	0	.	.	none	.	TLN2	253	.	NM_015059	exon15	c.G1714A	p.D572N	GACACTGACTACA	.	PASS	Atlas-SNP
TMF1	7110	hgsc.bcm.edu	37	3	69073223	69073223	+	Missense_Mutation	SNP	G	G	A	rs185749329	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	138.0	70.0	132.0	0.0	0.507246	0	G|0.999;A|0.001	0.001	strong	.	TMF1	77	.	NM_007114	exon16	c.C3121T	p.L1041F	TTCTAAGTTTGGG	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	37	7	116339282	116339282	+	Silent	SNP	G	G	A	rs11762213	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	136.0	69.0	126.0	0.0	0.507353	0	G|0.974;A|0.026	0.026	strong	MET,NS,adenocarcinoma,+1,2	MET	412	2	NM_000245	exon2	c.G144A	p.A48A	CACCGCGGAAACA	.	PASS	Atlas-SNP
PHTF2	57157	hgsc.bcm.edu	37	7	77567051	77567051	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	83.0	5.0	94.0	0.0	0.060241	0	.	.	none	.	PHTF2	104	.	NM_001127357	exon11	c.T1261C	p.S421P	CATAGTTCCCACC	.	PASS	Atlas-SNP
ATP2A1	487	hgsc.bcm.edu	37	16	28898778	28898778	+	Silent	SNP	C	C	G	rs113803159	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	74.0	43.0	61.0	0.0	0.581081	0	C|0.995;G|0.005	0.005	strong	.	ATP2A1	116	.	NM_004320	exon8	c.C663G	p.G221G	CTTGGGCATCGTG	.	PASS	Atlas-SNP
SLC19A3	80704	hgsc.bcm.edu	37	2	228563835	228563835	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	90.0	23.0	117.0	0.0	0.255556	0	.	.	none	.	SLC19A3	62	.	NM_025243	exon3	c.T596G	p.F199C	GCATGAAAAAACA	.	PASS	Atlas-SNP
PRKD1	5587	hgsc.bcm.edu	37	14	30066914	30066914	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	38.0	9.0	60.0	0.0	0.236842	0	.	.	none	.	PRKD1	316	.	NM_002742	exon16	c.C2217A	p.F739L	CCTCCGGAAAGAC	.	PASS	Atlas-SNP
C3orf67	200844	hgsc.bcm.edu	37	3	58870321	58870321	+	Missense_Mutation	SNP	C	C	T	rs116534917	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	170.0	78.0	188.0	0.0	0.458824	0	C|0.994;T|0.006	0.006	strong	C3orf67,NS,carcinoma,-1,1	C3orf67	45	1	NM_198463	exon7	c.G290A	p.R97H	GTTTGGCGAAGTT	.	PASS	Atlas-SNP
SAFB2	9667	hgsc.bcm.edu	37	19	5622579	5622579	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	105.0	37.0	93.0	0.0	0.352381	0	.	.	none	.	SAFB2	90	.	NM_014649	exon1	c.G148A	p.G50S	TGCCGCCCGTGTC	.	PASS	Atlas-SNP
LRRTM1	347730	hgsc.bcm.edu	37	2	80529595	80529595	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	91.0	22.0	83.0	0.0	0.241758	0	.	.	none	.	LRRTM1	251	.	NM_178839	exon2	c.G1350A	p.W450X	ACACTTCCAGGAC	.	PASS	Atlas-SNP
PHACTR3	116154	hgsc.bcm.edu	37	20	58342349	58342349	+	Missense_Mutation	SNP	C	C	T	rs73598372	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	109.0	58.0	128.0	0.0	0.53211	0	C|0.989;T|0.011	0.011	strong	.	PHACTR3	104	.	NM_080672	exon5	c.C650T	p.P217L	ACAGTCCTCCCAG	.	PASS	Atlas-SNP
BCL7A	605	hgsc.bcm.edu	37	12	122460048	122460048	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	47.0	8.0	32.0	0.0	0.170213	0	.	.	none	.	BCL7A	31	.	NM_020993	exon1	c.T51G	p.D17E	AGATGATATCAAG	.	PASS	Atlas-SNP
FAM188B	84182	hgsc.bcm.edu	37	7	30818128	30818128	+	Silent	SNP	A	A	G	rs200053449	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	205.0	47.0	224.0	0.0	0.229268	0	A|0.998;G|0.002	0.002	strong	FAM188B,colon,carcinoma,+2,4	FAM188B	62	4	NM_032222	exon2	c.A144G	p.R48R	TCTTCGAAAGGTT	.	PASS	Atlas-SNP
LRPPRC	10128	hgsc.bcm.edu	37	2	44201317	44201317	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	555.0	64.0	347.0	0.0	0.115315	0	.	.	none	.	LRPPRC	105	.	NM_133259	exon9	c.T1127G	p.F376C	TGTAAAAAGAAAC	.	PASS	Atlas-SNP
SLC16A3	9123	hgsc.bcm.edu	37	17	80195163	80195163	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	108.0	34.0	93.0	0.0	0.314815	0	.	.	none	.	SLC16A3	19	.	NM_001206950	exon4	c.C517T	p.R173C	CAGGACCGCTACG	.	PASS	Atlas-SNP
DHRS2	10202	hgsc.bcm.edu	37	14	24114437	24114437	+	Missense_Mutation	SNP	T	T	A	rs146187363	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	84.0	38.0	108.0	0.0	0.452381	0	T|1.000;A|0.000	0.000	weak	.	DHRS2	78	.	NM_182908	exon9	c.T829A	p.W277R	TTGCGGTGGCAGG	.	PASS	Atlas-SNP
GIT1	28964	hgsc.bcm.edu	37	17	27903998	27903998	+	Silent	SNP	A	A	C	rs144787773		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	31.0	19.0	36.0	0.0	0.612903	0	A|0.998;C|0.002	0.002	weak	.	GIT1	84	.	NM_001085454	exon13	c.T1137G	p.S379S	CCGCAGAGACAGC	.	PASS	Atlas-SNP
CHRD	8646	hgsc.bcm.edu	37	3	184099050	184099050	+	Missense_Mutation	SNP	C	C	T	rs34095724	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	250.0	144.0	267.0	0.0	0.576	0	C|0.949;T|0.051	0.051	strong	.	CHRD	149	.	NM_003741	exon3	c.C280T	p.P94S	AGGGGCCCTGGCA	.	PASS	Atlas-SNP
SPATA5L1	79029	hgsc.bcm.edu	37	15	45695445	45695445	+	Missense_Mutation	SNP	C	C	G	rs143453038	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	22.0	6.0	5.0	0.0	0.272727	0	C|0.982;G|0.018	0.018	strong	.	SPATA5L1	40	.	NM_024063	exon1	c.C818G	p.S273C	AGGGTTCCCGGCC	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60887028	60887028	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	51.0	5.0	80.0	0.0	0.0980392	0	.	.	none	.	LAMA5	268	.	NM_005560	exon70	c.G9583A	p.G3195S	CGAAGCCCGCTTG	.	PASS	Atlas-SNP
SPTBN2	6712	hgsc.bcm.edu	37	11	66476403	66476403	+	Silent	SNP	G	G	A	rs74909073	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	95.0	28.0	96.0	0.0	0.294737	0	G|0.996;A|0.004	0.004	strong	SPTBN2,colon,carcinoma,-2,3	SPTBN2	188	3	NM_006946	exon10	c.C1161T	p.R387R	GCCCTCGCGGGGC	.	PASS	Atlas-SNP
KRT82	3888	hgsc.bcm.edu	37	12	52788814	52788814	+	Missense_Mutation	SNP	C	C	T	rs61730587	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	114.0	56.0	150.0	0.0	0.491228	0	C|0.991;T|0.009	0.009	strong	KRT82,NS,carcinoma,-1,1	KRT82	45	1	NM_033033	exon9	c.G1487A	p.R496Q	GATTTCCGCCCGC	.	PASS	Atlas-SNP
SRGN	5552	hgsc.bcm.edu	37	10	70856963	70856963	+	Missense_Mutation	SNP	C	C	G	rs67852477	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	122.0	62.0	160.0	0.0	0.508197	0	C|0.991;G|0.009	0.009	strong	SRGN,NS,carcinoid-endocrine_tumour,0,1	SRGN	15	1	NM_002727	exon2	c.C203G	p.P68R	AGATCCCCCGTCT	.	PASS	Atlas-SNP
TIAM2	26230	hgsc.bcm.edu	37	6	155500242	155500242	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	146.0	46.0	210.0	0.0	0.315068	0	.	.	none	.	TIAM2	161	.	NM_012454	exon10	c.T2593C	p.C865R	GAGTATTGCATCC	.	PASS	Atlas-SNP
WNK1	65125	hgsc.bcm.edu	37	12	994030	994030	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	180.0	62.0	190.0	0.0	0.344444	0	.	.	none	.	WNK1	403	.	NM_001184985	exon19	c.G4840A	p.A1614T	GCCACAGCACCAG	.	PASS	Atlas-SNP
BDP1	55814	hgsc.bcm.edu	37	5	70818150	70818150	+	Missense_Mutation	SNP	C	C	G	rs12187098	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	197.0	67.0	183.0	0.0	0.340102	0	C|0.971;G|0.029	0.029	strong	.	BDP1	204	.	NM_018429	exon23	c.C5026G	p.Q1676E	TCAGCACAAATGA	.	PASS	Atlas-SNP
PPP1R16A	84988	hgsc.bcm.edu	37	8	145722726	145722726	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	145.0	80.0	116.0	0.0	0.551724	0	.	.	none	.	PPP1R16A	25	.	NM_032902	exon1	c.C149A	p.P50H	AGGGTCCTGGGGA	.	PASS	Atlas-SNP
GABRA5	2558	hgsc.bcm.edu	37	15	27182422	27182422	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	77.0	32.0	79.0	0.0	0.415584	0	.	.	none	GABRA5,colon,carcinoma,-1,1	GABRA5	127	1	NM_001165037	exon8	c.A671T	p.Q224L	TGAACCAGTACCA	.	PASS	Atlas-SNP
DUSP2	1844	hgsc.bcm.edu	37	2	96810085	96810085	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	61.0	10.0	76.0	0.0	0.163934	0	.	.	none	.	DUSP2	20	.	NM_004418	exon3	c.C538G	p.L180V	GGAACAGGTAGGG	.	PASS	Atlas-SNP
C2orf16	84226	hgsc.bcm.edu	37	2	27799712	27799712	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	185.0	89.0	147.0	0.0	0.481081	0	.	.	none	.	C2orf16	357	.	NM_032266	exon1	c.G273A	p.V91V	ATCTGTGGAATTA	.	PASS	Atlas-SNP
MYCBP2	23077	hgsc.bcm.edu	37	13	77740577	77740577	+	Missense_Mutation	SNP	T	T	C	rs111642157	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	131.0	73.0	193.0	0.0	0.557252	0	T|0.997;C|0.003	0.003	strong	.	MYCBP2	1029	.	NM_015057	exon41	c.A6227G	p.N2076S	CCTGAATTCTGAA	.	PASS	Atlas-SNP
WWC3	55841	hgsc.bcm.edu	37	X	10085582	10085582	+	Missense_Mutation	SNP	G	G	A	rs5934750	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	61.0	60.0	40.0	0.0	0.983607	0	G|0.973;A|0.027	0.027	strong	.	WWC3	142	.	NM_015691	exon11	c.G1483A	p.A495T	CTGGGCGCCCTAG	.	PASS	Atlas-SNP
PCDHA11	56138	hgsc.bcm.edu	37	5	140249884	140249884	+	Missense_Mutation	SNP	C	C	T	rs62622798	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	178.0	80.0	239.0	0.0	0.449438	0	C|0.989;T|0.011	0.011	strong	.	PCDHA11	209	.	NM_018902	exon1	c.C1196T	p.T399I	TGTCCACCTTCAA	.	PASS	Atlas-SNP
VSX2	338917	hgsc.bcm.edu	37	14	74707911	74707911	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	49.0	10.0	36.0	0.0	0.204082	0	.	.	none	VSX2,right_upper_lobe,carcinoma,-1,1	VSX2	32	1	NM_182894	exon2	c.C397T	p.R133X	AGCGATCGAAAAA	.	PASS	Atlas-SNP
SLC37A2	219855	hgsc.bcm.edu	37	11	124951767	124951767	+	Missense_Mutation	SNP	G	G	A	rs143239155	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	68.0	53.0	68.0	0.0	0.779412	0	G|0.999;A|0.001	0.001	strong	.	SLC37A2	105	.	NM_001145290	exon9	c.G850A	p.A284T	GAGCCTGCTGCCA	.	PASS	Atlas-SNP
NEK3	4752	hgsc.bcm.edu	37	13	52726772	52726772	+	Missense_Mutation	SNP	C	C	T	rs56190615	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	105.0	51.0	123.0	0.0	0.485714	0	C|0.995;T|0.005	0.005	strong	.	NEK3	41	.	NM_002498	exon5	c.G365A	p.R122H	AGCACACGTTTCT	.	PASS	Atlas-SNP
CD22	933	hgsc.bcm.edu	37	19	35835739	35835739	+	Silent	SNP	G	G	A	rs7259477	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	62.0	35.0	76.0	0.0	0.564516	0	G|0.996;A|0.004	0.004	strong	.	CD22	129	.	NM_001185100	exon10	c.G2043A	p.P681P	TAGCCCGGAGACC	.	PASS	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	37	1	144859816	144859816	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	153.0	11.0	153.0	0.0	0.0718954	0	.	.	none	.	PDE4DIP	817	.	NM_014644	exon38	c.A6268G	p.I2090V	GGTTAATGGAGGA	.	PASS	Atlas-SNP
HEPH	9843	hgsc.bcm.edu	37	X	65390579	65390579	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	158.0	54.0	200.0	0.0	0.341772	0	.	.	none	.	HEPH	224	.	NM_138737	exon2	c.T329C	p.I110T	GTGACATGTAGGT	.	PASS	Atlas-SNP
LRP5	4041	hgsc.bcm.edu	37	11	68193582	68193582	+	Silent	SNP	G	G	A	rs117289001	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	52.0	38.0	65.0	0.0	0.730769	0	G|0.992;A|0.008	0.008	strong	.	LRP5	136	.	NM_002335	exon16	c.G3564A	p.R1188R	CAAGCGGACTCGC	.	PASS	Atlas-SNP
CR1	1378	hgsc.bcm.edu	37	1	207669708	207669708	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	44.0	15.0	39.0	0.0	0.340909	0	.	.	none	.	CR1	354	.	NM_000573	exon1	c.G96A	p.V32V	TGTGGTGCTGCTT	.	PASS	Atlas-SNP
ENDOG	2021	hgsc.bcm.edu	37	9	131584732	131584732	+	Missense_Mutation	SNP	C	C	T	rs61737987	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	139.0	71.0	151.0	0.0	0.510791	0	C|0.998;T|0.002	0.002	strong	.	ENDOG	8	.	NM_004435	exon3	c.C737T	p.T246I	TCCGCACCTACGT	.	PASS	Atlas-SNP
SLCO4C1	353189	hgsc.bcm.edu	37	5	101592919	101592919	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	355.0	93.0	410.0	0.0	0.261972	0	.	.	none	.	SLCO4C1	113	.	NM_180991	exon8	c.G1369A	p.A457T	ACAGTGCAAACTT	.	PASS	Atlas-SNP
SLC6A6	6533	hgsc.bcm.edu	37	3	14489107	14489107	+	Missense_Mutation	SNP	G	G	A	rs62233560	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	118.0	57.0	134.0	0.0	0.483051	0	G|0.992;A|0.008	0.008	strong	.	SLC6A6	58	.	NM_003043	exon5	c.G382A	p.V128I	GCCTCCGTTGTAA	.	PASS	Atlas-SNP
PTPRQ	374462	hgsc.bcm.edu	37	12	80890246	80890246	+	Silent	SNP	T	T	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	277.0	60.0	316.0	0.0	0.216606	0	.	.	none	.	PTPRQ	119	.	NM_001145026	exon11	c.T1692G	p.S564S	AAGGTCTTACACC	.	PASS	Atlas-SNP
FDX1L	112812	hgsc.bcm.edu	37	19	10426597	10426597	+	Missense_Mutation	SNP	T	T	C	rs62640397	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	70.0	31.0	86.0	0.0	0.442857	0	T|0.980;C|0.020	0.020	strong	.	FDX1L	21	.	NM_001031734	exon1	c.A76G	p.R26G	CAGGTCTGTTCCA	.	PASS	Atlas-SNP
DTHD1	401124	hgsc.bcm.edu	37	4	36296443	36296443	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	134.0	60.0	162.0	0.0	0.447761	0	.	.	none	.	DTHD1	63	.	NM_001170700	exon4	c.G1050A	p.V350V	TCTGGTGGCACAT	.	PASS	Atlas-SNP
CCDC9	26093	hgsc.bcm.edu	37	19	47774680	47774680	+	Silent	SNP	C	C	G	rs117519030	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	55.0	30.0	44.0	0.0	0.545455	0	C|0.978;G|0.022	0.022	strong	.	CCDC9	37	.	NM_015603	exon12	c.C1341G	p.A447A	ACCAGCCCAAGAC	.	PASS	Atlas-SNP
SKIV2L2	23517	hgsc.bcm.edu	37	5	54645455	54645455	+	Missense_Mutation	SNP	C	C	G	rs142958762	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	171.0	98.0	165.0	0.0	0.573099	0	C|0.995;G|0.005	0.005	strong	.	SKIV2L2	104	.	NM_015360	exon12	c.C1295G	p.S432C	GCTTATCCGATGA	.	PASS	Atlas-SNP
GHRL	51738	hgsc.bcm.edu	37	3	10331519	10331519	+	Missense_Mutation	SNP	C	C	T	rs34911341	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	110.0	57.0	92.0	0.0	0.518182	0	C|0.996;T|0.004	0.004	strong	.	GHRL	8	.	NM_016362	exon3	c.G152A	p.R51Q	AGAGCTCGGGGCT	.	PASS	Atlas-SNP
TSHZ1	10194	hgsc.bcm.edu	37	18	72998524	72998524	+	Missense_Mutation	SNP	C	C	T	rs200266026		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	98.0	35.0	131.0	0.0	0.357143	0	.	.	weak	.	TSHZ1	104	.	NM_005786	exon2	c.C1027T	p.P343S	GCGAACCCGTACG	.	PASS	Atlas-SNP
GPR133	283383	hgsc.bcm.edu	37	12	131475607	131475607	+	Missense_Mutation	SNP	C	C	A	rs137909892	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	144.0	75.0	134.0	0.0	0.520833	0	C|0.997;A|0.003	0.003	strong	.	GPR133	136	.	NM_198827	exon7	c.C794A	p.S265Y	TGACATCCACAGC	.	PASS	Atlas-SNP
KIF2B	84643	hgsc.bcm.edu	37	17	51901244	51901244	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	86.0	27.0	96.0	0.0	0.313953	0	.	.	none	.	KIF2B	254	.	NM_032559	exon1	c.G850A	p.A284T	TTCACCGCCCAGC	.	PASS	Atlas-SNP
FSTL5	56884	hgsc.bcm.edu	37	4	162680603	162680603	+	Silent	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	210.0	52.0	239.0	0.0	0.247619	0	.	.	none	.	FSTL5	207	.	NM_020116	exon6	c.T687A	p.A229A	CTTGTCAGCATTA	.	PASS	Atlas-SNP
NSD1	64324	hgsc.bcm.edu	37	5	176638506	176638506	+	Missense_Mutation	SNP	G	G	C	rs28932179	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	144.0	67.0	136.0	0.0	0.465278	0	G|0.975;C|0.025	0.025	strong	NSD1_ENST00000439151,NS,carcinoma,-2,2	NSD1	416	2	NM_022455	exon5	c.G3106C	p.A1036P	TTTTCAGCCCAAA	.	PASS	Atlas-SNP
CCR8	1237	hgsc.bcm.edu	37	3	39374151	39374151	+	Missense_Mutation	SNP	C	C	T	rs144913149	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	354.0	180.0	416.0	0.0	0.508475	0	C|0.999;T|0.001	0.001	strong	.	CCR8	34	.	NM_005201	exon2	c.C329T	p.S110F	TGGTGTCTGGCTT	.	PASS	Atlas-SNP
PSG8	440533	hgsc.bcm.edu	37	19	43262267	43262267	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	90.0	39.0	95.0	0.0	0.433333	0	.	.	none	.	PSG8	101	.	NM_001130167	exon3	c.A596G	p.N199S	GTCCTGTTGGTTT	.	PASS	Atlas-SNP
S1PR5	53637	hgsc.bcm.edu	37	19	10624838	10624838	+	Missense_Mutation	SNP	C	C	T	rs150461309	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	63.0	30.0	80.0	0.0	0.47619	0	C|0.997;T|0.003	0.003	strong	.	S1PR5	33	.	NM_030760	exon2	c.G850A	p.V284I	GGAGTACAGGACA	.	PASS	Atlas-SNP
KIF17	57576	hgsc.bcm.edu	37	1	21044151	21044151	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	13.0	6.0	13.0	0.0	0.461538	0	.	.	none	.	KIF17	130	.	NM_001122819	exon1	c.C49T	p.Q17X	CCCGCTGGTTCAT	.	PASS	Atlas-SNP
NEB	4703	hgsc.bcm.edu	37	2	152389991	152389991	+	Silent	SNP	A	A	G	rs114218081	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	102.0	46.0	127.0	0.0	0.45098	0	A|0.979;G|0.021	0.021	strong	.	NEB	1697	.	NM_001271208	exon144	c.T21487C	p.L7163L	CAGTCAACATATC	.	PASS	Atlas-SNP
MTTP	4547	hgsc.bcm.edu	37	4	100503136	100503136	+	Missense_Mutation	SNP	C	C	G	rs141736123	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	151.0	70.0	163.0	0.0	0.463576	0	C|0.989;G|0.010;T|0.000	0.010	strong	.	MTTP	127	.	NM_000253	exon3	c.C136G	p.R46G	CTTGATCGGGGCA	.	PASS	Atlas-SNP
TPX2	22974	hgsc.bcm.edu	37	20	30381700	30381700	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	158.0	38.0	184.0	0.0	0.240506	0	.	.	none	.	TPX2	61	.	NM_012112	exon14	c.G1559A	p.G520E	ATTATGGGGTGCC	.	PASS	Atlas-SNP
PPFIA4	8497	hgsc.bcm.edu	37	1	203044777	203044777	+	Missense_Mutation	SNP	G	G	A	rs12130501	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	26.0	12.0	13.0	0.0	0.461538	0	G|0.992;A|0.008	0.008	strong	PPFIA4_ENST00000272198,colon,carcinoma,-1,2	PPFIA4	139	2	NM_015053	exon16	c.G1948A	p.G650S	GGTCGCGGCGGCA	.	PASS	Atlas-SNP
HSPA4	3308	hgsc.bcm.edu	37	5	132412424	132412424	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	109.0	19.0	166.0	0.0	0.174312	0	.	.	none	.	HSPA4	68	.	NM_002154	exon7	c.T742C	p.F248L	GAAGAATTTGGGA	.	PASS	Atlas-SNP
TRIM11	81559	hgsc.bcm.edu	37	1	228589861	228589861	+	Missense_Mutation	SNP	G	G	A	rs143926476		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	132.0	31.0	143.0	0.0	0.234848	0	G|1.000;A|0.000	0.000	weak	.	TRIM11	38	.	NM_145214	exon2	c.C410T	p.A137V	AGCTTCGCCTGCG	.	PASS	Atlas-SNP
MUSK	4593	hgsc.bcm.edu	37	9	113449489	113449489	+	Missense_Mutation	SNP	C	C	T	rs35142681	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	157.0	157.0	212.0	0.0	1	0	C|0.983;T|0.017	0.017	strong	.	MUSK	112	.	NM_001166281	exon3	c.C299T	p.T100M	GCTGCACGGCCAA	.	PASS	Atlas-SNP
FAS	355	hgsc.bcm.edu	37	10	90771767	90771767	+	Missense_Mutation	SNP	G	G	A	rs56006128	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	54.0	27.0	83.0	0.0	0.5	0	G|0.999;A|0.001	0.001	strong	.	FAS	47	.	NM_152872	exon7	c.G580A	p.E194K	AGAAAGGAAGTAC	.	PASS	Atlas-SNP
DUSP2	1844	hgsc.bcm.edu	37	2	96810609	96810609	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	80.0	26.0	66.0	0.0	0.325	0	.	.	none	.	DUSP2	20	.	NM_004418	exon2	c.G401A	p.G134D	TGGAAGCCGTCGA	.	PASS	Atlas-SNP
TMPRSS4	56649	hgsc.bcm.edu	37	11	117979606	117979606	+	Missense_Mutation	SNP	G	G	C	rs45441097	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	63.0	42.0	53.0	0.0	0.666667	0	G|0.997;C|0.003	0.003	strong	.	TMPRSS4	46	.	NM_019894	exon7	c.G578C	p.C193S	TGCACTGTCTTGG	.	PASS	Atlas-SNP
BCOR	54880	hgsc.bcm.edu	37	X	39932949	39932949	+	Silent	SNP	G	G	A	rs17145653	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	74.0	73.0	119.0	1.0	0.986486	0.00840336	0|0.004;A|0.006	0.006	strong	.	BCOR	351	.	NM_001123385	exon4	c.C1650T	p.T550T	AGCATCGGTGCCG	.	PASS	Atlas-SNP
LTBP1	4052	hgsc.bcm.edu	37	2	33623567	33623567	+	Silent	SNP	G	G	A	rs138835287	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	107.0	55.0	138.0	0.0	0.514019	0	G|0.999;A|0.001	0.001	strong	LTBP1_ENST00000407925,NS,carcinoma,0,3	LTBP1	317	3	NM_206943	exon34	c.G5121A	p.P1707P	CACTCCGTTGAAT	.	PASS	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	37	21	47860110	47860110	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	35.0	12.0	29.0	0.0	0.342857	0	.	.	none	.	PCNT	283	.	NM_006031	exon42	c.G9388A	p.V3130I	AGCAATGTCAAGG	.	PASS	Atlas-SNP
AMPD1	270	hgsc.bcm.edu	37	1	115221116	115221116	+	Missense_Mutation	SNP	C	C	A	rs61752478	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	77.0	40.0	127.0	0.0	0.519481	0	C|0.997;A|0.003	0.003	strong	.	AMPD1	223	.	NM_000036	exon8	c.G1029T	p.M343I	CTGGTTCATGCAA	.	PASS	Atlas-SNP
ZSCAN9	7746	hgsc.bcm.edu	37	6	28195521	28195521	+	Silent	SNP	A	A	G	rs12197427	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	160.0	77.0	200.0	0.0	0.48125	0	A|0.971;G|0.029	0.029	strong	ZNF193,NS,carcinoma,+2,1	.	.	1	NM_006299	exon3	c.A474G	p.L158L	GCCTCTAGCAGAG	.	PASS	Atlas-SNP
MAP1A	4130	hgsc.bcm.edu	37	15	43818115	43818115	+	Missense_Mutation	SNP	G	G	A	rs145659671	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	83.0	53.0	54.0	1.0	0.638554	0.0185185	G|0.992;A|0.008	0.008	strong	MAP1A,NS,carcinoma,0,1	MAP1A	189	1	NM_002373	exon4	c.G4444A	p.D1482N	CAAAAGGACAGGG	.	scavenged	Atlas-SNP
PTGS1	5742	hgsc.bcm.edu	37	9	125154660	125154660	+	Missense_Mutation	SNP	C	C	T	rs200295924		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	230.0	57.0	272.0	0.0	0.247826	0	.	.	weak	.	PTGS1	84	.	NM_000962	exon11	c.C1637T	p.P546L	GGAAGCCGAGCAC	.	PASS	Atlas-SNP
CC2D1B	200014	hgsc.bcm.edu	37	1	52822722	52822722	+	Missense_Mutation	SNP	G	G	A	rs201266966	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	173.0	84.0	164.0	0.0	0.485549	0	G|0.997;A|0.003	0.003	weak	CC2D1B,NS,carcinoma,0,1	CC2D1B	73	1	NM_032449	exon16	c.C1847T	p.A616V	TCCTCCGCCTTCT	.	PASS	Atlas-SNP
PIAS4	51588	hgsc.bcm.edu	37	19	4037723	4037723	+	Silent	SNP	G	G	A	rs140558761	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	80.0	43.0	53.0	0.0	0.5375	0	G|0.998;A|0.002	0.002	strong	.	PIAS4	40	.	NM_015897	exon11	c.G1383A	p.P461P	GAAGCCGGGCGCC	.	PASS	Atlas-SNP
NUP210L	91181	hgsc.bcm.edu	37	1	153982536	153982536	+	Missense_Mutation	SNP	C	C	T	rs199611847	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	67.0	29.0	58.0	0.0	0.432836	0	.	.	weak	.	NUP210L	181	.	NM_001159484	exon35	c.G4842A	p.M1614I	GCACAGCATGAGG	.	PASS	Atlas-SNP
KIFC1	3833	hgsc.bcm.edu	37	6	33374015	33374015	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	120.0	52.0	119.0	0.0	0.433333	0	.	.	none	.	KIFC1	47	.	NM_002263	exon8	c.G1579A	p.A527T	GCTGTGGCCCGCA	.	PASS	Atlas-SNP
P2RY8	286530	hgsc.bcm.edu	37	X	1584817	1584817	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	68.0	27.0	84.0	0.0	0.397059	0	.	.	none	.	P2RY8	53	.	NM_178129	exon2	c.G635A	p.C212Y	GTGTAACAAGCCA	.	PASS	Atlas-SNP
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32497900	32497900	+	Splice_Site	SNP	A	A	G	rs78612727	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	86.0	14.0	123.0	0.0	0.162791	0	A|0.994;G|0.006	0.006	strong	.	HLA-DRB5	31	.	NM_002125	exon2	c.100+2T>C	.	GCACTTACGTCGG	.	PASS	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	37	16	88494603	88494603	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	101.0	66.0	115.0	0.0	0.653465	0	.	.	none	.	ZNF469	121	.	NM_001127464	exon1	c.G725T	p.S242I	AGAATAGCTTCCC	.	PASS	Atlas-SNP
DSG3	1830	hgsc.bcm.edu	37	18	29056063	29056063	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	67.0	16.0	89.0	0.0	0.238806	0	.	.	none	.	DSG3	172	.	NM_001944	exon16	c.C2840T	p.S947F	AACCTTCCACTGC	.	PASS	Atlas-SNP
SCN10A	6336	hgsc.bcm.edu	37	3	38739416	38739416	+	Silent	SNP	C	C	T	rs145313578	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	165.0	80.0	166.0	2.0	0.484848	0.0120482	C|0.999;T|0.001	0.001	strong	SCN10A,NS,carcinoma,-1,2	SCN10A	359	2	NM_006514	exon27	c.G5295A	p.S1765S	AAAGTCCGAGAGA	.	scavenged	Atlas-SNP
KIAA1147	57189	hgsc.bcm.edu	37	7	141362558	141362558	+	Silent	SNP	G	G	T	rs375569681		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	62.0	37.0	66.0	0.0	0.596774	0	.	.	weak	.	KIAA1147	32	.	NM_001080392	exon9	c.C1266A	p.G422G	GCCCATGCCCCGG	.	PASS	Atlas-SNP
MINK1	50488	hgsc.bcm.edu	37	17	4797910	4797910	+	Missense_Mutation	SNP	G	G	A	rs79940062	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	95.0	40.0	103.0	0.0	0.421053	0	G|0.993;A|0.007	0.007	strong	.	MINK1	110	.	NM_153827	exon24	c.G2899A	p.D967N	AGTGGGGACAGCA	.	PASS	Atlas-SNP
NSD1	64324	hgsc.bcm.edu	37	5	176637471	176637471	+	Missense_Mutation	SNP	G	G	A	rs28932177	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	185.0	69.0	174.0	0.0	0.372973	0	G|0.983;A|0.017	0.017	strong	.	NSD1	416	.	NM_022455	exon5	c.G2071A	p.A691T	TTTGCTGCCACAA	.	PASS	Atlas-SNP
HIST1H1C	3006	hgsc.bcm.edu	37	6	26056277	26056277	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	127.0	36.0	153.0	0.0	0.283465	0	.	.	none	.	HIST1H1C	80	.	NM_005319	exon1	c.A380C	p.K127T	TTAGGTTTGGTTC	.	PASS	Atlas-SNP
NUP210L	91181	hgsc.bcm.edu	37	1	154031134	154031134	+	Missense_Mutation	SNP	C	C	A	rs201928881	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	66.0	32.0	95.0	0.0	0.484848	0	.	.	weak	.	NUP210L	181	.	NM_001159484	exon21	c.G2886T	p.E962D	ATAGACCTCCAAG	.	PASS	Atlas-SNP
DAB2	1601	hgsc.bcm.edu	37	5	39381618	39381618	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	123.0	43.0	88.0	0.0	0.349593	0	.	.	none	.	DAB2	124	.	NM_001343	exon11	c.C1442T	p.P481L	GGGTTGGGCTGCA	.	PASS	Atlas-SNP
KRT9	3857	hgsc.bcm.edu	37	17	39727894	39727894	+	Silent	SNP	A	A	G	rs115965791	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	75.0	37.0	81.0	0.0	0.493333	0	A|0.995;G|0.005	0.005	strong	.	KRT9	78	.	NM_000226	exon1	c.T351C	p.G117G	AGAACCACCACCA	.	PASS	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	37	1	215956140	215956140	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	97.0	30.0	125.0	0.0	0.309278	0	.	.	none	.	USH2A	1168	.	NM_206933	exon53	c.A10525C	p.K3509Q	CTATTTTGGTCCA	.	PASS	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	37	12	57597023	57597023	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	89.0	25.0	112.0	0.0	0.280899	0	.	.	none	LRP1,bladder,carcinoma,-1,1	LRP1	428	1	NM_002332	exon69	c.C10771T	p.R3591C	GCGGGGCGCTGGA	.	PASS	Atlas-SNP
CHRM3	1131	hgsc.bcm.edu	37	1	240070855	240070855	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	123.0	32.0	138.0	0.0	0.260163	0	.	.	none	.	CHRM3	118	.	NM_000740	exon5	c.C104G	p.T35S	CCGTCACTCATTT	.	PASS	Atlas-SNP
PMS1	5378	hgsc.bcm.edu	37	2	190728798	190728798	+	Missense_Mutation	SNP	A	A	G	rs201205478	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	186.0	85.0	155.0	0.0	0.456989	0	.	.	weak	.	PMS1	78	.	NM_000534	exon10	c.A2186G	p.N729S	TCCACAATCTCAG	.	PASS	Atlas-SNP
SGK2	10110	hgsc.bcm.edu	37	20	42199296	42199296	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	87.0	4.0	77.0	0.0	0.045977	0	.	.	none	.	SGK2	50	.	NM_016276	exon6	c.C580T	p.P194S	CTGGAGCCCCGGG	.	PASS	Atlas-SNP
TTC21B	79809	hgsc.bcm.edu	37	2	166771842	166771842	+	Silent	SNP	A	A	G	rs138449110		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	86.0	37.0	74.0	0.0	0.430233	0	A|1.000;G|0.000	0.000	weak	.	TTC21B	130	.	NM_024753	exon15	c.T2007C	p.D669D	TTCAATATCTCCT	.	PASS	Atlas-SNP
ARHGAP21	57584	hgsc.bcm.edu	37	10	24889664	24889664	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	194.0	38.0	214.0	0.0	0.195876	0	.	.	none	.	ARHGAP21	185	.	NM_020824	exon14	c.G3043A	p.D1015N	CACAGTCGGACGT	.	PASS	Atlas-SNP
IQCE	23288	hgsc.bcm.edu	37	7	2649686	2649686	+	Missense_Mutation	SNP	C	C	T	rs368687600		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	95.0	73.0	96.0	0.0	0.768421	0	.	.	weak	.	IQCE	66	.	NM_152558	exon22	c.C1978T	p.P660S	CCCTCTCCCTCAG	.	PASS	Atlas-SNP
SMARCA5	8467	hgsc.bcm.edu	37	4	144471249	144471249	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	66.0	14.0	61.0	0.0	0.212121	0	.	.	none	.	SMARCA5	73	.	NM_003601	exon23	c.A3085G	p.K1029E	GGACCAAAGCCTT	.	PASS	Atlas-SNP
UHRF1BP1	54887	hgsc.bcm.edu	37	6	34826663	34826663	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	130.0	32.0	133.0	0.0	0.246154	0	.	.	none	.	UHRF1BP1	102	.	NM_017754	exon14	c.G2530A	p.V844M	AAGGAGGTGCTGC	.	PASS	Atlas-SNP
XPO5	57510	hgsc.bcm.edu	37	6	43514382	43514382	+	Silent	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	98.0	43.0	142.0	0.0	0.438776	0	.	.	none	XPO5,NS,carcinoma,-1,1	XPO5	79	1	NM_020750	exon20	c.T2268C	p.S756S	ATTTCCACTGGAT	.	PASS	Atlas-SNP
EML2	24139	hgsc.bcm.edu	37	19	46127999	46127999	+	Silent	SNP	C	C	T	rs36013288	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	72.0	34.0	85.0	1.0	0.472222	0.0117647	C|0.993;T|0.007	0.007	strong	EML2,NS,carcinoma,-1,1	EML2	64	1	NM_001193268	exon12	c.G1422A	p.G474G	GAGGTTCCCCCCA	.	scavenged	Atlas-SNP
LRGUK	136332	hgsc.bcm.edu	37	7	133812351	133812351	+	Silent	SNP	T	T	C	rs61732215	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	147.0	73.0	139.0	0.0	0.496599	0	T|0.945;C|0.055	0.055	strong	.	LRGUK	113	.	NM_144648	exon1	c.T231C	p.D77D	CGGAGATGAGGAC	.	PASS	Atlas-SNP
RPAP1	26015	hgsc.bcm.edu	37	15	41819466	41819466	+	Missense_Mutation	SNP	G	G	A	rs35981448	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	74.0	37.0	91.0	0.0	0.5	0	G|0.996;A|0.004	0.004	strong	.	RPAP1	111	.	NM_015540	exon13	c.C1645T	p.R549C	CGTAGCGCAGCCG	.	PASS	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	37	12	57550588	57550588	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	47.0	5.0	57.0	0.0	0.106383	0	.	.	none	.	LRP1	428	.	NM_002332	exon10	c.G1446A	p.Q482Q	CGACCAGTATGGG	.	PASS	Atlas-SNP
GPAT2	150763	hgsc.bcm.edu	37	2	96688916	96688916	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	264.0	29.0	339.0	1.0	0.109848	0.00294985	.	.	none	GPAT2,NS,carcinoma,+1,1	GPAT2	46	1	NM_207328	exon19	c.C2087T	p.P696L	AGCAGCGGGCTGA	.	scavenged	Atlas-SNP
CDKL4	344387	hgsc.bcm.edu	37	2	39440541	39440541	+	Silent	SNP	G	G	A	rs375514414		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	328.0	67.0	173.0	0.0	0.204268	0	.	.	weak	CDKL4,NS,carcinoma,0,1	CDKL4	30	1	NM_001009565	exon3	c.C363T	p.N121N	ACTTACGTTATGT	.	PASS	Atlas-SNP
KRT17	3872	hgsc.bcm.edu	37	17	39777895	39777895	+	Nonsense_Mutation	SNP	T	T	A	rs146900210	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	347.0	172.0	307.0	1.0	0.495677	0.00325733	T|1.000;A|0.000	0.000	strong	.	KRT17	57	.	NM_000422	exon4	c.A784T	p.K262X	CCATCTTCTCATA	.	PASS	Atlas-SNP
CETN3	1070	hgsc.bcm.edu	37	5	89703535	89703535	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	332.0	122.0	342.0	0.0	0.36747	0	.	.	none	.	CETN3	16	.	NM_004365	exon2	c.T134G	p.I45R	TAATCTATTGCTT	.	PASS	Atlas-SNP
CLASRP	11129	hgsc.bcm.edu	37	19	45563695	45563695	+	Silent	SNP	G	G	A	rs147776329	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	86.0	33.0	89.0	0.0	0.383721	0	G|0.991;A|0.009	0.009	strong	.	CLASRP	44	.	NM_007056	exon9	c.G759A	p.K253K	TGCCAAGGCTCTT	.	PASS	Atlas-SNP
VPRBP	9730	hgsc.bcm.edu	37	3	51458204	51458204	+	Silent	SNP	G	G	A	rs150385433	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	121.0	69.0	153.0	0.0	0.570248	0	G|0.995;A|0.005	0.005	strong	.	VPRBP	107	.	NM_014703	exon14	c.C2061T	p.S687S	CAGTAAGGACAGG	.	PASS	Atlas-SNP
SOGA1	140710	hgsc.bcm.edu	37	20	35443768	35443768	+	Missense_Mutation	SNP	G	G	A	rs201600310		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	82.0	36.0	96.0	0.0	0.439024	0	G|0.998;A|0.002	0.002	weak	.	SOGA1	136	.	NM_080627	exon5	c.C2077T	p.R693W	GCAGCCGGAAGTC	.	PASS	Atlas-SNP
ARAP3	64411	hgsc.bcm.edu	37	5	141033870	141033870	+	Missense_Mutation	SNP	T	T	G	rs61749636	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	167.0	81.0	165.0	0.0	0.48503	0	T|0.952;G|0.048	0.048	strong	ARAP3,colon,carcinoma,+2,4	ARAP3	139	4	NM_022481	exon33	c.A4282C	p.T1428P	CCCGTGTGGTGGA	.	PASS	Atlas-SNP
GK5	256356	hgsc.bcm.edu	37	3	141884493	141884493	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	303.0	148.0	396.0	0.0	0.488449	0	.	.	none	GK5,NS,carcinoma,+1,1	GK5	45	1	NM_001039547	exon16	c.C1561T	p.R521C	TGGAGCGTTTCAC	.	PASS	Atlas-SNP
BCAT2	587	hgsc.bcm.edu	37	19	49309776	49309776	+	Missense_Mutation	SNP	G	G	C	rs117048185	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	85.0	45.0	86.0	0.0	0.529412	0	G|0.990;C|0.010	0.010	strong	.	BCAT2	35	.	NM_001190	exon3	c.C298G	p.Q100E	CCACCTGCAGGGA	.	PASS	Atlas-SNP
NCOA6	23054	hgsc.bcm.edu	37	20	33328372	33328372	+	Silent	SNP	C	C	T	rs141863711		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	45.0	16.0	56.0	0.0	0.355556	0	C|1.000;T|0.000	0.000	weak	.	NCOA6	219	.	NM_014071	exon11	c.G5688A	p.P1896P	AGTGCCCGGGCCC	.	PASS	Atlas-SNP
ZNF217	7764	hgsc.bcm.edu	37	20	52192417	52192417	+	Silent	SNP	C	C	T	rs45439395	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	99.0	55.0	106.0	0.0	0.555556	0	C|0.997;T|0.003	0.003	strong	.	ZNF217	227	.	NM_006526	exon3	c.G2886A	p.P962P	CTGCGACGGATAC	.	PASS	Atlas-SNP
MC1R	4157	hgsc.bcm.edu	37	16	89985950	89985950	+	Missense_Mutation	SNP	C	C	T	rs34158934	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	115.0	67.0	114.0	0.0	0.582609	0	C|0.995;T|0.005	0.005	strong	.	MC1R	20	.	NM_002386	exon1	c.C284T	p.T95M	TGGAGACGGCCGT	.	PASS	Atlas-SNP
ADAM33	80332	hgsc.bcm.edu	37	20	3652365	3652365	+	Missense_Mutation	SNP	T	T	C	rs55687415	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	53.0	22.0	66.0	0.0	0.415094	0	T|0.992;C|0.008	0.008	strong	.	ADAM33	76	.	NM_025220	exon16	c.A1768G	p.M590V	GCACCATGTGCGG	.	PASS	Atlas-SNP
MAP7D1	55700	hgsc.bcm.edu	37	1	36636774	36636774	+	Silent	SNP	G	G	A	rs139650826	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	82.0	39.0	72.0	0.0	0.47561	0	G|0.992;A|0.008	0.008	strong	.	MAP7D1	62	.	NM_018067	exon2	c.G249A	p.Q83Q	CCCGCAGGAAGAG	.	PASS	Atlas-SNP
OR5H2	79310	hgsc.bcm.edu	37	3	98002429	98002429	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	137.0	39.0	169.0	0.0	0.284672	0	.	.	none	OR5H2,NS,carcinoma,0,1	OR5H2	63	1	NM_001005482	exon1	c.A698T	p.K233M	TAAAAAAGAAGTC	.	PASS	Atlas-SNP
CHST4	10164	hgsc.bcm.edu	37	16	71570847	71570847	+	Missense_Mutation	SNP	G	G	A	rs148657245	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	205.0	131.0	181.0	0.0	0.639024	0	G|0.993;A|0.007	0.007	strong	.	CHST4	47	.	NM_001166395	exon2	c.G267A	p.M89I	CTGGATGCTGCAC	.	PASS	Atlas-SNP
MFHAS1	9258	hgsc.bcm.edu	37	8	8749318	8749318	+	Silent	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	36.0	17.0	42.0	0.0	0.472222	0	.	.	none	.	MFHAS1	58	.	NM_004225	exon1	c.T1251C	p.H417H	AGCCTTATGCCCC	.	PASS	Atlas-SNP
WDR25	79446	hgsc.bcm.edu	37	14	100996337	100996337	+	Missense_Mutation	SNP	G	G	A	rs144754220		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	91.0	20.0	98.0	0.0	0.21978	0	G|1.000;A|0.000	0.000	weak	.	WDR25	37	.	NM_001161476	exon7	c.G1594A	p.A532T	GTCCTCGCCACCT	.	PASS	Atlas-SNP
GPAM	57678	hgsc.bcm.edu	37	10	113926224	113926224	+	Missense_Mutation	SNP	A	A	G	rs35019520	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	108.0	38.0	108.0	0.0	0.351852	0	A|0.990;G|0.010	0.010	strong	.	GPAM	68	.	NM_001244949	exon12	c.T1157C	p.I386T	ATTCTAATAACAC	.	PASS	Atlas-SNP
NDUFA9	4704	hgsc.bcm.edu	37	12	4768290	4768290	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	67.0	30.0	101.0	0.0	0.447761	0	.	.	none	.	NDUFA9	45	.	NM_005002	exon5	c.G499A	p.V167I	ATTCATGTTTCAC	.	PASS	Atlas-SNP
RAD54B	25788	hgsc.bcm.edu	37	8	95423464	95423464	+	Silent	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	240.0	111.0	259.0	0.0	0.4625	0	.	.	none	.	RAD54B	88	.	NM_012415	exon4	c.T384C	p.V128V	CCAAACAACACTG	.	PASS	Atlas-SNP
VIPR2	7434	hgsc.bcm.edu	37	7	158828692	158828692	+	Missense_Mutation	SNP	C	C	T	rs145308657	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	56.0	29.0	68.0	0.0	0.517857	0	C|1.000;T|0.000	0.000	weak	.	VIPR2	53	.	NM_003382	exon8	c.G760A	p.V254I	TGCAGACGGTGGG	.	PASS	Atlas-SNP
PLCD4	84812	hgsc.bcm.edu	37	2	219492952	219492952	+	Missense_Mutation	SNP	C	C	T	rs61733653	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	80.0	45.0	107.0	0.0	0.5625	0	C|0.994;T|0.006	0.006	strong	.	PLCD4	51	.	NM_032726	exon7	c.C973T	p.R325W	TATATACGGTGCA	.	PASS	Atlas-SNP
USP48	84196	hgsc.bcm.edu	37	1	22033020	22033020	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	199.0	63.0	198.0	0.0	0.316583	0	.	.	none	USP48,colon,carcinoma,0,1	USP48	91	1	NM_032236	exon17	c.G2151A	p.K717K	AGAAGTCTTTTGC	.	PASS	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	37	11	92088524	92088524	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	102.0	32.0	114.0	0.0	0.313726	0	.	.	none	.	FAT3	1822	.	NM_001008781	exon1	c.C3246T	p.I1082I	CTCCATCAGGGAT	.	PASS	Atlas-SNP
DTX1	1840	hgsc.bcm.edu	37	12	113496151	113496151	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	79.0	13.0	83.0	0.0	0.164557	0	.	.	none	.	DTX1	83	.	NM_004416	exon1	c.C154G	p.L52V	AACGTGCTGAAGG	.	PASS	Atlas-SNP
LRPPRC	10128	hgsc.bcm.edu	37	2	44201315	44201315	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	550.0	65.0	342.0	0.0	0.118182	0	.	.	none	.	LRPPRC	105	.	NM_133259	exon9	c.T1129A	p.L377I	GTTGTAAAAAGAA	.	PASS	Atlas-SNP
DCLRE1C	64421	hgsc.bcm.edu	37	10	14987181	14987181	+	Missense_Mutation	SNP	C	C	A	rs138077101	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	117.0	53.0	138.0	0.0	0.452991	0	C|1.000;A|0.000	0.000	strong	.	DCLRE1C	136	.	NM_001033855	exon3	c.G169T	p.V57F	GATAAACCTTCAA	.	PASS	Atlas-SNP
INSR	3643	hgsc.bcm.edu	37	19	7150532	7150532	+	Missense_Mutation	SNP	G	G	A	rs143523271	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	51.0	21.0	51.0	0.0	0.411765	0	G|0.999;A|0.001	0.001	strong	.	INSR	265	.	NM_000208	exon11	c.C2243T	p.S748L	GTGCCTGAAGAGG	.	PASS	Atlas-SNP
PARL	55486	hgsc.bcm.edu	37	3	183551309	183551309	+	Silent	SNP	C	C	T	rs140027735	alternate_allele	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	249.0	79.0	272.0	0.0	0.317269	0	C|1.000;A|0.000	.	alt	PARL,NS,carcinoma,-2,1	PARL	32	1	NM_018622	exon9	c.G999A	p.A333A	ATGTGCCGCATGA	.	PASS	Atlas-SNP
SLC16A7	9194	hgsc.bcm.edu	37	12	60168491	60168491	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	209.0	44.0	257.0	0.0	0.210526	0	.	.	none	.	SLC16A7	82	.	NM_001270622	exon5	c.T415G	p.F139V	AAATACTTCTATA	.	PASS	Atlas-SNP
TTC30A	92104	hgsc.bcm.edu	37	2	178482771	178482771	+	Missense_Mutation	SNP	C	C	T	rs59353759	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	166.0	81.0	161.0	0.0	0.487952	0	C|0.974;T|0.026	0.026	strong	.	TTC30A	60	.	NM_152275	exon1	c.G659A	p.R220H	TGCTGGCGGATGC	.	PASS	Atlas-SNP
MTSS1	9788	hgsc.bcm.edu	37	8	125568485	125568485	+	Silent	SNP	C	C	T	rs145509745		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	131.0	68.0	149.0	0.0	0.519084	0	C|1.000;T|0.000	0.000	weak	.	MTSS1	79	.	NM_014751	exon12	c.G1392A	p.S464S	GGCAGCCGATACA	.	PASS	Atlas-SNP
TLN2	83660	hgsc.bcm.edu	37	15	63111778	63111778	+	Missense_Mutation	SNP	G	G	A	rs138463845	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	49.0	29.0	45.0	2.0	0.591837	0.0444444	G|0.995;A|0.005	0.005	strong	TLN2,NS,carcinoma,-2,2	TLN2	253	2	NM_015059	exon50	c.G6835A	p.G2279S	GTCGCCGGCGCTG	.	scavenged	Atlas-SNP
PRF1	5551	hgsc.bcm.edu	37	10	72360457	72360457	+	Missense_Mutation	SNP	G	G	A	rs151232299	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	239.0	91.0	252.0	0.0	0.380753	0	G|1.000;A|0.000	0.000	weak	PRF1,right_upper_lobe,carcinoma,+2,1	PRF1	64	1	NM_001083116	exon2	c.C202T	p.R68W	CGGGCCGCAGGAA	.	PASS	Atlas-SNP
BAI2	576	hgsc.bcm.edu	37	1	32221612	32221612	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	121.0	54.0	171.0	0.0	0.446281	0	.	.	none	.	BAI2	128	.	NM_001703	exon4	c.G826A	p.E276K	TCATCTCGGTTGT	.	PASS	Atlas-SNP
KIAA0930	23313	hgsc.bcm.edu	37	22	45608215	45608215	+	Nonsense_Mutation	SNP	G	G	A	rs150665432	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	85.0	47.0	123.0	0.0	0.552941	0	G|0.996;A|0.004	0.004	strong	.	KIAA0930	43	.	NM_015264	exon1	c.C10T	p.Q4X	CAGCCTGAGAGCC	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150930205	150930205	+	Silent	SNP	C	C	T	rs35489594	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	134.0	60.0	142.0	0.0	0.447761	0	C|0.995;T|0.005	0.005	strong	.	FAT2	465	.	NM_001447	exon7	c.G4524A	p.T1508T	TCCCACCGTTACC	.	PASS	Atlas-SNP
LIMK1	3984	hgsc.bcm.edu	37	7	73520264	73520264	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	78.0	16.0	81.0	0.0	0.205128	0	.	.	none	.	LIMK1	55	.	NM_002314	exon6	c.T668C	p.I223T	ACCGGATCTTGGA	.	PASS	Atlas-SNP
SPOCK1	6695	hgsc.bcm.edu	37	5	136834138	136834138	+	Missense_Mutation	SNP	T	T	C	rs111393448	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	40.0	23.0	43.0	0.0	0.575	0	T|0.991;C|0.009	0.009	strong	.	SPOCK1	58	.	NM_004598	exon2	c.A110G	p.N37S	AGGAAATTGCCGT	.	PASS	Atlas-SNP
PTPRN2	5799	hgsc.bcm.edu	37	7	157929370	157929370	+	Missense_Mutation	SNP	C	C	T	rs55645575	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	88.0	32.0	99.0	0.0	0.363636	0	C|0.989;T|0.011	0.011	strong	.	PTPRN2	243	.	NM_130843	exon8	c.G1150A	p.D384N	CATCGTCGTCCTG	.	PASS	Atlas-SNP
ARHGEF5	7984	hgsc.bcm.edu	37	7	144062222	144062222	+	Silent	SNP	G	G	A	rs201478085		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	151.0	27.0	165.0	0.0	0.178808	0	G|0.995;A|0.005	0.005	weak	ARHGEF5,NS,carcinoma,+2,2	ARHGEF5	73	2	NM_005435	exon2	c.G2460A	p.P820P	TTTGCCGCAGCCC	.	scavenged	Atlas-SNP
PRR11	55771	hgsc.bcm.edu	37	17	57247133	57247133	+	Missense_Mutation	SNP	G	G	A	rs145780567	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	86.0	47.0	101.0	0.0	0.546512	0	G|0.994;A|0.006	0.006	strong	PRR11,NS,carcinoma,+1,1	PRR11	36	1	NM_018304	exon2	c.G20A	p.R7Q	AACAACGAAGACG	.	PASS	Atlas-SNP
OR9G9	504191	hgsc.bcm.edu	37	11	56468258	56468258	+	Missense_Mutation	SNP	C	C	T	rs78340277	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	227.0	85.0	257.0	0.0	0.374449	0	C|0.987;T|0.013	0.013	strong	.	.	.	.	NM_001013358	exon1	c.C395T	p.A132V	TTTATGCCCAGGC	.	PASS	Atlas-SNP
FAM208B	54906	hgsc.bcm.edu	37	10	5803349	5803349	+	Silent	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	120.0	28.0	119.0	0.0	0.233333	0	.	.	none	C10orf18,NS,carcinoma,+2,2	.	.	2	NM_017782	exon19	c.A7089C	p.R2363R	CTCTCGATCATCA	.	PASS	Atlas-SNP
ING4	51147	hgsc.bcm.edu	37	12	6760367	6760367	+	Silent	SNP	C	C	T	rs76327967	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	110.0	45.0	131.0	0.0	0.409091	0	C|0.923;T|0.077	0.077	strong	.	ING4	31	.	NM_001127582	exon8	c.G744A	p.K248K	CTATTTCTTCTTC	.	PASS	Atlas-SNP
PIGW	284098	hgsc.bcm.edu	37	17	34893655	34893655	+	Missense_Mutation	SNP	C	C	G	rs61755368	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	114.0	57.0	125.0	0.0	0.5	0	C|0.995;G|0.005	0.005	strong	.	PIGW	50	.	NM_178517	exon2	c.C705G	p.H235Q	AGTTCACTGGAAC	.	PASS	Atlas-SNP
S100PBP	64766	hgsc.bcm.edu	37	1	33292008	33292008	+	Missense_Mutation	SNP	G	G	A	rs61739743	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	82.0	36.0	110.0	0.0	0.439024	0	G|0.990;A|0.010	0.010	strong	.	S100PBP	31	.	NM_001256121	exon3	c.G308A	p.S103N	CGTACAGCCTGGG	.	PASS	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	37	1	201163305	201163305	+	Missense_Mutation	SNP	C	C	A	rs189690117	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	116.0	116.0	123.0	0.0	1	0	C|0.999;A|0.001	0.001	strong	.	IGFN1	220	.	NM_001164586	exon3	c.C31A	p.P11T	CACATCCCTGGAG	.	PASS	Atlas-SNP
NFIX	4784	hgsc.bcm.edu	37	19	13183882	13183882	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	105.0	27.0	120.0	0.0	0.257143	0	.	.	none	.	NFIX	61	.	NM_001271043	exon3	c.C605G	p.S202X	ATAGTTCAAACCA	.	PASS	Atlas-SNP
C8orf74	203076	hgsc.bcm.edu	37	8	10532188	10532188	+	Silent	SNP	T	T	C	rs61729951	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	137.0	105.0	144.0	0.0	0.766423	0	T|0.992;C|0.008	0.008	strong	.	C8orf74	28	.	NM_001040032	exon2	c.T81C	p.L27L	GAGGCTTCTGAAC	.	PASS	Atlas-SNP
FAR1	84188	hgsc.bcm.edu	37	11	13743325	13743325	+	Silent	SNP	A	A	G	rs34341612	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	49.0	32.0	70.0	0.0	0.653061	0	A|0.990;G|0.010	0.010	strong	.	FAR1	40	.	NM_032228	exon10	c.A1176G	p.E392E	TCTTGAATATTTC	.	PASS	Atlas-SNP
STOX1	219736	hgsc.bcm.edu	37	10	70641785	70641785	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	160.0	73.0	175.0	0.0	0.45625	0	.	.	none	.	STOX1	75	.	NM_001130160	exon2	c.T382C	p.C128R	CTTTGCTGTGCTA	.	PASS	Atlas-SNP
DIAPH3	81624	hgsc.bcm.edu	37	13	60413550	60413550	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	52.0	10.0	68.0	0.0	0.192308	0	.	.	none	.	DIAPH3	139	.	NM_001042517	exon23	c.C2770A	p.Q924K	CCATCTGCCTCAA	.	PASS	Atlas-SNP
PCDHB8	56128	hgsc.bcm.edu	37	5	140559058	140559058	+	Silent	SNP	G	G	A	rs61741789	byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	261.0	41.0	228.0	0.0	0.157088	0	G|0.680;A|0.320	0.320	strong	.	PCDHB8	199	.	NM_019120	exon1	c.G1443A	p.S481S	AGACTCGGGCACC	.	PASS	Atlas-SNP
TGM7	116179	hgsc.bcm.edu	37	15	43569097	43569097	+	Missense_Mutation	SNP	C	C	T	rs146833656	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	84.0	63.0	69.0	0.0	0.75	0	C|0.992;T|0.008	0.008	strong	.	TGM7	86	.	NM_052955	exon12	c.G1936A	p.E646K	TTCCTTCCAGCAC	.	PASS	Atlas-SNP
SOCS1	8651	hgsc.bcm.edu	37	16	11348810	11348810	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	17.0	11.0	12.0	0.0	0.647059	0	.	.	none	SOCS1,lymph_node,lymphoid_neoplasm,+2,1	SOCS1	84	1	NM_003745	exon2	c.G526A	p.E176K	ACAGCTCCTGCAG	.	PASS	Atlas-SNP
LPPR1	0	hgsc.bcm.edu	37	9	103947810	103947810	+	Missense_Mutation	SNP	T	T	G	rs41296085	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	227.0	111.0	246.0	0.0	0.488987	0	T|0.990;G|0.010	0.010	strong	.	.	.	.	NM_207299	exon2	c.T34G	p.S12A	AGTTATTCCATCA	.	PASS	Atlas-SNP
FUK	197258	hgsc.bcm.edu	37	16	70512349	70512349	+	Missense_Mutation	SNP	G	G	A	rs17886060	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	73.0	49.0	87.0	0.0	0.671233	0	G|0.990;A|0.010	0.010	strong	.	FUK	72	.	NM_145059	exon21	c.G2816A	p.R939Q	TGGCTCGGAACCT	.	PASS	Atlas-SNP
ADAMTS2	9509	hgsc.bcm.edu	37	5	178700038	178700038	+	Missense_Mutation	SNP	C	C	G	rs146064587		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	59.0	25.0	50.0	0.0	0.423729	0	C|1.000;G|0.000	0.000	weak	.	ADAMTS2	190	.	NM_021599	exon3	c.G562C	p.E188Q	AGAACTCCTCCTC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505247	195505247	+	Silent	SNP	G	G	T	rs76650792	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	285.0	136.0	296.0	0.0	0.477193	0	G|0.967;T|0.033	0.033	strong	.	MUC4	1505	.	NM_018406	exon3	c.C12870A	p.I4290I	GGAAATGATGGTC	.	PASS	Atlas-SNP
MYH14	79784	hgsc.bcm.edu	37	19	50771511	50771511	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	78.0	47.0	109.0	0.0	0.602564	0	.	.	none	.	MYH14	261	.	NM_001145809	exon24	c.C2920T	p.R974C	GCAGCCCGCAAGC	.	PASS	Atlas-SNP
ATHL1	80162	hgsc.bcm.edu	37	11	290050	290050	+	Silent	SNP	G	G	A	rs139686173	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	52.0	14.0	36.0	0.0	0.269231	0	G|0.986;A|0.014	0.014	strong	.	ATHL1	88	.	NM_025092	exon2	c.G234A	p.E78E	GACCGAGACCTTC	.	PASS	Atlas-SNP
OR2T12	127064	hgsc.bcm.edu	37	1	248458187	248458187	+	Missense_Mutation	SNP	G	G	A	rs200352170		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	363.0	97.0	402.0	0.0	0.267218	0	G|0.999;A|0.001	0.001	weak	.	OR2T12	113	.	NM_001004692	exon1	c.C694T	p.R232C	TCTTGCGGGCTTC	.	PASS	Atlas-SNP
POLQ	10721	hgsc.bcm.edu	37	3	121212484	121212484	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	3.0	118.0	0.0	0.0422535	0	.	.	none	POLQ,caecum,carcinoma,0,1	POLQ	273	1	NM_199420	exon15	c.G2363A	p.G788D	TGGATGCCAAACG	.	scavenged	Atlas-SNP
SALL1	6299	hgsc.bcm.edu	37	16	51174432	51174432	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	64.0	29.0	88.0	0.0	0.453125	0	.	.	none	.	SALL1	301	.	NM_002968	exon2	c.A1701G	p.I567M	GAAGGGTATGAGG	.	PASS	Atlas-SNP
NCAPD2	9918	hgsc.bcm.edu	37	12	6638197	6638197	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	67.0	23.0	84.0	0.0	0.343284	0	.	.	none	.	NCAPD2	99	.	NM_014865	exon27	c.C3564T	p.T1188T	CCACACCATCATG	.	PASS	Atlas-SNP
EIF4G2	1982	hgsc.bcm.edu	37	11	10827592	10827592	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	205.0	48.0	203.0	0.0	0.234146	0	.	.	none	.	EIF4G2	89	.	NM_001172705	exon4	c.A110T	p.E37V	AGGAACTCGCTGA	.	PASS	Atlas-SNP
RASSF6	166824	hgsc.bcm.edu	37	4	74459206	74459206	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	101.0	20.0	117.0	0.0	0.19802	0	.	.	none	.	RASSF6	68	.	NM_201431	exon4	c.T345G	p.F115L	ACTAGTAAAAGAA	.	PASS	Atlas-SNP
KRT73	319101	hgsc.bcm.edu	37	12	53002197	53002197	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	69.0	9.0	75.0	0.0	0.130435	0	.	.	none	.	KRT73	101	.	NM_175068	exon9	c.G1406A	p.G469E	CCAGCCCCTGTGC	.	PASS	Atlas-SNP
FKBP15	23307	hgsc.bcm.edu	37	9	115936860	115936860	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	133.0	39.0	219.0	0.0	0.293233	0	.	.	none	FKBP15_ENST00000238256,NS,carcinoma,+1,2	FKBP15	128	2	NM_015258	exon22	c.C2227T	p.L743F	CTGAGAGGTTCTT	.	PASS	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	37	1	228452016	228452016	+	Missense_Mutation	SNP	G	G	C	rs185523702	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	309.0	147.0	319.0	0.0	0.475728	0	G|0.990;C|0.010	0.010	strong	.	OBSCN	2142	.	NM_001271223	exon18	c.G5337C	p.E1779D	GCAGGAGGCAGGC	.	PASS	Atlas-SNP
USP39	10713	hgsc.bcm.edu	37	2	85843348	85843348	+	Silent	SNP	C	C	T	rs11544042	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	60.0	33.0	50.0	0.0	0.55	0	C|0.936;T|0.064	0.064	strong	.	USP39	33	.	NM_001256725	exon1	c.C30T	p.R10R	GTCTCGCGGTTCC	.	PASS	Atlas-SNP
TFDP2	7029	hgsc.bcm.edu	37	3	141678667	141678667	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	87.0	4.0	93.0	0.0	0.045977	0	.	.	none	.	TFDP2	44	.	NM_001178139	exon11	c.C900T	p.F300F	AAAATTGAAAAGA	.	PASS	Atlas-SNP
MAGEA4	4103	hgsc.bcm.edu	37	X	151092968	151092968	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	95.0	32.0	158.0	0.0	0.336842	0	.	.	none	.	MAGEA4	68	.	NM_001011548	exon3	c.G832T	p.A278S	CCAAGGGCTCTGG	.	PASS	Atlas-SNP
TLE3	7090	hgsc.bcm.edu	37	15	70351154	70351154	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	40.0	15.0	56.0	0.0	0.375	0	.	.	none	.	TLE3	104	.	NM_001105192	exon11	c.G766A	p.D256N	CGGGGTCCTGAAA	.	PASS	Atlas-SNP
SPAST	6683	hgsc.bcm.edu	37	2	32289034	32289034	+	Missense_Mutation	SNP	C	C	A	rs121908517	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	61.0	25.0	35.0	0.0	0.409836	0	C|1.000;A|0.000	0.000	weak	SPAST,NS,carcinoma,-1,2	SPAST	61	2	NM_199436	exon1	c.C134A	p.P45Q	AGTCGCCGCATAA	.	PASS	Atlas-SNP
SLC32A1	140679	hgsc.bcm.edu	37	20	37353743	37353743	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	83.0	25.0	108.0	0.0	0.301205	0	.	.	none	.	SLC32A1	81	.	NM_080552	exon1	c.A376G	p.T126A	AACGTGACCAACG	.	PASS	Atlas-SNP
RBPJL	11317	hgsc.bcm.edu	37	20	43942698	43942698	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	53.0	22.0	71.0	0.0	0.415094	0	.	.	none	.	RBPJL	67	.	NM_014276	exon8	c.G781A	p.D261N	CAAGGAGACTTCC	.	PASS	Atlas-SNP
OR4A47	403253	hgsc.bcm.edu	37	11	48511050	48511050	+	Missense_Mutation	SNP	T	T	C	rs76991989	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	116.0	90.0	143.0	0.0	0.775862	0	T|0.981;C|0.019	0.019	strong	OR4A47,bladder,carcinoma,-1,1	OR4A47	72	1	NM_001005512	exon1	c.T706C	p.S236P	GCCCTCTCAACCT	.	PASS	Atlas-SNP
ZNF598	90850	hgsc.bcm.edu	37	16	2048564	2048564	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	98.0	49.0	123.0	0.0	0.5	0	.	.	none	.	ZNF598	55	.	NM_178167	exon14	c.A2384G	p.Y795C	TTGTAATACTGGG	.	PASS	Atlas-SNP
ATM	472	hgsc.bcm.edu	37	11	108175462	108175462	+	Missense_Mutation	SNP	G	G	A	rs1801516	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	91.0	15.0	126.0	0.0	0.164835	0	G|0.910;A|0.090	0.090	strong	ATM_ENST00000278616,colon,carcinoma,-1,17	ATM	1657	17	NM_000051	exon37	c.G5557A	p.D1853N	CTCCAAGATACAA	.	PASS	Atlas-SNP
SLC9A5	6553	hgsc.bcm.edu	37	16	67300058	67300058	+	Silent	SNP	G	G	A	rs61744117	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	200.0	113.0	153.0	0.0	0.565	0	G|0.998;A|0.002	0.002	strong	.	SLC9A5	82	.	NM_004594	exon15	c.G2148A	p.K716K	AGAGAAGGAGGAC	.	PASS	Atlas-SNP
DMD	1756	hgsc.bcm.edu	37	X	32486756	32486756	+	Silent	SNP	C	C	T	rs1800268	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	238.0	238.0	420.0	0.0	1	0	C|0.989;T|0.011	0.011	strong	.	DMD	2127	.	NM_004006	exon23	c.G3021A	p.S1007S	TTTCTTCGACATC	.	PASS	Atlas-SNP
DNM2	1785	hgsc.bcm.edu	37	19	10870486	10870486	+	Silent	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	102.0	43.0	122.0	0.0	0.421569	0	.	.	none	.	DNM2	175	.	NM_001005361	exon2	c.A234G	p.T78T	AAAAACAGGTAAA	.	PASS	Atlas-SNP
FNDC3A	22862	hgsc.bcm.edu	37	13	49775997	49775997	+	Missense_Mutation	SNP	A	A	G	rs45604939	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	141.0	60.0	174.0	0.0	0.425532	0	A|0.954;G|0.046	0.046	strong	.	FNDC3A	93	.	NM_001079673	exon24	c.A3049G	p.T1017A	GAGTCAACATCCT	.	PASS	Atlas-SNP
PPP1R7	5510	hgsc.bcm.edu	37	2	242122130	242122130	+	Silent	SNP	A	A	G	rs113069444	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	64.0	26.0	81.0	0.0	0.40625	0	A|0.997;G|0.002;T|0.000	0.002	strong	PPP1R7,NS,carcinoma,+2,1	PPP1R7	35	1	NM_002712	exon10	c.A975G	p.T325T	GGAGACAGTGTAC	.	PASS	Atlas-SNP
UTP20	27340	hgsc.bcm.edu	37	12	101674926	101674926	+	Silent	SNP	T	T	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	111.0	31.0	119.0	0.0	0.279279	0	.	.	none	.	UTP20	222	.	NM_014503	exon2	c.T78G	p.V26V	GAATGTTAATATT	.	PASS	Atlas-SNP
FGFR2	2263	hgsc.bcm.edu	37	10	123325034	123325034	+	Silent	SNP	C	C	T	rs1047101	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	161.0	87.0	154.0	0.0	0.540373	0	C|0.993;T|0.007	0.007	strong	.	FGFR2	758	.	NM_022970	exon3	c.G294A	p.T98T	TCTAGGCGTGGCG	.	PASS	Atlas-SNP
ALG1	56052	hgsc.bcm.edu	37	16	5132659	5132659	+	Missense_Mutation	SNP	C	C	T	rs74910062	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	17.0	7.0	17.0	0.0	0.411765	0	.	.	weak	.	ALG1	35	.	NM_019109	exon11	c.C1172T	p.A391V	TGTGTGCTGTGAA	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1027995	1027995	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	110.0	17.0	106.0	0.0	0.154545	0	.	.	none	.	MUC6	408	.	NM_005961	exon15	c.C1818G	p.H606Q	TGTGGCGTGGCAC	.	PASS	Atlas-SNP
PTCH1	5727	hgsc.bcm.edu	37	9	98244242	98244242	+	Silent	SNP	T	T	C	rs1805154	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	94.0	42.0	91.0	0.0	0.446809	0	T|0.976;C|0.024	0.024	strong	.	PTCH1	1850	.	NM_000264	exon5	c.A735G	p.T245T	GTATGCTGTCCCA	.	PASS	Atlas-SNP
MYH1	4619	hgsc.bcm.edu	37	17	10401064	10401064	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	155.0	40.0	166.0	0.0	0.258065	0	.	.	none	.	MYH1	403	.	NM_005963	exon31	c.G4352T	p.R1451M	AAGTTCCTTTGCT	.	PASS	Atlas-SNP
KLHL32	114792	hgsc.bcm.edu	37	6	97423931	97423931	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	83.0	23.0	87.0	0.0	0.277108	0	.	.	none	.	KLHL32	85	.	NM_052904	exon3	c.G82A	p.V28I	GACAGTGTCCTGG	.	PASS	Atlas-SNP
TMCO4	255104	hgsc.bcm.edu	37	1	20073019	20073019	+	Silent	SNP	C	C	T	rs34281331	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	372.0	185.0	374.0	1.0	0.497312	0.0026738	C|0.973;T|0.027	0.027	strong	.	TMCO4	46	.	NM_181719	exon9	c.G687A	p.A229A	CAGAGCCGCTGCC	.	PASS	Atlas-SNP
RAB11FIP1	80223	hgsc.bcm.edu	37	8	37732509	37732509	+	Silent	SNP	G	G	A	rs369997427		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	87.0	24.0	90.0	0.0	0.275862	0	.	.	weak	.	RAB11FIP1	105	.	NM_025151	exon3	c.C1146T	p.S382S	AGATTCGGAGAGC	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79029025	79029025	+	Silent	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	74.0	16.0	103.0	0.0	0.216216	0	.	.	none	CMYA5_ENST00000446378,NS,carcinoma,+1,2	CMYA5	643	2	NM_153610	exon2	c.T4437C	p.S1479S	ATCATCTTCTCAG	.	PASS	Atlas-SNP
PFKP	5214	hgsc.bcm.edu	37	10	3178001	3178001	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	118.0	37.0	112.0	0.0	0.313559	0	.	.	none	.	PFKP	182	.	NM_002627	exon21	c.G2196A	p.V732V	ACCTGTGGCAGAG	.	PASS	Atlas-SNP
ENTPD7	57089	hgsc.bcm.edu	37	10	101458487	101458487	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	153.0	76.0	247.0	0.0	0.496732	0	.	.	none	.	ENTPD7	44	.	NM_020354	exon10	c.A1207G	p.I403V	AATGGCATATATC	.	PASS	Atlas-SNP
SCTR	6344	hgsc.bcm.edu	37	2	120199139	120199139	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	48.0	23.0	53.0	0.0	0.479167	0	.	.	none	.	SCTR	45	.	NM_002980	exon12	c.G1177A	p.G393R	CCTCCCCATTGAG	.	PASS	Atlas-SNP
GLO1	2739	hgsc.bcm.edu	37	6	38650631	38650631	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	95.0	5.0	82.0	0.0	0.0526316	0	.	.	none	.	GLO1	12	.	NM_006708	exon4	c.A329G	p.D110G	GTCTCATCATCTT	.	PASS	Atlas-SNP
USP54	159195	hgsc.bcm.edu	37	10	75258558	75258558	+	Silent	SNP	G	G	A	rs61749235	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	99.0	98.0	130.0	0.0	0.989899	0	G|0.989;A|0.011	0.011	strong	.	USP54	178	.	NM_152586	exon22	c.C4884T	p.T1628T	ACCAGGGGTTCGG	.	PASS	Atlas-SNP
FAM5B	57795	hgsc.bcm.edu	37	1	177242695	177242695	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	190.0	35.0	209.0	0.0	0.184211	0	.	.	none	.	FAM5B	191	.	NM_021165	exon5	c.G741T	p.L247F	TGTCTTGGTACAG	.	PASS	Atlas-SNP
MTIF2	4528	hgsc.bcm.edu	37	2	55470662	55470662	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	422.0	328.0	256.0	0.0	0.777251	0	.	.	none	.	MTIF2	64	.	NM_002453	exon12	c.T1454C	p.L485P	TTCCACAGTAGAT	.	PASS	Atlas-SNP
SGK1	6446	hgsc.bcm.edu	37	6	134494426	134494426	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	103.0	31.0	175.0	0.0	0.300971	0	.	.	none	.	SGK1	387	.	NM_001143676	exon7	c.C688A	p.L230M	TTTTCAGGATTGC	.	PASS	Atlas-SNP
AGTPBP1	23287	hgsc.bcm.edu	37	9	88204462	88204462	+	Silent	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	119.0	48.0	142.0	0.0	0.403361	0	.	.	none	.	AGTPBP1	128	.	NM_015239	exon20	c.T2583C	p.Y861Y	ATGTTCATAATAA	.	PASS	Atlas-SNP
GCKR	2646	hgsc.bcm.edu	37	2	27741665	27741665	+	Missense_Mutation	SNP	G	G	A	rs141361209	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	123.0	46.0	107.0	0.0	0.373984	0	G|0.999;A|0.001	0.001	strong	GCKR,NS,carcinoma,0,1	GCKR	73	1	NM_001486	exon17	c.G1433A	p.R478H	TCCAGCGTGAGCT	.	PASS	Atlas-SNP
ZNF93	81931	hgsc.bcm.edu	37	19	20026163	20026163	+	Silent	SNP	G	G	C	rs150804499	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	27.0	14.0	27.0	0.0	0.518519	0	G|0.991;C|0.009	0.009	strong	.	ZNF93	81	.	NM_031218	exon2	c.G78C	p.R26R	ACAGCGGAATCTA	.	PASS	Atlas-SNP
RASA3	22821	hgsc.bcm.edu	37	13	114795333	114795333	+	Missense_Mutation	SNP	C	C	T	rs200024629	by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	48.0	23.0	43.0	0.0	0.479167	0	C|1.000;T|0.000	0.000	strong	.	RASA3	83	.	NM_007368	exon5	c.G403A	p.E135K	TGACCTCGCTCAG	.	PASS	Atlas-SNP
MSRB3	253827	hgsc.bcm.edu	37	12	65857078	65857078	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	75.0	27.0	113.0	0.0	0.36	0	.	.	none	.	MSRB3	80	.	NM_198080	exon6	c.C555T	p.A185A	CCCGGCCCAGGCA	.	PASS	Atlas-SNP
BMP2K	55589	hgsc.bcm.edu	37	4	79832870	79832870	+	Missense_Mutation	SNP	A	A	T	rs116710382	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	135.0	70.0	151.0	0.0	0.518519	0	A|0.993;T|0.007	0.007	strong	.	BMP2K	169	.	NM_198892	exon16	c.A3169T	p.N1057Y	AGGGGGAATGTCT	.	PASS	Atlas-SNP
DST	667	hgsc.bcm.edu	37	6	56494071	56494071	+	Silent	SNP	A	A	G	rs112640831	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	128.0	66.0	168.0	0.0	0.515625	0	A|0.974;G|0.026;T|0.000	0.026	strong	.	DST	1427	.	NM_001723	exon18	c.T2841C	p.N947N	ATGAACATTTTGC	.	PASS	Atlas-SNP
NEB	4703	hgsc.bcm.edu	37	2	152382759	152382759	+	Silent	SNP	T	T	C	rs61730765	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	103.0	47.0	130.0	0.0	0.456311	0	T|0.975;C|0.025	0.025	strong	.	NEB	1697	.	NM_001271208	exon150	c.A22068G	p.K7356K	GACATGTTTCTCT	.	PASS	Atlas-SNP
C14orf37	145407	hgsc.bcm.edu	37	14	58605156	58605156	+	Silent	SNP	G	G	A	rs61748937	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	175.0	98.0	218.0	0.0	0.56	0	G|0.989;A|0.011	0.011	strong	.	C14orf37	87	.	NM_001001872	exon2	c.C921T	p.A307A	GGCAGAGGCAGCT	.	PASS	Atlas-SNP
OR5L1	219437	hgsc.bcm.edu	37	11	55579068	55579068	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	143.0	8.0	113.0	0.0	0.0559441	0	.	.	none	OR5L1,colon,carcinoma,0,3	OR5L1	145	3	NM_001004738	exon1	c.C126T	p.N42N	AGCCAACCTGGGC	.	scavenged	Atlas-SNP
CLEC16A	23274	hgsc.bcm.edu	37	16	11272482	11272482	+	Missense_Mutation	SNP	G	G	A	rs72650691	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	13.0	13.0	12.0	0.0	1	0	.	.	weak	CLEC16A,NS,carcinoma,-1,1	CLEC16A	101	1	NM_015226	exon23	c.G3097A	p.A1033T	GCTGCCGCCTGCA	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62194238	62194238	+	Silent	SNP	C	C	T	rs34996572	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	99.0	38.0	83.0	0.0	0.383838	0	C|0.984;T|0.016	0.016	strong	.	.	.	.	NM_001037335	exon9	c.G5937A	p.P1979P	CCCCTGCGGCGTC	.	PASS	Atlas-SNP
MAGI1	9223	hgsc.bcm.edu	37	3	65464386	65464386	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	146.0	38.0	169.0	0.0	0.260274	0	.	.	none	.	MAGI1	481	.	NM_001033057	exon4	c.G638C	p.G213A	TTAGAGCCAGACT	.	PASS	Atlas-SNP
DGKH	160851	hgsc.bcm.edu	37	13	42803315	42803315	+	Silent	SNP	G	G	A	rs376522940		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	67.0	10.0	71.0	0.0	0.149254	0	.	.	weak	.	DGKH	106	.	NM_178009	exon30	c.G3654A	p.S1218S	ACAGTCGGAGGTG	.	PASS	Atlas-SNP
MYLK2	85366	hgsc.bcm.edu	37	20	30414621	30414621	+	Silent	SNP	C	C	T	rs6089088	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	159.0	75.0	175.0	0.0	0.471698	0	C|0.986;T|0.014	0.014	strong	.	MYLK2	76	.	NM_033118	exon8	c.C1104T	p.F368F	GCTCTTCGAGAGG	.	PASS	Atlas-SNP
PTGIS	5740	hgsc.bcm.edu	37	20	48156249	48156249	+	Silent	SNP	G	G	A	rs61322884	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	31.0	19.0	36.0	0.0	0.612903	0	G|0.982;A|0.018	0.018	strong	.	PTGIS	60	.	NM_000961	exon5	c.C531T	p.Y177Y	AGTCAGGTAGCCG	.	PASS	Atlas-SNP
PCSK1	5122	hgsc.bcm.edu	37	5	95751785	95751785	+	Missense_Mutation	SNP	T	T	C	rs6232	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	168.0	80.0	170.0	0.0	0.47619	0	T|0.968;C|0.032	0.032	strong	.	PCSK1	93	.	NM_000439	exon6	c.A661G	p.N221D	GATTATTTGCTTG	.	PASS	Atlas-SNP
SAMD4B	55095	hgsc.bcm.edu	37	19	39873858	39873858	+	Silent	SNP	T	T	G	rs140996761	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	105.0	52.0	162.0	0.0	0.495238	0	T|0.996;G|0.004	0.004	strong	.	SAMD4B	48	.	NM_018028	exon15	c.T1983G	p.V661V	CCCGGTTCCTGGG	.	PASS	Atlas-SNP
JAKMIP3	282973	hgsc.bcm.edu	37	10	133966522	133966522	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	106.0	27.0	96.0	0.0	0.254717	0	.	.	none	.	JAKMIP3	69	.	NM_001105521	exon16	c.G2062A	p.E688K	TTGGCCGAAAAGG	.	PASS	Atlas-SNP
ANO4	121601	hgsc.bcm.edu	37	12	101520847	101520847	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	84.0	22.0	94.0	0.0	0.261905	0	.	.	none	.	ANO4	183	.	NM_178826	exon26	c.G2762A	p.X921X	GGCCGTGACCATG	.	PASS	Atlas-SNP
OR56A1	120796	hgsc.bcm.edu	37	11	6048408	6048408	+	Missense_Mutation	SNP	C	C	A	rs151331727	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	163.0	36.0	133.0	0.0	0.220859	0	C|0.996;A|0.004	0.004	strong	.	OR56A1	73	.	NM_001001917	exon1	c.G527T	p.C176F	TCCCCACAGTAAT	.	PASS	Atlas-SNP
FIGN	55137	hgsc.bcm.edu	37	2	164467750	164467750	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	105.0	30.0	120.0	0.0	0.285714	0	.	.	none	.	FIGN	106	.	NM_018086	exon3	c.T592A	p.Y198N	TACTATAAGTAGA	.	PASS	Atlas-SNP
KDM4C	23081	hgsc.bcm.edu	37	9	6981115	6981115	+	Missense_Mutation	SNP	G	G	A	rs35049841	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	23.0	8.0	47.0	0.0	0.347826	0	G|0.998;A|0.002	0.002	strong	.	KDM4C	186	.	NM_001146696	exon9	c.G1178A	p.R393Q	CATCCCGAAGGTA	.	PASS	Atlas-SNP
RTN4IP1	84816	hgsc.bcm.edu	37	6	107019974	107019974	+	Missense_Mutation	SNP	C	C	T	rs372866009		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	26.0	96.0	0.0	0.366197	0	.	.	weak	RTN4IP1,NS,carcinoma,0,1	RTN4IP1	31	1	NM_032730	exon9	c.G1088A	p.R363Q	ACTGGCCGGATCT	.	PASS	Atlas-SNP
ZNF235	9310	hgsc.bcm.edu	37	19	44791537	44791537	+	Missense_Mutation	SNP	G	G	A	rs149947768	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	86.0	41.0	147.0	0.0	0.476744	0	G|0.998;A|0.002	0.002	strong	.	ZNF235	60	.	NM_004234	exon5	c.C2051T	p.T684M	TGACACGTATAGG	.	PASS	Atlas-SNP
HTT	3064	hgsc.bcm.edu	37	4	3107140	3107140	+	Silent	SNP	C	C	T	rs184820567	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	145.0	70.0	182.0	0.0	0.482759	0	C|0.999;T|0.001	0.001	strong	.	HTT	221	.	NM_002111	exon5	c.C585T	p.H195H	GGCTCACCTGGTT	.	PASS	Atlas-SNP
NACAD	23148	hgsc.bcm.edu	37	7	45123857	45123857	+	Missense_Mutation	SNP	A	A	G	rs7790844	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	9.0	7.0	13.0	1.0	0.777778	0.0769231	A|0.007;G|0.993	0.993	strong	NACAD,NS,carcinoma,0,1	NACAD	44	1	NM_001146334	exon2	c.T1922C	p.V641A	GTCATAACGGAGT	.	scavenged	Atlas-SNP
ATP12A	479	hgsc.bcm.edu	37	13	25255705	25255705	+	Silent	SNP	C	C	A	rs41288276	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	36.0	83.0	0.0	0.507042	0	C|0.942;A|0.058	0.058	strong	.	ATP12A	172	.	NM_001185085	exon2	c.C15A	p.T5T	GAAAACCCCAGAA	.	PASS	Atlas-SNP
ITFG2	55846	hgsc.bcm.edu	37	12	2930731	2930731	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	97.0	4.0	125.0	0.0	0.0412371	0	.	.	none	.	ITFG2	38	.	NM_018463	exon8	c.C816T	p.G272G	TAGTGGCTCTGGC	.	PASS	Atlas-SNP
ZNF460	10794	hgsc.bcm.edu	37	19	57802116	57802116	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	140.0	33.0	140.0	0.0	0.235714	0	.	.	none	.	ZNF460	59	.	NM_006635	exon3	c.C207T	p.A69A	TCTGGCCTTGCCT	.	PASS	Atlas-SNP
PCDHB12	56124	hgsc.bcm.edu	37	5	140590139	140590139	+	Missense_Mutation	SNP	G	G	A	rs61741192	byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	126.0	73.0	158.0	0.0	0.579365	0	G|0.875;A|0.125	0.125	strong	.	PCDHB12	179	.	NM_018932	exon1	c.G1660A	p.A554T	CTGGACGCCAACG	.	PASS	Atlas-SNP
LAMA5	3911	hgsc.bcm.edu	37	20	60901762	60901762	+	Missense_Mutation	SNP	C	C	T	rs11699758	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	144.0	79.0	170.0	0.0	0.548611	0	C|0.974;T|0.026	0.026	strong	.	LAMA5	268	.	NM_005560	exon40	c.G5269A	p.V1757I	GGTGAACGTGGCC	.	PASS	Atlas-SNP
CDHR3	222256	hgsc.bcm.edu	37	7	105636765	105636765	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	51.0	4.0	42.0	0.0	0.0784314	0	.	.	none	.	CDHR3	153	.	NM_152750	exon6	c.C678T	p.I226I	GAACATCGTGAAC	.	PASS	Atlas-SNP
EIF2AK1	27102	hgsc.bcm.edu	37	7	6080686	6080686	+	Missense_Mutation	SNP	A	A	T	rs34909691	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	178.0	137.0	187.0	0.0	0.769663	0	A|0.978;T|0.022	0.022	strong	.	EIF2AK1	76	.	NM_014413	exon9	c.T956A	p.L319H	GACTCAAGTTCAC	.	PASS	Atlas-SNP
CYP4F3	4051	hgsc.bcm.edu	37	19	15760035	15760035	+	Silent	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	125.0	36.0	105.0	0.0	0.288	0	.	.	none	.	CYP4F3	69	.	NM_001199209	exon6	c.C591G	p.L197L	CAGCCTCATGACC	.	PASS	Atlas-SNP
CTBS	1486	hgsc.bcm.edu	37	1	85029085	85029085	+	Missense_Mutation	SNP	A	A	G	rs143993403	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	97.0	42.0	120.0	0.0	0.43299	0	A|0.997;G|0.003	0.003	strong	.	CTBS	24	.	NM_004388	exon6	c.T812C	p.I271T	TTTGCAATGGTAC	.	PASS	Atlas-SNP
CCDC102A	92922	hgsc.bcm.edu	37	16	57562804	57562804	+	Missense_Mutation	SNP	G	G	A	rs12935069	bycluster;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	4.0	4.0	0.0	0.0	1	.	G|0.001;A|0.999	0.999	strong	.	CCDC102A	22	.	NM_033212	exon2	c.C286T	p.R96W	ACCACCGGCGCAT	.	PASS	Atlas-SNP
PDE4A	5141	hgsc.bcm.edu	37	19	10531491	10531491	+	Silent	SNP	C	C	T	rs117495488	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	32.0	18.0	2.0	0.0	0.5625	0	C|0.987;T|0.013	0.013	strong	.	PDE4A	236	.	NM_001111307	exon1	c.C51T	p.P17P	ACTGCCCGGGCCC	.	PASS	Atlas-SNP
CCKBR	887	hgsc.bcm.edu	37	11	6291466	6291466	+	Silent	SNP	A	A	G	rs77873910	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	77.0	16.0	70.0	0.0	0.207792	0	A|0.986;G|0.014	0.014	strong	CCKBR_ENST00000525462,NS,carcinoma,+2,2	CCKBR	232	2	NM_176875	exon3	c.A552G	p.L184L	CGGACTACTCATG	.	PASS	Atlas-SNP
NEK11	79858	hgsc.bcm.edu	37	3	130799314	130799314	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	70.0	18.0	77.0	0.0	0.257143	0	.	.	none	.	NEK11	76	.	NM_024800	exon4	c.C218G	p.T73S	ATGAAACTGTACA	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187629137	187629137	+	Silent	SNP	A	A	G	rs4862726	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	62.0	23.0	69.0	0.0	0.370968	0	A|0.975;G|0.025	0.025	strong	.	FAT1	500	.	NM_005245	exon2	c.T1845C	p.F615F	TAAACTAAAGAAA	.	PASS	Atlas-SNP
CSNK2A1	1457	hgsc.bcm.edu	37	20	472938	472938	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	60.0	16.0	78.0	0.0	0.266667	0	.	.	none	.	CSNK2A1	36	.	NM_001895	exon8	c.C581T	p.S194F	TATCGGGAAGCAA	.	PASS	Atlas-SNP
RPTOR	57521	hgsc.bcm.edu	37	17	78820351	78820351	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	88.0	27.0	76.0	0.0	0.306818	0	.	.	none	.	RPTOR	122	.	NM_001163034	exon11	c.G1291A	p.E431K	CCACCCGAACAGC	.	PASS	Atlas-SNP
SPPL2A	84888	hgsc.bcm.edu	37	15	51017488	51017488	+	Silent	SNP	G	G	T	rs140457962	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	223.0	127.0	229.0	0.0	0.569507	0	G|0.995;T|0.005	0.005	strong	.	SPPL2A	26	.	NM_032802	exon12	c.C1179A	p.I393I	GAAATAGATCAGT	.	PASS	Atlas-SNP
DBC1	1620	hgsc.bcm.edu	37	9	121930344	121930344	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	115.0	16.0	106.0	0.0	0.13913	0	.	.	none	.	DBC1	194	.	NM_014618	exon8	c.G1304A	p.S435N	GCGCAGCTGTTGT	.	PASS	Atlas-SNP
DCC	1630	hgsc.bcm.edu	37	18	50278563	50278563	+	Silent	SNP	T	T	C	rs112141078	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	98.0	43.0	110.0	0.0	0.438776	0	T|0.986;C|0.014	0.014	strong	.	DCC	360	.	NM_005215	exon2	c.T231C	p.D77D	GAAAGATGGCATT	.	PASS	Atlas-SNP
HIST1H2BI	8346	hgsc.bcm.edu	37	6	26273368	26273368	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	108.0	22.0	109.0	0.0	0.203704	0	.	.	none	.	HIST1H2BI	29	.	NM_003525	exon1	c.C165G	p.I55M	CGGCATCTCGTCC	.	PASS	Atlas-SNP
BPIFB4	149954	hgsc.bcm.edu	37	20	31671411	31671411	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	178.0	48.0	215.0	0.0	0.269663	0	.	.	none	.	.	.	.	NM_182519	exon3	c.C408T	p.L136L	GGGCCTCGGGCGA	.	PASS	Atlas-SNP
IL5RA	3568	hgsc.bcm.edu	37	3	3139910	3139910	+	Silent	SNP	T	T	C	rs141948767	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	244.0	109.0	268.0	0.0	0.446721	0	T|0.998;C|0.002	0.002	strong	.	IL5RA	55	.	NM_001243099	exon6	c.A432G	p.S144S	TAAACGTGAATAA	.	PASS	Atlas-SNP
ZMYND10	51364	hgsc.bcm.edu	37	3	50379257	50379257	+	Missense_Mutation	SNP	G	G	A	rs142613783	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	60.0	31.0	70.0	0.0	0.516667	0	G|0.995;A|0.005	0.005	strong	.	ZMYND10	37	.	NM_015896	exon10	c.C1105T	p.R369W	GCAGCCGCAGGTC	.	PASS	Atlas-SNP
NRXN1	9378	hgsc.bcm.edu	37	2	50464109	50464109	+	Splice_Site	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	160.0	35.0	80.0	0.0	0.21875	0	.	.	none	.	NRXN1	1118	.	NM_001135659	exon20	c.3485-1G>T	.	TCCCAGCTGGAAA	.	PASS	Atlas-SNP
SAMSN1	64092	hgsc.bcm.edu	37	21	15873026	15873026	+	Missense_Mutation	SNP	T	T	C	rs62227165	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	223.0	141.0	188.0	0.0	0.632287	0	T|0.985;C|0.015	0.015	strong	.	SAMSN1	112	.	NM_001256370	exon7	c.A796G	p.T266A	TTGGTGTTTTGCA	.	PASS	Atlas-SNP
MLLT1	4298	hgsc.bcm.edu	37	19	6222552	6222552	+	Silent	SNP	C	C	T	rs139655596	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	27.0	15.0	30.0	0.0	0.555556	0	C|0.981;T|0.019	0.019	strong	.	MLLT1	47	.	NM_005934	exon6	c.G690A	p.S230S	CTTCCGCGAGGTG	.	PASS	Atlas-SNP
LRRC27	80313	hgsc.bcm.edu	37	10	134151131	134151131	+	Silent	SNP	G	G	T	rs116451295	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	118.0	56.0	146.0	0.0	0.474576	0	G|0.984;T|0.016	0.016	strong	LRRC27,rectum,carcinoma,0,2	LRRC27	64	2	NM_001143757	exon3	c.G273T	p.P91P	GCTTCCGAACCTG	.	PASS	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	37	12	57587714	57587714	+	Missense_Mutation	SNP	C	C	T	rs367968116		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	105.0	38.0	108.0	0.0	0.361905	0	.	.	weak	LRP1,NS,lymphoid_neoplasm,-1,1	LRP1	428	1	NM_002332	exon48	c.C7837T	p.R2613W	CGCTGCCGGGACG	.	PASS	Atlas-SNP
PRR21	643905	hgsc.bcm.edu	37	2	240982389	240982389	+	Missense_Mutation	SNP	C	C	G	rs143417758		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	12.0	7.0	29.0	0.0	0.583333	0	.	.	weak	.	PRR21	53	.	NM_001080835	exon1	c.G11C	p.C4S	GATGAACAGGCAT	.	PASS	Atlas-SNP
RAB40B	10966	hgsc.bcm.edu	37	17	80616397	80616397	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	119.0	31.0	126.0	0.0	0.260504	0	.	.	none	.	RAB40B	24	.	NM_006822	exon5	c.G535A	p.G179R	CCATCCCATGCCG	.	PASS	Atlas-SNP
ZNF587	84914	hgsc.bcm.edu	37	19	58371202	58371202	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	224.0	13.0	180.0	0.0	0.0580357	0	.	.	none	.	ZNF587	53	.	NM_032828	exon3	c.C1422T	p.G474G	ATTTGGCAATAAG	.	PASS	Atlas-SNP
ELOVL1	64834	hgsc.bcm.edu	37	1	43830438	43830438	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	79.0	42.0	93.0	0.0	0.531646	0	.	.	none	.	ELOVL1	18	.	NM_001256399	exon5	c.T346C	p.F116L	TGGAGAAGAGGAA	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103388880	103388880	+	Missense_Mutation	SNP	T	T	C	rs17592459	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	164.0	81.0	197.0	0.0	0.493902	0	T|0.978;C|0.022	0.022	strong	.	.	.	.	NM_001146197	exon4	c.A14167G	p.M4723V	GTGGCATAAAGCT	.	PASS	Atlas-SNP
EAF1	85403	hgsc.bcm.edu	37	3	15477872	15477872	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	168.0	35.0	158.0	0.0	0.208333	0	.	.	none	.	EAF1	16	.	NM_033083	exon5	c.A550C	p.I184L	GACATTATTGAAC	.	PASS	Atlas-SNP
DMBT1	1755	hgsc.bcm.edu	37	10	124358421	124358421	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	43.0	14.0	62.0	0.0	0.325581	0	.	.	none	.	DMBT1	677	.	NM_007329	exon26	c.G3088A	p.V1030I	AATGTCGTCTGCA	.	PASS	Atlas-SNP
E2F2	1870	hgsc.bcm.edu	37	1	23845566	23845566	+	Missense_Mutation	SNP	G	G	A	rs139052092	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	128.0	64.0	126.0	0.0	0.5	0	G|0.998;A|0.002	0.002	strong	.	E2F2	31	.	NM_004091	exon5	c.C794T	p.T265I	ATCACTGTCTGCT	.	PASS	Atlas-SNP
WDFY4	57705	hgsc.bcm.edu	37	10	49987998	49987998	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	79.0	26.0	79.0	0.0	0.329114	0	.	.	none	.	WDFY4	205	.	NM_020945	exon19	c.C3410T	p.P1137L	TGGAACCTGAGGA	.	PASS	Atlas-SNP
ZFP36L1	677	hgsc.bcm.edu	37	14	69259598	69259598	+	Splice_Site	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	34.0	6.0	63.0	0.0	0.176471	0	.	.	none	.	ZFP36L1	47	.	NM_004926	exon2	c.57+1G>A	.	CCTTTACCTTGCA	.	PASS	Atlas-SNP
NAV3	89795	hgsc.bcm.edu	37	12	78574783	78574783	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	103.0	18.0	120.0	0.0	0.174757	0	.	.	none	.	NAV3	506	.	NM_014903	exon29	c.C5584A	p.L1862I	TTAGGACTTTCTC	.	PASS	Atlas-SNP
MCL1	4170	hgsc.bcm.edu	37	1	150550920	150550920	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	107.0	28.0	154.0	0.0	0.261682	0	.	.	none	.	MCL1	27	.	NM_021960	exon2	c.T736G	p.L246V	GAGACAACGATTT	.	PASS	Atlas-SNP
C6orf136	221545	hgsc.bcm.edu	37	6	30615413	30615413	+	Silent	SNP	T	T	C	rs146616682	by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	67.0	44.0	59.0	0.0	0.656716	0	T|0.994;C|0.006	0.006	strong	.	C6orf136	31	.	NM_001161376	exon1	c.T405C	p.I135I	AGAGATTCGTAGC	.	PASS	Atlas-SNP
CFHR2	3080	hgsc.bcm.edu	37	1	196918741	196918741	+	Missense_Mutation	SNP	G	G	A	rs79351096	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	213.0	103.0	247.0	0.0	0.483568	0	G|0.983;A|0.017	0.017	strong	CFHR2_ENST00000367415,NS,carcinoma,-1,1	CFHR2	73	1	NM_005666	exon2	c.G215A	p.C72Y	TAACGTGCGCAGA	.	PASS	Atlas-SNP
PTPN12	5782	hgsc.bcm.edu	37	7	77256150	77256150	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	178.0	37.0	189.0	0.0	0.207865	0	.	.	none	.	PTPN12	83	.	NM_002835	exon13	c.A1154G	p.D385G	ACAATGATAGATA	.	PASS	Atlas-SNP
SLIT2	9353	hgsc.bcm.edu	37	4	20493415	20493415	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	106.0	32.0	147.0	0.0	0.301887	0	.	.	none	.	SLIT2	290	.	NM_004787	exon9	c.T807A	p.S269R	TTGTAGTGTTTTG	.	PASS	Atlas-SNP
AGAP1	116987	hgsc.bcm.edu	37	2	236817442	236817442	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	153.0	20.0	116.0	0.0	0.130719	0	.	.	none	.	AGAP1	95	.	NM_014914	exon11	c.C1216T	p.P406S	AAAGTCCCAGGGA	.	PASS	Atlas-SNP
ZNF442	79973	hgsc.bcm.edu	37	19	12461745	12461745	+	Silent	SNP	A	A	G	rs117398535	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	46.0	18.0	54.0	0.0	0.391304	0	A|0.995;G|0.005	0.005	strong	ZNF442,middle_lobe,carcinoma,0,1	ZNF442	102	1	NM_030824	exon6	c.T654C	p.F218F	CCAAAAAAAGGCT	.	PASS	Atlas-SNP
PCSK9	255738	hgsc.bcm.edu	37	1	55505679	55505679	+	Missense_Mutation	SNP	G	G	A	rs145886902	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	106.0	22.0	87.0	0.0	0.207547	0	G|0.999;A|0.001	0.001	strong	.	PCSK9	76	.	NM_174936	exon1	c.G169A	p.E57K	GCACCCGAGCACG	.	PASS	Atlas-SNP
PADI2	11240	hgsc.bcm.edu	37	1	17413152	17413152	+	Missense_Mutation	SNP	C	C	T	rs61749340	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	117.0	58.0	109.0	0.0	0.495726	0	C|0.994;T|0.006	0.006	strong	.	PADI2	72	.	NM_007365	exon7	c.G698A	p.R233Q	AGCTTCCGCCGGC	.	PASS	Atlas-SNP
TLN2	83660	hgsc.bcm.edu	37	15	63125804	63125804	+	Silent	SNP	G	G	A	rs142793310	byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	84.0	24.0	130.0	0.0	0.285714	0	G|1.000;A|0.000	0.000	strong	.	TLN2	253	.	NM_015059	exon52	c.G7104A	p.Q2368Q	AGCCCAGAGGGAG	.	PASS	Atlas-SNP
MAP3K1	4214	hgsc.bcm.edu	37	5	56155672	56155672	+	Missense_Mutation	SNP	A	A	G	rs56069227	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	206.0	128.0	225.0	0.0	0.621359	0	A|0.976;G|0.024	0.024	strong	.	MAP3K1	355	.	NM_005921	exon3	c.A764G	p.N255S	CTGGCAACTCCCC	.	PASS	Atlas-SNP
KCNK12	56660	hgsc.bcm.edu	37	2	47748558	47748558	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	170.0	43.0	74.0	0.0	0.252941	0	.	.	none	.	KCNK12	11	.	NM_022055	exon2	c.G781A	p.D261N	CCAGGTCCCCGAA	.	PASS	Atlas-SNP
GOLGB1	2804	hgsc.bcm.edu	37	3	121386377	121386377	+	Missense_Mutation	SNP	T	T	A	rs144495540	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	248.0	115.0	264.0	1.0	0.46371	0.00378788	T|0.999;A|0.001	0.001	strong	.	GOLGB1	319	.	NM_001256486	exon20	c.A9515T	p.D3172V	CTTTGGTCTCGTT	.	PASS	Atlas-SNP
TTC3	7267	hgsc.bcm.edu	37	21	38572565	38572565	+	Silent	SNP	C	C	T	rs150750778	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	287.0	56.0	240.0	0.0	0.195122	0	C|0.998;T|0.002	0.002	strong	.	TTC3	182	.	NM_001001894	exon45	c.C5883T	p.H1961H	ATGCCACGAGGTG	.	PASS	Atlas-SNP
ECT2L	345930	hgsc.bcm.edu	37	6	139223635	139223635	+	Splice_Site	SNP	A	A	T	rs200545869	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	31.0	12.0	76.0	0.0	0.387097	0	A|0.999;T|0.001	0.001	weak	.	ECT2L	75	.	NM_001195037	exon21	c.2588-2A>T	.	TTTTACAGATGTC	.	PASS	Atlas-SNP
BCKDHB	594	hgsc.bcm.edu	37	6	80816415	80816415	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	60.0	21.0	37.0	0.0	0.35	0	.	.	none	.	BCKDHB	36	.	NM_000056	exon1	c.C5T	p.A2V	GGATGGCGGTTGT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505872	195505872	+	Silent	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	85.0	5.0	66.0	0.0	0.0588235	0	.	.	none	MUC4_ENST00000463781,NS,carcinoma,-2,2	MUC4	1505	2	NM_018406	exon2	c.T12579G	p.L4193L	GACAGGAAGAGGG	.	scavenged	Atlas-SNP
NPC1	4864	hgsc.bcm.edu	37	18	21140367	21140367	+	Missense_Mutation	SNP	G	G	A	rs80358251	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	70.0	113.0	0.0	0.985915	0	G|0.991;A|0.009	0.009	strong	.	NPC1	114	.	NM_000271	exon6	c.C709T	p.P237S	TACATGGTGCTGT	.	PASS	Atlas-SNP
PANK1	53354	hgsc.bcm.edu	37	10	91359116	91359116	+	Silent	SNP	C	C	T	rs11592870	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	149.0	74.0	177.0	1.0	0.496644	0.00564972	C|0.981;T|0.019	0.019	strong	PANK1,colon,carcinoma,0,1	PANK1	35	1	NM_148977	exon3	c.G1203A	p.P401P	GCAGTACGGCTTT	.	scavenged	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50744283	50744283	+	Missense_Mutation	SNP	G	G	A	rs372753266		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	149.0	43.0	176.0	0.0	0.288591	0	.	.	weak	.	FAM186A	181	.	NM_001145475	exon4	c.C6332T	p.A2111V	TTCTGAGCCTCCA	.	PASS	Atlas-SNP
STK32C	282974	hgsc.bcm.edu	37	10	134038809	134038809	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	95.0	49.0	118.0	0.0	0.515789	0	.	.	none	.	STK32C	61	.	NM_173575	exon7	c.C804T	p.G268G	GGTCCCGCCGTTG	.	PASS	Atlas-SNP
RYR3	6263	hgsc.bcm.edu	37	15	34130697	34130697	+	Silent	SNP	G	G	C	rs75286462	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	185.0	111.0	196.0	0.0	0.6	0	G|0.975;C|0.025	0.025	strong	.	RYR3	760	.	NM_001036	exon89	c.G12516C	p.V4172V	GAACGTGAAAAAG	.	PASS	Atlas-SNP
EN1	2019	hgsc.bcm.edu	37	2	119600674	119600674	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	96.0	33.0	89.0	0.0	0.34375	0	.	.	none	.	EN1	33	.	NM_001426	exon2	c.T1019G	p.L340R	AGGCTGAGTTCCT	.	PASS	Atlas-SNP
PGBD1	84547	hgsc.bcm.edu	37	6	28251890	28251890	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	88.0	4.0	81.0	0.0	0.0454545	0	.	.	none	.	PGBD1	106	.	NM_001184743	exon2	c.C300T	p.L100L	GGAGCTCCAGCCC	.	PASS	Atlas-SNP
FAM120B	84498	hgsc.bcm.edu	37	6	170627266	170627266	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	39.0	15.0	55.0	0.0	0.384615	0	.	.	none	.	FAM120B	108	.	NM_032448	exon2	c.T788C	p.I263T	GTAACATCATATT	.	PASS	Atlas-SNP
CHRD	8646	hgsc.bcm.edu	37	3	184102814	184102814	+	Missense_Mutation	SNP	G	G	A	rs138882380	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	40.0	84.0	0.0	0.56338	0	G|1.000;A|0.000	0.000	strong	.	CHRD	149	.	NM_003741	exon14	c.G1606A	p.V536M	CTGCCCGTGCCCC	.	PASS	Atlas-SNP
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32632831	32632831	+	Missense_Mutation	SNP	G	G	C	rs111588946	alternate_allele	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	65.0	24.0	29.0	0.0	0.369231	0	T|1.000;|0.000	.	alt	.	HLA-DQB1	15	.	NM_002123	exon2	c.C123G	p.F41L	AAACTGGAACACG	.	PASS	Atlas-SNP
LY6K	54742	hgsc.bcm.edu	37	8	143783109	143783109	+	Silent	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	179.0	32.0	193.0	0.0	0.178771	0	.	.	none	.	LY6K	23	.	NM_001160354	exon2	c.A195G	p.P65P	AGAGCCATACTGC	.	PASS	Atlas-SNP
UBXN2B	137886	hgsc.bcm.edu	37	8	59329496	59329496	+	Missense_Mutation	SNP	C	C	T	rs373559127		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	41.0	14.0	33.0	0.0	0.341463	0	.	.	weak	UBXN2B,NS,carcinoma,-1,1	UBXN2B	36	1	NM_001077619	exon2	c.C172T	p.R58W	AGCCCACGGACAC	.	PASS	Atlas-SNP
DOCK10	55619	hgsc.bcm.edu	37	2	225670845	225670845	+	Missense_Mutation	SNP	G	G	T	rs375740801		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	99.0	46.0	76.0	0.0	0.464646	0	.	.	weak	.	DOCK10	308	.	NM_014689	exon34	c.C3812A	p.A1271E	GTACCTGCTATGG	.	PASS	Atlas-SNP
LRP3	4037	hgsc.bcm.edu	37	19	33696647	33696647	+	Missense_Mutation	SNP	C	C	T	rs368108554		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	36.0	15.0	29.0	0.0	0.416667	0	.	.	weak	.	LRP3	46	.	NM_002333	exon5	c.C971T	p.T324M	TGCAGACGCTGTC	.	PASS	Atlas-SNP
KDM4D	55693	hgsc.bcm.edu	37	11	94731905	94731905	+	Missense_Mutation	SNP	C	C	G	rs144086807	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	59.0	48.0	80.0	0.0	0.813559	0	C|0.997;G|0.003	0.003	strong	.	KDM4D	58	.	NM_018039	exon3	c.C1369G	p.P457A	CGCCCTCCTCAGA	.	PASS	Atlas-SNP
DMGDH	29958	hgsc.bcm.edu	37	5	78326767	78326767	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	133.0	85.0	104.0	0.0	0.639098	0	.	.	none	.	DMGDH	88	.	NM_013391	exon10	c.G1572A	p.Q524Q	CATAACCTGTTTA	.	PASS	Atlas-SNP
RAVER1	125950	hgsc.bcm.edu	37	19	10439540	10439540	+	Silent	SNP	A	A	G	rs3745262	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	131.0	50.0	181.0	0.0	0.381679	0	A|0.972;G|0.028	0.028	strong	RAVER1_ENST00000293677,caecum,carcinoma,0,2	RAVER1	67	2	NM_133452	exon3	c.T585C	p.A195A	GTACTCAGCAAAG	.	PASS	Atlas-SNP
NBPF3	84224	hgsc.bcm.edu	37	1	21797221	21797221	+	Missense_Mutation	SNP	A	A	G	rs145790279	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	115.0	63.0	106.0	0.0	0.547826	0	A|0.992;G|0.008	0.008	strong	.	NBPF3	55	.	NM_001256416	exon4	c.C440G	p.T147R	CTGAGGAGCTCAG	.	PASS	Atlas-SNP
PPP1R3D	5509	hgsc.bcm.edu	37	20	58514312	58514312	+	Silent	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	17.0	12.0	4.0	0.0	0.705882	0	.	.	none	.	PPP1R3D	23	.	NM_006242	exon1	c.G675T	p.G225G	TGCGGGCCCGCGC	.	PASS	Atlas-SNP
CHMP6	79643	hgsc.bcm.edu	37	17	78972192	78972192	+	Silent	SNP	C	C	T	rs61752553	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	125.0	5.0	137.0	0.0	0.04	0	C|0.999;T|0.001	0.001	strong	.	CHMP6	16	.	NM_024591	exon7	c.C522T	p.P174P	GGTTCCCTCCGAG	.	PASS	Atlas-SNP
SUGP1	57794	hgsc.bcm.edu	37	19	19427402	19427402	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	91.0	4.0	141.0	0.0	0.043956	0	.	.	none	.	SUGP1	63	.	NM_172231	exon2	c.G35A	p.G12E	GCCTTTCCTGGGG	.	PASS	Atlas-SNP
GPR142	350383	hgsc.bcm.edu	37	17	72367973	72367973	+	Missense_Mutation	SNP	T	T	C	rs148514779	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	65.0	39.0	75.0	0.0	0.6	0	T|0.997;C|0.003	0.003	strong	.	GPR142	74	.	NM_181790	exon4	c.T623C	p.V208A	TCCAGGTGGTCAT	.	PASS	Atlas-SNP
BARD1	580	hgsc.bcm.edu	37	2	215657089	215657089	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	109.0	5.0	153.0	0.0	0.0458716	0	.	.	none	.	BARD1	138	.	NM_000465	exon3	c.G296A	p.R99K	AGTTGTCTATTTA	.	PASS	Atlas-SNP
HERC4	26091	hgsc.bcm.edu	37	10	69695973	69695973	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	65.0	17.0	69.0	0.0	0.261538	0	.	.	none	.	HERC4	78	.	NM_022079	exon23	c.G2615A	p.G872D	GTTGCACCAAAGT	.	PASS	Atlas-SNP
WDR38	401551	hgsc.bcm.edu	37	9	127618775	127618775	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	61.0	11.0	56.0	0.0	0.180328	0	.	.	none	.	WDR38	21	.	NM_001045476	exon6	c.C514T	p.H172Y	ACCGTACACATCT	.	PASS	Atlas-SNP
BTG1	694	hgsc.bcm.edu	37	12	92538171	92538171	+	Nonsense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	109.0	20.0	125.0	0.0	0.183486	0	.	.	none	BTG1,NS,lymphoid_neoplasm,0,1	BTG1	30	1	NM_001731	exon2	c.C201G	p.Y67X	ACAACGGTAACCC	.	PASS	Atlas-SNP
IL5RA	3568	hgsc.bcm.edu	37	3	3146610	3146610	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	178.0	44.0	186.0	0.0	0.247191	0	.	.	none	IL5RA,caecum,carcinoma,0,1	IL5RA	55	1	NM_001243099	exon3	c.C59T	p.A20V	AAGTCAGCTTGCA	.	PASS	Atlas-SNP
TYROBP	7305	hgsc.bcm.edu	37	19	36398454	36398454	+	Silent	SNP	G	G	C	rs111477177	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	68.0	39.0	76.0	0.0	0.573529	0	A|0.000;C|0.024;G|0.976	0.024	strong	TYROBP,NS,carcinoma,-2,1	TYROBP	15	1	NM_198125	exon3	c.C123G	p.G41G	CAGCACGCCCGGG	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195509078	195509078	+	Missense_Mutation	SNP	C	C	T	rs371017154		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	34.0	5.0	46.0	0.0	0.147059	0	.	.	weak	.	MUC4	1505	.	NM_018406	exon2	c.G9373A	p.D3125N	AAGTGTCGGTGAC	.	PASS	Atlas-SNP
LPIN1	23175	hgsc.bcm.edu	37	2	11943082	11943082	+	Missense_Mutation	SNP	C	C	T	rs4669781	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	44.0	17.0	63.0	0.0	0.386364	0	C|0.968;T|0.032	0.032	strong	LPIN1_ENST00000404113,NS,carcinoma,-2,3	LPIN1	99	3	NM_001261428	exon16	c.C2083T	p.P695S	GCCAAGCCATCAA	.	PASS	Atlas-SNP
MIA3	375056	hgsc.bcm.edu	37	1	222823669	222823669	+	Missense_Mutation	SNP	A	A	G	rs201134844	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	102.0	48.0	152.0	0.0	0.470588	0	A|0.999;G|0.001	0.001	weak	.	MIA3	167	.	NM_198551	exon9	c.A3667G	p.I1223V	AAGACTATCATGA	.	PASS	Atlas-SNP
ABCB9	23457	hgsc.bcm.edu	37	12	123444265	123444265	+	Missense_Mutation	SNP	G	G	A	rs114398803	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	26.0	10.0	35.0	0.0	0.384615	0	G|0.999;A|0.001	0.001	strong	.	ABCB9	50	.	NM_019625	exon2	c.C518T	p.T173M	TGCAGCGTGGCCC	.	PASS	Atlas-SNP
OR51B5	282763	hgsc.bcm.edu	37	11	5364640	5364640	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	67.0	52.0	63.0	0.0	0.776119	0	.	.	none	.	OR51B5	60	.	NM_001005567	exon5	c.G115A	p.G39S	CATTGCCAAAAAG	.	PASS	Atlas-SNP
RAB5B	5869	hgsc.bcm.edu	37	12	56383858	56383858	+	Silent	SNP	C	C	T	rs141101772	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	150.0	67.0	181.0	0.0	0.446667	0	C|0.999;T|0.001	0.001	strong	RAB5B,NS,lymphoid_neoplasm,+2,1	RAB5B	22	1	NM_002868	exon3	c.C291T	p.I97I	TGCAATCGTGGTT	.	PASS	Atlas-SNP
OR5K2	402135	hgsc.bcm.edu	37	3	98216586	98216586	+	Missense_Mutation	SNP	C	C	G	rs143260385	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	361.0	170.0	349.0	0.0	0.470914	0	C|0.994;G|0.006	0.006	strong	OR5K2,bladder,carcinoma,0,1	OR5K2	56	1	NM_001004737	exon1	c.C62G	p.P21R	ATCACCCTGAGCT	.	PASS	Atlas-SNP
MTX2	10651	hgsc.bcm.edu	37	2	177194090	177194090	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	222.0	111.0	219.0	0.0	0.5	0	.	.	none	.	MTX2	25	.	NM_006554	exon8	c.A479G	p.Q160R	CCTATCAAAAACA	.	PASS	Atlas-SNP
RBBP8NL	140893	hgsc.bcm.edu	37	20	60987921	60987921	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	81.0	31.0	110.0	0.0	0.382716	0	.	.	none	.	.	.	.	NM_080833	exon12	c.G1711A	p.D571N	GTTCGTCGGACTC	.	PASS	Atlas-SNP
HIST1H2AC	8334	hgsc.bcm.edu	37	6	26124805	26124805	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	128.0	40.0	134.0	0.0	0.3125	0	.	.	none	.	HIST1H2AC	29	.	NM_003512	exon1	c.G345A	p.V115V	GGCCGTGCTTCTG	.	PASS	Atlas-SNP
SLC41A3	54946	hgsc.bcm.edu	37	3	125726062	125726062	+	Missense_Mutation	SNP	T	T	C	rs79696429	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	70.0	27.0	85.0	0.0	0.385714	0	T|0.980;C|0.020	0.020	strong	.	SLC41A3	80	.	NM_017836	exon11	c.A1261G	p.I421V	GCAGGATTGTCAC	.	PASS	Atlas-SNP
ZFP42	132625	hgsc.bcm.edu	37	4	188924230	188924230	+	Missense_Mutation	SNP	C	C	T	rs149675060	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	89.0	44.0	64.0	0.0	0.494382	0	C|0.999;T|0.001	0.001	strong	.	ZFP42	87	.	NM_174900	exon4	c.C269T	p.S90L	AGGACTCACTTTT	.	PASS	Atlas-SNP
ZNF474	133923	hgsc.bcm.edu	37	5	121487969	121487969	+	Missense_Mutation	SNP	G	G	A	rs72786994	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	91.0	43.0	104.0	0.0	0.472527	0	G|0.988;A|0.012	0.012	strong	.	ZNF474	43	.	NM_207317	exon2	c.G284A	p.R95Q	GATTCCGGGTATG	.	PASS	Atlas-SNP
NUDT12	83594	hgsc.bcm.edu	37	5	102895169	102895169	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	74.0	18.0	122.0	0.0	0.243243	0	.	.	none	.	NUDT12	27	.	NM_031438	exon3	c.G207A	p.G69G	GTCACACCTATAG	.	PASS	Atlas-SNP
ZBP1	81030	hgsc.bcm.edu	37	20	56189956	56189956	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	135.0	28.0	187.0	0.0	0.207407	0	.	.	none	ZBP1,NS,carcinoma,0,1	ZBP1	65	1	NM_001160419	exon4	c.G489A	p.T163T	GTAAATCGTCCAT	.	PASS	Atlas-SNP
AP5Z1	9907	hgsc.bcm.edu	37	7	4821352	4821352	+	Missense_Mutation	SNP	G	G	C	rs11549840	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	124.0	27.0	116.0	0.0	0.217742	0	G|0.986;C|0.014	0.014	strong	.	.	.	.	NM_014855	exon3	c.G333C	p.Q111H	CCGGCAGCTGAGC	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092920	1092920	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	72.0	4.0	46.0	0.0	0.0555556	0	.	.	none	.	MUC2	614	.	NM_002457	exon30	c.C4739A	p.T1580N	CACAGACCCCAAC	.	PASS	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	37	12	57587437	57587437	+	Silent	SNP	T	T	C	rs34456957	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	64.0	29.0	71.0	0.0	0.453125	0	T|0.996;C|0.004	0.004	strong	.	LRP1	428	.	NM_002332	exon47	c.T7773C	p.C2591C	CGACTGTGGGGAT	.	PASS	Atlas-SNP
NAPB	63908	hgsc.bcm.edu	37	20	23377815	23377815	+	Silent	SNP	G	G	A	rs17750862	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	62.0	24.0	84.0	0.0	0.387097	0	G|0.966;A|0.034	0.034	strong	.	NAPB	22	.	NM_022080	exon3	c.C189T	p.N63N	AAATGCGTTTCCT	.	PASS	Atlas-SNP
CATSPERB	79820	hgsc.bcm.edu	37	14	92102819	92102819	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	180.0	39.0	212.0	0.0	0.216667	0	.	.	none	.	CATSPERB	114	.	NM_024764	exon17	c.C1692T	p.I564I	GCTGTAGATCGTT	.	PASS	Atlas-SNP
LACTB	114294	hgsc.bcm.edu	37	15	63419223	63419223	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	155.0	28.0	138.0	0.0	0.180645	0	.	.	none	.	LACTB	29	.	NM_171846	exon3	c.C590T	p.P197L	AATTCCCAGAAAA	.	PASS	Atlas-SNP
PDGFRB	5159	hgsc.bcm.edu	37	5	149509446	149509446	+	Missense_Mutation	SNP	C	C	T	rs41287110	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	123.0	62.0	175.0	0.0	0.504065	0	C|0.980;T|0.020	0.020	strong	.	PDGFRB	142	.	NM_002609	exon10	c.G1453A	p.E485K	GCTCCTCCTCCCA	.	PASS	Atlas-SNP
AGL	178	hgsc.bcm.edu	37	1	100340286	100340286	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	75.0	4.0	78.0	0.0	0.0533333	0	.	.	none	.	AGL	137	.	NM_000644	exon8	c.G1002A	p.T334T	CCTTACGATTATT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195512480	195512480	+	Missense_Mutation	SNP	A	A	G	rs200533337	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	129.0	31.0	73.0	0.0	0.24031	0	A|0.973;G|0.027	0.027	strong	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.T5971C	p.S1991P	CTGAGGAAGCGTC	.	PASS	Atlas-SNP
AOC2	314	hgsc.bcm.edu	37	17	40997461	40997461	+	Missense_Mutation	SNP	G	G	A	rs35508987	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	116.0	60.0	141.0	0.0	0.517241	0	G|0.993;A|0.007	0.007	strong	.	AOC2	61	.	NM_009590	exon1	c.G818A	p.R273Q	TGGAACGGGAGTT	.	PASS	Atlas-SNP
CCDC180	0	hgsc.bcm.edu	37	9	100122384	100122384	+	Splice_Site	SNP	G	G	A	rs376419121		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	67.0	17.0	92.0	0.0	0.253731	0	.	.	weak	KIAA1529,mouth,carcinoma,0,1	.	.	1	NM_020893	exon26	c.3615+1G>A	.	TTTACCGTAAGGA	.	PASS	Atlas-SNP
OXGR1	27199	hgsc.bcm.edu	37	13	97639021	97639021	+	Silent	SNP	A	A	G	rs9584456	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	34.0	13.0	53.0	0.0	0.382353	0	A|0.933;G|0.067	0.067	strong	.	OXGR1	46	.	NM_080818	exon4	c.T993C	p.I331I	GTAACTAATTTTC	.	PASS	Atlas-SNP
CHD6	84181	hgsc.bcm.edu	37	20	40049579	40049579	+	Missense_Mutation	SNP	T	T	A	rs55864139	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	252.0	125.0	281.0	0.0	0.496032	0	T|0.991;A|0.009	0.009	strong	.	CHD6	312	.	NM_032221	exon31	c.A5696T	p.N1899I	GAGATGTTAGTAG	.	PASS	Atlas-SNP
KCNN1	3780	hgsc.bcm.edu	37	19	18096220	18096220	+	Silent	SNP	C	C	T	rs76273600	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	187.0	104.0	143.0	0.0	0.55615	0	C|0.998;T|0.002	0.002	weak	.	KCNN1	74	.	NM_002248	exon6	c.C1017T	p.H339H	GCCCCACACCTAC	.	PASS	Atlas-SNP
USP43	124739	hgsc.bcm.edu	37	17	9604775	9604775	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	44.0	7.0	76.0	0.0	0.159091	0	.	.	none	.	USP43	65	.	NM_001267576	exon12	c.A1769G	p.K590R	ACCTCAAAAGGTT	.	PASS	Atlas-SNP
FNIP2	57600	hgsc.bcm.edu	37	4	159780274	159780274	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	339.0	77.0	345.0	0.0	0.227139	0	.	.	none	.	FNIP2	90	.	NM_020840	exon9	c.G923A	p.R308K	TTAGGAGGAAGAA	.	PASS	Atlas-SNP
KLB	152831	hgsc.bcm.edu	37	4	39436192	39436192	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	43.0	12.0	81.0	0.0	0.27907	0	.	.	none	.	KLB	95	.	NM_175737	exon2	c.A1188C	p.L396F	TAATTTAAGAGAA	.	PASS	Atlas-SNP
TBATA	219793	hgsc.bcm.edu	37	10	72534090	72534090	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	77.0	16.0	84.0	0.0	0.207792	0	.	.	none	.	.	.	.	NM_152710	exon9	c.C796A	p.L266M	TCTGCAGGAGTCC	.	PASS	Atlas-SNP
ATG4C	84938	hgsc.bcm.edu	37	1	63284834	63284834	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	114.0	26.0	162.0	0.0	0.22807	0	.	.	none	.	ATG4C	96	.	NM_178221	exon5	c.T553A	p.Y185N	GGGAAATATTCTG	.	PASS	Atlas-SNP
GOLGA4	2803	hgsc.bcm.edu	37	3	37368710	37368710	+	Missense_Mutation	SNP	T	T	A	rs144205536	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	106.0	52.0	150.0	0.0	0.490566	0	T|0.999;A|0.001	0.001	strong	.	GOLGA4	173	.	NM_001172713	exon15	c.T5399A	p.I1800K	GCTTAATAAAGCT	.	PASS	Atlas-SNP
PPP1R12A	4659	hgsc.bcm.edu	37	12	80199958	80199958	+	Missense_Mutation	SNP	C	C	G	rs61756418	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	118.0	51.0	91.0	0.0	0.432203	0	C|0.996;G|0.004	0.004	strong	.	PPP1R12A	76	.	NM_002480	exon13	c.G1811C	p.G604A	TGTGTGCCTGCTG	.	PASS	Atlas-SNP
SCRIB	23513	hgsc.bcm.edu	37	8	144875168	144875168	+	Missense_Mutation	SNP	G	G	A	rs202137464	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	110.0	83.0	100.0	0.0	0.754545	0	G|0.998;A|0.002	0.002	strong	.	SCRIB	192	.	NM_015356	exon29	c.C3995T	p.P1332L	TCAGGCGGGTGAG	.	PASS	Atlas-SNP
ZFP36L1	677	hgsc.bcm.edu	37	14	69256848	69256848	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	155.0	27.0	158.0	0.0	0.174194	0	.	.	none	.	ZFP36L1	47	.	NM_001244701	exon3	c.G626T	p.G209V	TGGATGCCGTGTG	.	PASS	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	37	17	76490894	76490894	+	Silent	SNP	G	G	A	rs372912923		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	85.0	42.0	73.0	0.0	0.494118	0	.	.	weak	.	DNAH17	347	.	NM_173628	exon40	c.C6051T	p.Y2017Y	CCAGTCGTAATGA	.	PASS	Atlas-SNP
ITSN1	6453	hgsc.bcm.edu	37	21	35147359	35147359	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	198.0	106.0	214.0	0.0	0.535354	0	.	.	none	.	ITSN1	166	.	NM_001001132	exon14	c.A1543C	p.K515Q	ACAAACAAATCTA	.	PASS	Atlas-SNP
FAM160A2	84067	hgsc.bcm.edu	37	11	6245256	6245256	+	Missense_Mutation	SNP	C	C	T	rs200289464	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	97.0	17.0	77.0	0.0	0.175258	0	C|0.999;T|0.001	0.001	weak	.	FAM160A2	100	.	NM_032127	exon3	c.G361A	p.D121N	CCCCATCCCCAAG	.	PASS	Atlas-SNP
RNF213	57674	hgsc.bcm.edu	37	17	78237572	78237572	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	90.0	4.0	98.0	0.0	0.0444444	0	.	.	none	.	RNF213	766	.	NM_001256071	exon2	c.T92C	p.I31T	CCCCCATAGCAGG	.	PASS	Atlas-SNP
MYBL2	4605	hgsc.bcm.edu	37	20	42338621	42338621	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	63.0	25.0	85.0	0.0	0.396825	0	.	.	none	.	MYBL2	82	.	NM_002466	exon10	c.G1524C	p.Q508H	AGATCAGAAGTAC	.	PASS	Atlas-SNP
UFC1	51506	hgsc.bcm.edu	37	1	161123901	161123901	+	Silent	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	96.0	11.0	123.0	0.0	0.114583	0	.	.	none	.	UFC1	16	.	NM_016406	exon1	c.C114G	p.S38S	TCAGTCCCTTATC	.	PASS	Atlas-SNP
ARSF	416	hgsc.bcm.edu	37	X	3021870	3021870	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	152.0	152.0	248.0	0.0	1	0	.	.	none	.	ARSF	97	.	NM_004042	exon9	c.G1170T	p.K390N	TGGAAAGGTACCA	.	PASS	Atlas-SNP
C2orf16	84226	hgsc.bcm.edu	37	2	27804547	27804547	+	Missense_Mutation	SNP	G	G	A	rs201164610		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	72.0	24.0	65.0	0.0	0.333333	0	G|0.999;A|0.001	0.001	weak	.	C2orf16	357	.	NM_032266	exon1	c.G5108A	p.R1703H	GCCATCGTGGTCC	.	PASS	Atlas-SNP
ZNF189	7743	hgsc.bcm.edu	37	9	104170796	104170796	+	Missense_Mutation	SNP	A	A	T	rs370077009		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	46.0	27.0	65.0	0.0	0.586957	0	.	.	weak	.	ZNF189	79	.	NM_003452	exon3	c.A746T	p.K249I	TTGTTAAACATCA	.	PASS	Atlas-SNP
ZMIZ1	57178	hgsc.bcm.edu	37	10	81053248	81053248	+	Silent	SNP	G	G	A	rs146995829	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	32.0	13.0	29.0	0.0	0.40625	0	G|0.995;A|0.005	0.005	strong	ZMIZ1,NS,carcinoma,+1,1	ZMIZ1	101	1	NM_020338	exon12	c.G1068A	p.T356T	CATGACGCCCTCG	.	PASS	Atlas-SNP
REV3L	5980	hgsc.bcm.edu	37	6	111631254	111631254	+	Silent	SNP	T	T	C	rs150392515		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	31.0	15.0	40.0	0.0	0.483871	0	T|1.000;C|0.000	0.000	weak	REV3L,NS,carcinoma,-2,1	REV3L	386	1	NM_002912	exon30	c.A8844G	p.R2948R	TGGCACTCGCTCC	.	PASS	Atlas-SNP
UNC45A	55898	hgsc.bcm.edu	37	15	91496233	91496233	+	Missense_Mutation	SNP	G	G	A	rs149872991	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	74.0	48.0	73.0	0.0	0.648649	0	G|1.000;A|0.000	0.000	strong	.	UNC45A	57	.	NM_018671	exon18	c.G2378A	p.R793Q	TCCGCCGGGCAGC	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29910551	29910551	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	33.0	15.0	25.0	0.0	0.454545	0	.	.	none	.	HLA-A	89	.	NM_001242758	exon2	c.T91G	p.Y31D	ATGAGGTATTTCT	.	PASS	Atlas-SNP
SLC25A13	10165	hgsc.bcm.edu	37	7	95761057	95761057	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	104.0	49.0	123.0	0.0	0.471154	0	.	.	none	.	SLC25A13	131	.	NM_001160210	exon15	c.C1592T	p.A531V	TCACCAGCTATGG	.	PASS	Atlas-SNP
SLC29A4	222962	hgsc.bcm.edu	37	7	5339049	5339049	+	Silent	SNP	C	C	T	rs142638970	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	124.0	99.0	138.0	0.0	0.798387	0	C|0.997;T|0.003	0.003	strong	.	SLC29A4	52	.	NM_153247	exon9	c.C1200T	p.F400F	AGACTTCGTGGGC	.	PASS	Atlas-SNP
NEK3	4752	hgsc.bcm.edu	37	13	52710320	52710320	+	Missense_Mutation	SNP	T	T	C	rs371075629		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	230.0	97.0	232.0	0.0	0.421739	0	.	.	weak	.	NEK3	41	.	NM_002498	exon13	c.A1106G	p.N369S	GCTGTATTGGGTA	.	PASS	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	37	1	19447882	19447882	+	Silent	SNP	G	G	A	rs34710232	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	329.0	175.0	360.0	1.0	0.531915	0.00277778	G|0.996;A|0.004	0.004	strong	UBR4,right_upper_lobe,carcinoma,-1,1	UBR4	415	1	NM_020765	exon68	c.C9942T	p.G3314G	GGACACGCCCTCA	.	PASS	Atlas-SNP
ENG	2022	hgsc.bcm.edu	37	9	130586661	130586661	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	116.0	56.0	154.0	1.0	0.482759	0.00649351	.	.	none	ENG,NS,carcinoma,0,1	ENG	44	1	NM_001114753	exon8	c.G1056A	p.P352P	CAGCTCCGGGCTA	.	scavenged	Atlas-SNP
C15orf55	256646	hgsc.bcm.edu	37	15	34649336	34649336	+	Missense_Mutation	SNP	G	G	A	rs149177074	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	52.0	27.0	55.0	0.0	0.519231	0	G|0.998;A|0.002	0.002	strong	C15orf55_ENST00000333756,NS,lymphoid_neoplasm,0,1	C15orf55	110	1	NM_175741	exon7	c.G3043A	p.E1015K	GAGGATGAGGAAC	.	PASS	Atlas-SNP
GABRG3	2567	hgsc.bcm.edu	37	15	27765249	27765249	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	99.0	4.0	102.0	0.0	0.040404	0	.	.	none	.	GABRG3	115	.	NM_033223	exon7	c.A844G	p.T282A	GATGCTACGCCAG	.	PASS	Atlas-SNP
BSN	8927	hgsc.bcm.edu	37	3	49693972	49693972	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	45.0	18.0	62.0	0.0	0.4	0	.	.	none	.	BSN	272	.	NM_003458	exon5	c.C6983T	p.P2328L	CAGCTCCTGCCCC	.	PASS	Atlas-SNP
PRR21	643905	hgsc.bcm.edu	37	2	240982379	240982379	+	Silent	SNP	T	T	C	rs138056768	by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	18.0	9.0	33.0	0.0	0.5	0	T|0.989;C|0.011	0.011	strong	.	PRR21	53	.	NM_001080835	exon1	c.A21G	p.T7T	AAGAGCTGTGGAT	.	PASS	Atlas-SNP
SULT1A1	6817	hgsc.bcm.edu	37	16	28617472	28617472	+	Missense_Mutation	SNP	G	G	A	rs150459557	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	456.0	114.0	277.0	2.0	0.25	0.00722022	G|0.998;A|0.002	0.002	strong	SULT1A1,NS,carcinoma,0,1	SULT1A1	53	1	NM_177534	exon6	c.C680T	p.T227M	AACGACGTGTGCT	.	scavenged	Atlas-SNP
CST4	1472	hgsc.bcm.edu	37	20	23667738	23667738	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	194.0	37.0	242.0	0.0	0.190722	0	.	.	none	.	CST4	37	.	NM_001899	exon2	c.C329G	p.P110R	AGTTCTGGCTGTT	.	PASS	Atlas-SNP
SLC5A9	200010	hgsc.bcm.edu	37	1	48705066	48705066	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	194.0	87.0	230.0	1.0	0.448454	0.00434783	.	.	none	.	SLC5A9	82	.	NM_001135181	exon13	c.G1609A	p.A537T	TACCCAGCGCCAG	.	PASS	Atlas-SNP
CD200R1	131450	hgsc.bcm.edu	37	3	112648107	112648107	+	Silent	SNP	G	G	A	rs373257099	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	244.0	108.0	302.0	0.0	0.442623	0	.	.	weak	CD200R1_ENST00000440122,NS,carcinoma,0,2	CD200R1	91	2	NM_138806	exon4	c.C450T	p.D150D	ATACCCGTCATGA	.	PASS	Atlas-SNP
TRIP6	7205	hgsc.bcm.edu	37	7	100465824	100465824	+	Missense_Mutation	SNP	G	G	A	rs2437100	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	50.0	22.0	55.0	0.0	0.44	0	G|0.985;A|0.015	0.015	strong	.	TRIP6	45	.	NM_003302	exon3	c.G332A	p.R111Q	GGGGTCGGGGTCA	.	PASS	Atlas-SNP
HNRNPA1L2	144983	hgsc.bcm.edu	37	13	53216666	53216666	+	Silent	SNP	G	G	A	rs113869751	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	54.0	26.0	63.0	0.0	0.481481	0	G|0.980;A|0.020	0.020	strong	.	HNRNPA1L2	20	.	NM_001011724	exon7	c.G39A	p.L13L	ACAGCTGAGGAAG	.	PASS	Atlas-SNP
TMPRSS11F	389208	hgsc.bcm.edu	37	4	68930465	68930465	+	Missense_Mutation	SNP	G	G	A	rs143544573	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	87.0	51.0	102.0	0.0	0.586207	0	G|0.994;A|0.006	0.006	strong	TMPRSS11F,NS,carcinoma,0,1	TMPRSS11F	79	1	NM_207407	exon8	c.C953T	p.S318F	TTTATAGATGAGT	.	PASS	Atlas-SNP
DGKH	160851	hgsc.bcm.edu	37	13	42729463	42729463	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	206.0	42.0	205.0	0.0	0.203883	0	.	.	none	.	DGKH	106	.	NM_001204504	exon5	c.G421A	p.E141K	TGTGCTGAGAACA	.	PASS	Atlas-SNP
FBXO40	51725	hgsc.bcm.edu	37	3	121341019	121341019	+	Missense_Mutation	SNP	A	A	T	rs142436040	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	47.0	28.0	61.0	0.0	0.595745	0	A|0.997;T|0.003	0.003	strong	.	FBXO40	108	.	NM_016298	exon3	c.A743T	p.K248I	CCGAGAAAGAACA	.	PASS	Atlas-SNP
ZNF804A	91752	hgsc.bcm.edu	37	2	185800768	185800768	+	Silent	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	20.0	106.0	0.0	0.28169	0	.	.	none	ZNF804A,colon,carcinoma,0,1	ZNF804A	322	1	NM_194250	exon4	c.T645C	p.S215S	CTTTTCTTTTGCA	.	PASS	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	37	6	33658780	33658780	+	Silent	SNP	C	C	T	rs35506178	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	162.0	81.0	172.0	0.0	0.5	0	C|0.966;T|0.034	0.034	strong	.	ITPR3	409	.	NM_002224	exon52	c.C7119T	p.A2373A	GACAGCCCTGCTG	.	PASS	Atlas-SNP
HIST1H1E	3008	hgsc.bcm.edu	37	6	26157219	26157219	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	10.0	98.0	0.0	0.140845	0	.	.	none	.	HIST1H1E	69	.	NM_005321	exon1	c.C601T	p.P201S	GCTAAACCAAAGA	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230407	23230407	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	110.0	22.0	122.0	0.0	0.2	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.C174G	p.S58R	TGGAAGCAGCCGA	.	PASS	Atlas-SNP
C5	727	hgsc.bcm.edu	37	9	123776220	123776220	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	131.0	42.0	153.0	0.0	0.320611	0	.	.	none	.	C5	124	.	NM_001735	exon17	c.G2188A	p.E730K	AACATTCAGTGAA	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230317	23230317	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	158.0	33.0	153.0	0.0	0.208861	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.G84A	p.L28L	GCTGCTGCTGGGT	.	PASS	Atlas-SNP
JARID2	3720	hgsc.bcm.edu	37	6	15512616	15512616	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	44.0	13.0	59.0	0.0	0.295455	0	.	.	none	.	JARID2	135	.	NM_004973	exon14	c.G3130A	p.A1044T	GAGACCGCCAAGG	.	PASS	Atlas-SNP
INTS3	65123	hgsc.bcm.edu	37	1	153701188	153701188	+	Silent	SNP	G	G	A	rs150819290	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	137.0	70.0	151.0	0.0	0.510949	0	G|0.994;A|0.006	0.006	strong	.	INTS3	83	.	NM_023015	exon1	c.G78A	p.A26A	AGGAGCGGGAGCA	.	PASS	Atlas-SNP
DHX9	1660	hgsc.bcm.edu	37	1	182850520	182850520	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	117.0	62.0	134.0	0.0	0.529915	0	.	.	none	.	DHX9	114	.	NM_001357	exon23	c.G2746A	p.V916I	GATCACGTAGCCC	.	PASS	Atlas-SNP
SLC8A1	6546	hgsc.bcm.edu	37	2	40656756	40656756	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	100.0	15.0	54.0	0.0	0.15	0	.	.	none	.	SLC8A1	221	.	NM_001252624	exon1	c.T665A	p.L222X	ACAGACAAAATAA	.	PASS	Atlas-SNP
RAPGEF1	2889	hgsc.bcm.edu	37	9	134503415	134503415	+	Silent	SNP	C	C	T	rs371503343		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	45.0	23.0	46.0	0.0	0.511111	0	.	.	weak	.	RAPGEF1	126	.	NM_198679	exon9	c.G1089A	p.S363S	GCGGGGCGACTCT	.	PASS	Atlas-SNP
VPS18	57617	hgsc.bcm.edu	37	15	41191184	41191184	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	46.0	24.0	70.0	0.0	0.521739	0	.	.	none	.	VPS18	67	.	NM_020857	exon3	c.C313T	p.L105F	ATGTTCCTTGACC	.	PASS	Atlas-SNP
MACF1	23499	hgsc.bcm.edu	37	1	39816626	39816626	+	Missense_Mutation	SNP	C	C	A	rs116162513	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	57.0	14.0	80.0	0.0	0.245614	0	C|0.999;T|0.001	.	alt	.	MACF1	909	.	NM_012090	exon39	c.C4949A	p.T1650K	AAGAGACACGTGT	.	PASS	Atlas-SNP
C7	730	hgsc.bcm.edu	37	5	40934471	40934471	+	Silent	SNP	G	G	A	rs34196526	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	268.0	162.0	266.0	0.0	0.604478	0	G|0.992;A|0.008	0.008	strong	.	C7	136	.	NM_000587	exon4	c.G183A	p.Q61Q	AGGCCAGCCTTGT	.	PASS	Atlas-SNP
PDE4A	5141	hgsc.bcm.edu	37	19	10572271	10572271	+	Missense_Mutation	SNP	A	A	G	rs141379029	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	105.0	52.0	154.0	0.0	0.495238	0	A|1.000;G|0.000	0.000	strong	.	PDE4A	236	.	NM_001111307	exon12	c.A1535G	p.K512R	GCTTCAAGCTGCT	.	PASS	Atlas-SNP
NOTCH1	4851	hgsc.bcm.edu	37	9	139391636	139391636	+	Silent	SNP	G	G	A	rs2229974	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	125.0	56.0	121.0	0.0	0.448	0	G|0.341;A|0.659	0.659	strong	.	NOTCH1	1980	.	NM_017617	exon34	c.C6555T	p.D2185D	CTTGCCGTCCTGG	.	PASS	Atlas-SNP
ULBP3	79465	hgsc.bcm.edu	37	6	150386752	150386752	+	Missense_Mutation	SNP	C	C	T	rs34547018	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	69.0	19.0	105.0	0.0	0.275362	0	C|0.997;T|0.003	0.003	strong	.	ULBP3	22	.	NM_024518	exon3	c.G410A	p.R137H	GATCCACGGATGT	.	PASS	Atlas-SNP
RAD51AP2	729475	hgsc.bcm.edu	37	2	17697635	17697635	+	Missense_Mutation	SNP	T	T	C	rs181531922	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	84.0	50.0	113.0	0.0	0.595238	0	T|0.994;C|0.006	0.006	strong	.	RAD51AP2	134	.	NM_001099218	exon1	c.A2048G	p.E683G	TATGTTTCAAAAA	.	PASS	Atlas-SNP
ZNF91	7644	hgsc.bcm.edu	37	19	23542626	23542626	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	25.0	12.0	34.0	0.0	0.48	0	.	.	none	.	ZNF91	349	.	NM_003430	exon4	c.G3155A	p.C1052Y	TCTTCACACTTGT	.	PASS	Atlas-SNP
C6	729	hgsc.bcm.edu	37	5	41155088	41155088	+	Missense_Mutation	SNP	T	T	C	rs41271067	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	107.0	38.0	95.0	0.0	0.35514	0	T|0.992;C|0.008	0.008	strong	.	C6	197	.	NM_001115131	exon14	c.A2087G	p.D696G	TCCACATCCCCTT	.	PASS	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	37	8	10469292	10469292	+	Silent	SNP	C	C	T	rs62490857	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	97.0	74.0	81.0	0.0	0.762887	0	C|0.945;T|0.055	0.055	strong	.	RP1L1	453	.	NM_178857	exon4	c.G2316A	p.S772S	GGCCGGCGAGCAT	.	PASS	Atlas-SNP
NCAN	1463	hgsc.bcm.edu	37	19	19335135	19335135	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	88.0	20.0	111.0	0.0	0.227273	0	.	.	none	.	NCAN	277	.	NM_004386	exon5	c.G671A	p.R224H	AGTCCCGTCCTGG	.	PASS	Atlas-SNP
TBX5	6910	hgsc.bcm.edu	37	12	114793414	114793414	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	87.0	42.0	90.0	0.0	0.482759	0	.	.	none	.	TBX5	188	.	NM_000192	exon9	c.C1480T	p.P494S	TCCTTGGCACGCC	.	PASS	Atlas-SNP
KDR	3791	hgsc.bcm.edu	37	4	55972974	55972974	+	Missense_Mutation	SNP	T	T	A	rs1870377	bycluster;byfrequency;bysubmitter;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	139.0	66.0	164.0	0.0	0.47482	0	T|0.781;A|0.219	0.219	strong	KDR,NS,carcinoma,0,1	KDR	307	1	NM_002253	exon11	c.A1416T	p.Q472H	GACAGCTTGGCTA	.	PASS	Atlas-SNP
MYO9B	4650	hgsc.bcm.edu	37	19	17306074	17306074	+	Missense_Mutation	SNP	G	G	A	rs112900956	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	57.0	29.0	38.0	0.0	0.508772	0	G|0.994;A|0.006	0.006	strong	MYO9B_ENST00000319396,adrenal_gland,adrenal_cortical_adenoma,0,2	MYO9B	264	2	NM_001130065	exon22	c.G3838A	p.G1280S	CCATGTGGCAGCC	.	PASS	Atlas-SNP
ATP2B4	493	hgsc.bcm.edu	37	1	203669371	203669371	+	Silent	SNP	G	G	A	rs2228446	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	97.0	49.0	108.0	0.0	0.505155	0	G|0.987;A|0.013	0.013	strong	.	ATP2B4	226	.	NM_001001396	exon5	c.G687A	p.G229G	CCAAGGGAATGAT	.	PASS	Atlas-SNP
CD22	933	hgsc.bcm.edu	37	19	35831986	35831986	+	Silent	SNP	C	C	T	rs25677	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	126.0	64.0	138.0	0.0	0.507937	0	A|0.015;C|0.932;T|0.053	0.053	strong	.	CD22	129	.	NM_001185100	exon7	c.C1452T	p.C484C	CGCCTGCGCAGCT	.	PASS	Atlas-SNP
OR2AG2	338755	hgsc.bcm.edu	37	11	6789492	6789492	+	Missense_Mutation	SNP	C	C	T	rs143018775	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	179.0	145.0	199.0	0.0	0.810056	0	C|0.999;T|0.001	0.001	strong	.	OR2AG2	55	.	NM_001004490	exon1	c.G697A	p.G233R	TCCTCCCCTCATT	.	PASS	Atlas-SNP
CCDC64B	146439	hgsc.bcm.edu	37	16	3085326	3085326	+	Missense_Mutation	SNP	C	C	T	rs71386699	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	132.0	17.0	132.0	0.0	0.128788	0	C|0.985;T|0.015	0.015	strong	.	CCDC64B	19	.	NM_001103175	exon1	c.G172A	p.E58K	CTTTCTCCTTCTG	.	PASS	Atlas-SNP
PDCD11	22984	hgsc.bcm.edu	37	10	105205260	105205260	+	Missense_Mutation	SNP	A	A	G	rs151054853	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	134.0	78.0	177.0	0.0	0.58209	0	A|0.998;G|0.002	0.002	strong	.	PDCD11	160	.	NM_014976	exon36	c.A5570G	p.K1857R	AGGCCAAGGCCCT	.	PASS	Atlas-SNP
TET1	80312	hgsc.bcm.edu	37	10	70332312	70332312	+	Missense_Mutation	SNP	C	C	T	rs138684329	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	97.0	43.0	100.0	0.0	0.443299	0	C|1.000;T|0.000	0.000	strong	.	TET1	255	.	NM_030625	exon2	c.C217T	p.L73F	AGAAGCCTTCTGA	.	PASS	Atlas-SNP
ABHD4	63874	hgsc.bcm.edu	37	14	23072905	23072905	+	Silent	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	183.0	91.0	198.0	0.0	0.497268	0	.	.	none	.	ABHD4	30	.	NM_022060	exon4	c.C561G	p.P187P	TGCACCCCCAGCC	.	PASS	Atlas-SNP
GMIP	51291	hgsc.bcm.edu	37	19	19745962	19745962	+	Missense_Mutation	SNP	G	G	A	rs372547969		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	94.0	6.0	122.0	0.0	0.0638298	0	.	.	weak	.	GMIP	55	.	NM_016573	exon16	c.C1621T	p.R541W	GGAGCCGCCTGTG	.	PASS	Atlas-SNP
PDE11A	50940	hgsc.bcm.edu	37	2	178528641	178528641	+	Missense_Mutation	SNP	G	G	C	rs61306957	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	70.0	34.0	111.0	0.0	0.485714	0	G|0.975;C|0.025	0.025	strong	.	PDE11A	283	.	NM_016953	exon19	c.C2599G	p.R867G	GCAACCGAGGCAG	.	PASS	Atlas-SNP
BCS1L	617	hgsc.bcm.edu	37	2	219527857	219527857	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	146.0	39.0	184.0	0.0	0.267123	0	.	.	none	.	BCS1L	22	.	NM_001257343	exon9	c.G1008A	p.R336R	TCTCAGGCTGGAC	.	PASS	Atlas-SNP
BTG2	7832	hgsc.bcm.edu	37	1	203274826	203274826	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	165.0	44.0	132.0	0.0	0.266667	0	.	.	none	.	BTG2	16	.	NM_006763	exon1	c.G92A	p.S31N	GCGTGAGCGAGCA	.	PASS	Atlas-SNP
CEACAM19	56971	hgsc.bcm.edu	37	19	45176003	45176003	+	Missense_Mutation	SNP	A	A	G	rs201929208		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	151.0	76.0	124.0	0.0	0.503311	0	.	.	weak	.	CEACAM19	27	.	NM_001127893	exon2	c.A191G	p.N64S	ACTTCAACTGGTA	.	PASS	Atlas-SNP
DCLK2	166614	hgsc.bcm.edu	37	4	151141918	151141918	+	Missense_Mutation	SNP	A	A	C	rs148315360	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	134.0	71.0	215.0	0.0	0.529851	0	A|0.998;C|0.002	0.002	strong	.	DCLK2	168	.	NM_001040261	exon7	c.A1171C	p.I391L	CGTTGCATAAGTC	.	PASS	Atlas-SNP
ULK1	8408	hgsc.bcm.edu	37	12	132401058	132401058	+	Missense_Mutation	SNP	C	C	T	rs55815560	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	61.0	30.0	60.0	0.0	0.491803	0	C|0.998;T|0.002	0.002	strong	.	ULK1	92	.	NM_003565	exon20	c.C1994T	p.S665L	ACCTCTCGGAGGT	.	PASS	Atlas-SNP
ANKRD30A	91074	hgsc.bcm.edu	37	10	37486235	37486235	+	Missense_Mutation	SNP	G	G	A	rs201775035	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	292.0	18.0	328.0	1.0	0.0616438	0.00304878	.	.	weak	ANKRD30A,NS,carcinoma,0,1	ANKRD30A	448	1	NM_052997	exon28	c.G2473A	p.E825K	GCCTTCGAGGTAT	.	scavenged	Atlas-SNP
PCCB	5096	hgsc.bcm.edu	37	3	136012637	136012637	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	58.0	17.0	83.0	0.0	0.293103	0	.	.	none	.	PCCB	52	.	NM_001178014	exon8	c.A754T	p.K252X	GTTGTGAAGTCTG	.	PASS	Atlas-SNP
TMC6	11322	hgsc.bcm.edu	37	17	76117136	76117136	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	129.0	71.0	117.0	0.0	0.550388	0	.	.	none	.	TMC6	42	.	NM_001127198	exon12	c.C1493T	p.P498L	TCATGCGGCTCCA	.	PASS	Atlas-SNP
NFATC4	4776	hgsc.bcm.edu	37	14	24838953	24838953	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	70.0	4.0	65.0	0.0	0.0571429	0	.	.	none	.	NFATC4	115	.	NM_001198967	exon3	c.C538T	p.R180C	AGCATCCGCATCA	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9013905	9013905	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	83.0	18.0	103.0	0.0	0.216867	0	.	.	none	.	MUC16	4315	.	NM_024690	exon33	c.G38485C	p.G12829R	AGGTCCCAGGAGC	.	PASS	Atlas-SNP
KANK2	25959	hgsc.bcm.edu	37	19	11303618	11303618	+	Missense_Mutation	SNP	G	G	A	rs144821191	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	131.0	65.0	165.0	0.0	0.496183	0	G|0.999;A|0.001	0.001	strong	.	KANK2	47	.	NM_015493	exon2	c.C1138T	p.R380C	GGCTGCGGAACAC	.	PASS	Atlas-SNP
RFTN2	130132	hgsc.bcm.edu	37	2	198460748	198460748	+	Silent	SNP	T	T	G	rs77442629	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	65.0	30.0	83.0	0.0	0.461538	0	T|0.995;G|0.005	0.005	strong	.	RFTN2	68	.	NM_144629	exon8	c.A1200C	p.P400P	CATAACTGGCCTC	.	PASS	Atlas-SNP
ZNF416	55659	hgsc.bcm.edu	37	19	58084605	58084605	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	174.0	108.0	178.0	0.0	0.62069	0	.	.	none	.	ZNF416	50	.	NM_017879	exon4	c.G667C	p.E223Q	TGGACTCTCTCCT	.	PASS	Atlas-SNP
DNA2	1763	hgsc.bcm.edu	37	10	70191970	70191970	+	Silent	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	150.0	6.0	177.0	0.0	0.04	0	.	.	none	.	DNA2	76	.	NM_001080449	exon12	c.T1866C	p.I622I	CTTTAGAATGCAG	.	PASS	Atlas-SNP
IGSF8	93185	hgsc.bcm.edu	37	1	160064697	160064697	+	Missense_Mutation	SNP	C	C	T	rs200550632	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	86.0	54.0	69.0	0.0	0.627907	0	C|1.000;T|0.000	0.000	strong	.	IGSF8	59	.	NM_052868	exon2	c.G404A	p.R135H	AGGTAGCGGGTAT	.	PASS	Atlas-SNP
APLF	200558	hgsc.bcm.edu	37	2	68765205	68765205	+	Missense_Mutation	SNP	C	C	T	rs13404469	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	187.0	94.0	203.0	1.0	0.502674	0.00492611	C|0.910;T|0.090	0.090	strong	.	APLF	69	.	NM_173545	exon7	c.C1006T	p.L336F	GACTCACTTCAGG	.	PASS	Atlas-SNP
E2F1	1869	hgsc.bcm.edu	37	20	32266134	32266134	+	Missense_Mutation	SNP	C	C	T	rs35385772	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	98.0	45.0	115.0	0.0	0.459184	0	C|0.980;T|0.020	0.020	strong	.	E2F1	41	.	NM_005225	exon4	c.G598A	p.G200S	GTCCGCCGACGCC	.	PASS	Atlas-SNP
PPP1R21	129285	hgsc.bcm.edu	37	2	48687054	48687054	+	Silent	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	334.0	33.0	166.0	0.0	0.0988024	0	.	.	none	.	PPP1R21	47	.	NM_152994	exon5	c.A537C	p.L179L	TAAACTAGAAGTA	.	PASS	Atlas-SNP
FBN3	84467	hgsc.bcm.edu	37	19	8145928	8145928	+	Missense_Mutation	SNP	C	C	T	rs3848570	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	23.0	9.0	28.0	0.0	0.391304	0	C|0.971;T|0.029	0.029	strong	.	FBN3	300	.	NM_032447	exon58	c.G7412A	p.R2471H	GGACAGCGGCAGG	.	PASS	Atlas-SNP
TLN2	83660	hgsc.bcm.edu	37	15	63102153	63102153	+	Silent	SNP	C	C	T	rs150114385	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	201.0	123.0	180.0	0.0	0.61194	0	C|0.997;T|0.003	0.003	strong	.	TLN2	253	.	NM_015059	exon49	c.C6693T	p.D2231D	CAGTGACGAGGTG	.	PASS	Atlas-SNP
ZNF426	79088	hgsc.bcm.edu	37	19	9641722	9641722	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	111.0	27.0	113.0	0.0	0.243243	0	.	.	none	.	ZNF426	56	.	NM_024106	exon7	c.C347T	p.T116I	CACTGGGTTTCAA	.	PASS	Atlas-SNP
CHRNA9	55584	hgsc.bcm.edu	37	4	40339250	40339250	+	Silent	SNP	T	T	C	rs55998310	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	156.0	70.0	137.0	0.0	0.448718	0	T|0.993;C|0.007	0.007	strong	.	CHRNA9	53	.	NM_017581	exon3	c.T234C	p.T78T	TCTGACTGCTTAT	.	PASS	Atlas-SNP
CTDP1	9150	hgsc.bcm.edu	37	18	77455227	77455227	+	Missense_Mutation	SNP	C	C	T	rs115044443	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	119.0	40.0	193.0	0.0	0.336134	0	C|0.977;T|0.023	0.023	strong	.	CTDP1	67	.	NM_004715	exon2	c.C317T	p.A106V	GTAGAGCGGTTCT	.	PASS	Atlas-SNP
C19orf21	126353	hgsc.bcm.edu	37	19	757234	757234	+	Silent	SNP	C	C	T	rs34384654	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	63.0	31.0	111.0	0.0	0.492063	0	C|0.986;T|0.014	0.014	strong	C19orf21,NS,carcinoma,+2,1	C19orf21	56	1	NM_173481	exon2	c.C288T	p.R96R	TTACCGCCTGGGC	.	PASS	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	37	13	103390322	103390322	+	Missense_Mutation	SNP	T	T	C	rs112442443	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	245.0	124.0	301.0	1.0	0.506122	0.00332226	T|0.995;C|0.005	0.005	strong	.	.	.	.	NM_001146197	exon4	c.A12725G	p.E4242G	TGTTGCTCTTCAA	.	PASS	Atlas-SNP
F2R	2149	hgsc.bcm.edu	37	5	76028669	76028669	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	250.0	49.0	249.0	0.0	0.196	0	.	.	none	.	F2R	58	.	NM_001992	exon2	c.C619T	p.P207S	GTGTATCCCATGC	.	PASS	Atlas-SNP
KLHL1	57626	hgsc.bcm.edu	37	13	70293616	70293616	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	82.0	15.0	106.0	0.0	0.182927	0	.	.	none	.	KLHL1	164	.	NM_020866	exon9	c.T1900A	p.C634S	TCTTACACATGGG	.	PASS	Atlas-SNP
LRRK2	120892	hgsc.bcm.edu	37	12	40677936	40677936	+	Splice_Site	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	43.0	13.0	39.0	0.0	0.302326	0	.	.	none	.	LRRK2	763	.	NM_198578	exon19	c.2500+1G>A	.	AAACAAGTAAGTA	.	PASS	Atlas-SNP
CHST10	9486	hgsc.bcm.edu	37	2	101009869	101009869	+	Silent	SNP	C	C	T	rs148920749	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	249.0	117.0	296.0	0.0	0.46988	0	C|0.993;T|0.007	0.007	strong	.	CHST10	42	.	NM_004854	exon7	c.G909A	p.V303V	GTATGACACCAGG	.	PASS	Atlas-SNP
RFX3	5991	hgsc.bcm.edu	37	9	3247895	3247895	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	22.0	13.0	25.0	0.0	0.590909	0	.	.	none	.	RFX3	156	.	NM_002919	exon16	c.T2105C	p.V702A	GCAATAACTCCAC	.	PASS	Atlas-SNP
NOTCH1	4851	hgsc.bcm.edu	37	9	139407932	139407932	+	Silent	SNP	A	A	G	rs2229971	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	113.0	51.0	129.0	0.0	0.451327	0	A|0.484;G|0.516	0.516	strong	.	NOTCH1	1980	.	NM_017617	exon14	c.T2265C	p.N755N	ACACTCATTGTTG	.	PASS	Atlas-SNP
FMNL2	114793	hgsc.bcm.edu	37	2	153378487	153378487	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	107.0	21.0	127.0	0.0	0.196262	0	.	.	none	.	FMNL2	75	.	NM_052905	exon2	c.A148T	p.R50W	AAAGCCAGGTTAC	.	PASS	Atlas-SNP
PDGFRB	5159	hgsc.bcm.edu	37	5	149511636	149511636	+	Silent	SNP	C	C	G	rs2228439	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	151.0	68.0	153.0	0.0	0.450331	0	C|0.992;G|0.008	0.008	strong	.	PDGFRB	142	.	NM_002609	exon8	c.G1149C	p.L383L	GCGAACCAGTGTC	.	PASS	Atlas-SNP
SGK1	6446	hgsc.bcm.edu	37	6	134495159	134495159	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	58.0	15.0	82.0	0.0	0.258621	0	.	.	none	SGK1_ENST00000528577,NS,lymphoid_neoplasm,0,5	SGK1	387	5	NM_001143676	exon5	c.C497G	p.A166G	GGGTTGGCATTCA	.	PASS	Atlas-SNP
ALPI	248	hgsc.bcm.edu	37	2	233322286	233322286	+	Silent	SNP	C	C	T	rs139371546	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	228.0	129.0	240.0	1.0	0.565789	0.00416667	C|0.999;T|0.001	0.001	strong	.	ALPI	64	.	NM_001631	exon6	c.C660T	p.G220G	CCTTGGCGGAGGC	.	PASS	Atlas-SNP
MOCS1	4337	hgsc.bcm.edu	37	6	39881568	39881568	+	Missense_Mutation	SNP	C	C	A	rs377241570	alternate_allele	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	66.0	16.0	96.0	0.0	0.242424	0	.	.	alt	.	MOCS1	87	.	NM_005943	exon4	c.G595T	p.V199F	CCATGACCTTGTG	.	PASS	Atlas-SNP
LY75	4065	hgsc.bcm.edu	37	2	160732019	160732019	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	99.0	58.0	123.0	0.0	0.585859	0	.	.	none	.	LY75	151	.	NM_002349	exon12	c.C1910G	p.P637R	GGCTTAGGGGATG	.	PASS	Atlas-SNP
LOXHD1	125336	hgsc.bcm.edu	37	18	44137400	44137400	+	Missense_Mutation	SNP	C	C	T	rs118174674	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	344.0	174.0	377.0	1.0	0.505814	0.00265252	C|0.986;T|0.014	0.014	strong	LOXHD1_ENST00000398722,NS,carcinoma,-1,2	LOXHD1	367	2	NM_144612	exon21	c.G3269A	p.R1090Q	CGAATCCGAATCT	.	PASS	Atlas-SNP
AFF2	2334	hgsc.bcm.edu	37	X	148048494	148048494	+	Missense_Mutation	SNP	A	A	C	rs149653283	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	91.0	89.0	147.0	0.0	0.978022	0	A|1.000;C|0.000	0.000	strong	.	AFF2	679	.	NM_002025	exon14	c.A3088C	p.I1030L	TCTACCATCACTA	.	PASS	Atlas-SNP
DCC	1630	hgsc.bcm.edu	37	18	49867246	49867246	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	190.0	37.0	247.0	0.0	0.194737	0	.	.	none	.	DCC	360	.	NM_005215	exon1	c.C89T	p.T30I	AAGTAACCGGTAA	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179396573	179396573	+	Silent	SNP	T	T	G	rs56375087	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	126.0	57.0	143.0	0.0	0.452381	0	T|0.993;G|0.007	0.007	strong	.	TTN	18412	.	NM_001267550	exon358	c.A104769C	p.T34923T	TTCTGATGTCTTC	.	PASS	Atlas-SNP
ARHGEF28	64283	hgsc.bcm.edu	37	5	73205337	73205337	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	270.0	108.0	198.0	0.0	0.4	0	.	.	none	.	.	.	.	NM_001080479	exon34	c.C4262A	p.P1421H	GCGGCCCCTTGCA	.	PASS	Atlas-SNP
OPLAH	26873	hgsc.bcm.edu	37	8	145107915	145107915	+	Missense_Mutation	SNP	G	G	A	rs200620019	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	103.0	26.0	129.0	0.0	0.252427	0	.	.	weak	.	OPLAH	78	.	NM_017570	exon21	c.C2989T	p.R997C	GGAGGCGGATGGG	.	PASS	Atlas-SNP
SCARF1	8578	hgsc.bcm.edu	37	17	1538714	1538714	+	Missense_Mutation	SNP	T	T	G	rs61738531	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	77.0	22.0	88.0	0.0	0.285714	0	T|0.984;G|0.016	0.016	strong	.	SCARF1	46	.	NM_003693	exon11	c.A1831C	p.S611R	GCGGGCTGGAGAG	.	PASS	Atlas-SNP
UMODL1	89766	hgsc.bcm.edu	37	21	43543098	43543098	+	Silent	SNP	C	C	T	rs58867895	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	93.0	35.0	95.0	0.0	0.376344	0	C|0.985;T|0.015	0.015	strong	.	UMODL1	186	.	NM_173568	exon16	c.C3369T	p.I1123I	TGAGATCGAGAAG	.	PASS	Atlas-SNP
SLC20A2	6575	hgsc.bcm.edu	37	8	42294592	42294592	+	Missense_Mutation	SNP	C	C	T	rs79577461	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	17.0	4.0	32.0	0.0	0.235294	0	C|0.985;T|0.015	0.015	strong	.	SLC20A2	64	.	NM_001257181	exon8	c.G1438A	p.A480T	CGGGTGCGTCCTT	.	PASS	Atlas-SNP
ALOX15B	247	hgsc.bcm.edu	37	17	7950009	7950009	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	61.0	31.0	86.0	0.0	0.508197	0	.	.	none	.	ALOX15B	66	.	NM_001141	exon9	c.C1224G	p.Y408X	CCGATACACCCTG	.	PASS	Atlas-SNP
CNOT4	4850	hgsc.bcm.edu	37	7	135123060	135123060	+	Missense_Mutation	SNP	G	G	C	rs17480616	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	98.0	39.0	163.0	0.0	0.397959	0	G|0.983;C|0.017	0.017	strong	.	CNOT4	146	.	NM_001190850	exon2	c.C20G	p.A7G	TCCTTCGCATCAG	.	PASS	Atlas-SNP
SLC35E2	9906	hgsc.bcm.edu	37	1	1663960	1663960	+	Silent	SNP	G	G	A	rs147265331	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	82.0	61.0	147.0	0.0	0.743902	0	G|0.987;A|0.013	0.013	strong	.	SLC35E2	13	.	NM_182838	exon6	c.C735T	p.V245V	CTGCGGGACCTGC	.	PASS	Atlas-SNP
DTX1	1840	hgsc.bcm.edu	37	12	113496182	113496182	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	58.0	12.0	59.0	0.0	0.206897	0	.	.	none	.	DTX1	83	.	NM_004416	exon1	c.T185G	p.L62R	TGGTCCTGGGGCA	.	PASS	Atlas-SNP
GABRB3	2562	hgsc.bcm.edu	37	15	26806154	26806154	+	Silent	SNP	G	G	A	rs74907974	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	129.0	53.0	159.0	0.0	0.410853	0	G|0.991;A|0.009	0.009	strong	GABRB3_ENST00000541819,right_upper_lobe,carcinoma,-2,6	GABRB3	338	6	NM_021912	exon8	c.C1005T	p.G335G	TTGAGGGCCTCTT	.	PASS	Atlas-SNP
PPM1E	22843	hgsc.bcm.edu	37	17	56833612	56833612	+	Missense_Mutation	SNP	C	C	G	rs116991234	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	57.0	25.0	46.0	0.0	0.438596	0	C|0.993;G|0.007	0.007	strong	.	PPM1E	97	.	NM_014906	exon1	c.C254G	p.P85R	AAGACCCGGAGCC	.	PASS	Atlas-SNP
MTA1	9112	hgsc.bcm.edu	37	14	105936204	105936204	+	Silent	SNP	C	C	T	rs373034822		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	97.0	53.0	102.0	0.0	0.546392	0	.	.	weak	.	MTA1	61	.	NM_004689	exon20	c.C1872T	p.N624N	GCTCAACGGGAAG	.	PASS	Atlas-SNP
WNK1	65125	hgsc.bcm.edu	37	12	999632	999632	+	Missense_Mutation	SNP	C	C	A	rs371264719	alternate_allele	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	249.0	55.0	312.0	0.0	0.220884	0	.	.	alt	.	WNK1	403	.	NM_001184985	exon22	c.C6242A	p.A2081E	CCATGGCGGCTCC	.	PASS	Atlas-SNP
TSEN54	283989	hgsc.bcm.edu	37	17	73520435	73520435	+	Missense_Mutation	SNP	G	G	A	rs200275380		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	150.0	83.0	180.0	0.0	0.553333	0	G|0.999;A|0.001	0.001	weak	.	TSEN54	27	.	NM_207346	exon11	c.G1523A	p.G508D	ATCATGGTGACAT	.	PASS	Atlas-SNP
LCA5L	150082	hgsc.bcm.edu	37	21	40800368	40800368	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	124.0	23.0	89.0	0.0	0.185484	0	.	.	none	.	LCA5L	57	.	NM_152505	exon4	c.G52A	p.V18M	ATGCCACGCCGAA	.	PASS	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	37	6	51524681	51524681	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	167.0	42.0	189.0	0.0	0.251497	0	.	.	none	PKHD1,NS,carcinoma,0,1	PKHD1	927	1	NM_138694	exon61	c.C10243T	p.L3415F	TATCAAGAATTAG	.	PASS	Atlas-SNP
SLC35A1	10559	hgsc.bcm.edu	37	6	88218282	88218282	+	Missense_Mutation	SNP	A	A	G	rs188216651	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	52.0	31.0	59.0	0.0	0.596154	0	A|1.000;G|0.000	0.000	strong	.	SLC35A1	29	.	NM_006416	exon6	c.A719G	p.Y240C	TTTTCTATGGTTA	.	PASS	Atlas-SNP
CWF19L2	143884	hgsc.bcm.edu	37	11	107224415	107224415	+	Silent	SNP	A	A	G	rs35543671	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	100.0	27.0	90.0	0.0	0.27	0	A|0.983;G|0.017	0.017	strong	.	CWF19L2	135	.	NM_152434	exon13	c.T1920C	p.F640F	GGAGACAAACATG	.	PASS	Atlas-SNP
TRPM1	4308	hgsc.bcm.edu	37	15	31327779	31327779	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	93.0	5.0	89.0	0.0	0.0537634	0	.	.	none	.	TRPM1	183	.	NM_001252020	exon20	c.C2721T	p.I907I	GCTCACGATGTAG	.	PASS	Atlas-SNP
GCNT2	2651	hgsc.bcm.edu	37	6	10586727	10586727	+	Missense_Mutation	SNP	G	G	A	rs56106312	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	163.0	111.0	165.0	0.0	0.680982	0	G|0.996;A|0.004	0.004	strong	.	GCNT2	123	.	NM_145655	exon1	c.G505A	p.A169T	CTCCAGGCTGACC	.	PASS	Atlas-SNP
PAMR1	25891	hgsc.bcm.edu	37	11	35463043	35463043	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	129.0	65.0	129.0	0.0	0.503876	0	.	.	none	.	PAMR1	85	.	NM_015430	exon8	c.C1070T	p.P357L	CAGATGGGCTGTT	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14801725	14801725	+	Missense_Mutation	SNP	C	C	G	rs61744094	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	221.0	97.0	238.0	0.0	0.438914	0	C|0.889;G|0.111	0.111	strong	.	FREM1	261	.	NM_144966	exon21	c.G3619C	p.E1207Q	TATTCTCAGAGAA	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	37	16	72993397	72993397	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	100.0	38.0	96.0	0.0	0.38	0	.	.	none	.	ZFHX3	404	.	NM_006885	exon2	c.G648A	p.P216P	GGTATTCGGGAAA	.	PASS	Atlas-SNP
C1S	716	hgsc.bcm.edu	37	12	7175762	7175762	+	Missense_Mutation	SNP	G	G	C	rs150549869	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	120.0	56.0	137.0	0.0	0.466667	0	G|1.000;C|0.000	0.000	strong	.	C1S	93	.	NM_201442	exon11	c.G1198C	p.E400Q	CCAGGGGAGTATC	.	PASS	Atlas-SNP
OR5T2	219464	hgsc.bcm.edu	37	11	56000079	56000079	+	Missense_Mutation	SNP	C	C	T	rs77295387	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	207.0	157.0	264.0	0.0	0.758454	0	C|0.981;T|0.019	0.019	strong	.	OR5T2	107	.	NM_001004746	exon1	c.G583A	p.A195T	TAGTAGCATGTAA	.	PASS	Atlas-SNP
ALB	213	hgsc.bcm.edu	37	4	74285263	74285263	+	Silent	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	101.0	22.0	91.0	0.0	0.217822	0	.	.	none	.	ALB	132	.	NM_000477	exon13	c.A1692G	p.T564T	GGCAACAAAAGAG	.	PASS	Atlas-SNP
KRT14	3861	hgsc.bcm.edu	37	17	39742921	39742921	+	Missense_Mutation	SNP	G	G	A	rs117484558	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	25.0	10.0	22.0	0.0	0.4	0	G|0.994;A|0.006	0.006	strong	KRT14,NS,carcinoma,+1,1	KRT14	65	1	NM_000526	exon1	c.C166T	p.R56C	AGAAGCGGGAGGA	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505874	195505874	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	84.0	6.0	64.0	1.0	0.0714286	0.015625	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,2	MUC4	1505	2	NM_018406	exon2	c.C12577G	p.L4193V	CAGGAAGAGGGGT	.	scavenged	Atlas-SNP
CPSF1	29894	hgsc.bcm.edu	37	8	145624578	145624578	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	89.0	40.0	95.0	0.0	0.449438	0	.	.	none	.	CPSF1	92	.	NM_013291	exon15	c.C1407T	p.I469I	GTTCAGGATGCTG	.	PASS	Atlas-SNP
PTPRR	5801	hgsc.bcm.edu	37	12	71286606	71286606	+	Silent	SNP	G	G	A	rs149684669	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	295.0	139.0	371.0	0.0	0.471186	0	G|0.997;A|0.003	0.003	strong	.	PTPRR	109	.	NM_002849	exon2	c.C210T	p.S70S	AGCTTCGGAAGAG	.	PASS	Atlas-SNP
ATG13	9776	hgsc.bcm.edu	37	11	46690413	46690413	+	Missense_Mutation	SNP	G	G	A	rs35619591	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	24.0	19.0	26.0	0.0	0.791667	0	G|0.994;A|0.006	0.006	strong	.	ATG13	60	.	NM_001205119	exon16	c.G1399A	p.G467R	TCCAGCGGGGGCA	.	PASS	Atlas-SNP
CUX1	1523	hgsc.bcm.edu	37	7	101921292	101921292	+	Missense_Mutation	SNP	A	A	C	rs118010189	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	244.0	120.0	282.0	0.0	0.491803	0	A|0.993;C|0.007	0.007	strong	.	CUX1	253	.	NM_001913	exon18	c.A1636C	p.K546Q	AACATCAAGCTCT	.	PASS	Atlas-SNP
SLITRK1	114798	hgsc.bcm.edu	37	13	84455214	84455214	+	Silent	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	61.0	14.0	67.0	0.0	0.229508	0	.	.	none	.	SLITRK1	196	.	NM_052910	exon1	c.A429G	p.R143R	TATATCTCGTAAT	.	PASS	Atlas-SNP
PCDHB8	56128	hgsc.bcm.edu	37	5	140559148	140559148	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	423.0	50.0	305.0	0.0	0.118203	0	.	.	none	.	PCDHB8	199	.	NM_019120	exon1	c.C1533T	p.N511N	AGACAACGGCCAC	.	PASS	Atlas-SNP
CPN1	1369	hgsc.bcm.edu	37	10	101808540	101808540	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	113.0	26.0	137.0	0.0	0.230089	0	.	.	none	.	CPN1	62	.	NM_001308	exon8	c.C1205T	p.T402I	CCCACGGTCACAG	.	PASS	Atlas-SNP
ZNF812	729648	hgsc.bcm.edu	37	19	9801257	9801257	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	87.0	24.0	116.0	0.0	0.275862	0	.	.	none	.	ZNF812	27	.	NM_001199814	exon6	c.A922G	p.K308E	ATTCCTTACATTC	.	PASS	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	37	6	51890754	51890754	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	103.0	27.0	114.0	0.0	0.262136	0	.	.	none	.	PKHD1	927	.	NM_170724	exon32	c.G3854A	p.S1285N	ACCAAGCTTGGTG	.	PASS	Atlas-SNP
GRIA2	2891	hgsc.bcm.edu	37	4	158242630	158242630	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	131.0	29.0	162.0	0.0	0.221374	0	.	.	none	.	GRIA2	358	.	NM_000826	exon6	c.G761T	p.G254V	TTGGAGGTGCAAA	.	PASS	Atlas-SNP
AATK	9625	hgsc.bcm.edu	37	17	79100340	79100340	+	Silent	SNP	C	C	T	rs139267162	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	59.0	31.0	60.0	0.0	0.525424	0	C|0.994;T|0.006	0.006	strong	.	AATK	102	.	NM_001080395	exon7	c.G642A	p.L214L	GCTCCGCAGGTAG	.	PASS	Atlas-SNP
FGFR3	2261	hgsc.bcm.edu	37	4	1801511	1801511	+	Silent	SNP	C	C	T	rs3135867	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	156.0	78.0	196.0	0.0	0.5	0	C|0.965;T|0.035	0.035	strong	.	FGFR3	3320	.	NM_001163213	exon4	c.C417T	p.D139D	GGAGGACGAGGCT	.	PASS	Atlas-SNP
FAM188B	84182	hgsc.bcm.edu	37	7	30818142	30818142	+	Missense_Mutation	SNP	T	T	G	rs201946407	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	209.0	47.0	226.0	0.0	0.22488	0	T|0.998;G|0.002	0.002	strong	.	FAM188B	62	.	NM_032222	exon2	c.T158G	p.L53R	TGCATCTTGAATT	.	PASS	Atlas-SNP
KIAA1522	57648	hgsc.bcm.edu	37	1	33236824	33236824	+	Missense_Mutation	SNP	C	C	T	rs199566536	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	36.0	77.0	0.0	0.507042	0	C|0.997;T|0.003	0.003	strong	.	KIAA1522	68	.	NM_020888	exon6	c.C2044T	p.P682S	CCTAACCCAGCTG	.	PASS	Atlas-SNP
PAPLN	89932	hgsc.bcm.edu	37	14	73720604	73720604	+	Missense_Mutation	SNP	C	C	A	rs146030488	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	116.0	55.0	106.0	0.0	0.474138	0	C|0.996;A|0.004	0.004	strong	.	PAPLN	180	.	NM_173462	exon11	c.C1156A	p.P386T	GGGAAGCCCCCTG	.	PASS	Atlas-SNP
VCX	26609	hgsc.bcm.edu	37	X	7811760	7811760	+	Silent	SNP	C	C	A	rs202230674	alternate_allele	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	77.0	18.0	127.0	0.0	0.233766	0	.	.	alt	.	VCX	28	.	NM_013452	exon3	c.C324A	p.A108A	GGAGGCCGAGCTG	.	PASS	Atlas-SNP
PAX5	5079	hgsc.bcm.edu	37	9	37033983	37033983	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	98.0	29.0	72.0	0.0	0.295918	0	.	.	none	.	PAX5	250	.	NM_016734	exon1	c.G46C	p.G16R	TCCTACCTGTCCT	.	PASS	Atlas-SNP
RTEL1	51750	hgsc.bcm.edu	37	20	62294236	62294236	+	Missense_Mutation	SNP	G	G	A	rs184051277	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	83.0	29.0	69.0	0.0	0.349398	0	G|1.000;A|0.000	0.000	strong	.	RTEL1	114	.	NM_032957	exon6	c.G604A	p.V202I	AACAACGTAGAAG	.	PASS	Atlas-SNP
ATRNL1	26033	hgsc.bcm.edu	37	10	117075140	117075140	+	Silent	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	121.0	27.0	111.0	0.0	0.22314	0	.	.	none	.	ATRNL1	219	.	NM_207303	exon18	c.A2931C	p.S977S	TTCTTCACGGGGA	.	PASS	Atlas-SNP
FGFR2	2263	hgsc.bcm.edu	37	10	123279643	123279643	+	Silent	SNP	C	C	T	rs138315382	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	63.0	18.0	78.0	0.0	0.285714	0	C|1.000;T|0.000	0.000	strong	.	FGFR2	758	.	NM_022970	exon7	c.G789A	p.P263P	ATTTGCCGGCAGT	.	PASS	Atlas-SNP
RAVER2	55225	hgsc.bcm.edu	37	1	65243466	65243466	+	Silent	SNP	A	A	G	rs41285400	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	237.0	120.0	249.0	0.0	0.506329	0	A|0.994;G|0.006	0.006	strong	.	RAVER2	56	.	NM_018211	exon3	c.A477G	p.E159E	GTTTGAAGAACTT	.	PASS	Atlas-SNP
ATP6V0A1	535	hgsc.bcm.edu	37	17	40665913	40665913	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	193.0	58.0	210.0	0.0	0.300518	0	.	.	none	.	ATP6V0A1	67	.	NM_001130020	exon19	c.T2168C	p.I723T	AGGCCATCCACAC	.	PASS	Atlas-SNP
ZNF516	9658	hgsc.bcm.edu	37	18	74091766	74091766	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	89.0	26.0	135.0	0.0	0.292135	0	.	.	none	.	ZNF516	102	.	NM_014643	exon4	c.G2304A	p.K768K	GTAGGTCTTGTGG	.	PASS	Atlas-SNP
PTPRU	10076	hgsc.bcm.edu	37	1	29606589	29606589	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	239.0	53.0	277.0	0.0	0.221757	0	.	.	none	.	PTPRU	374	.	NM_001195001	exon11	c.G1804C	p.G602R	CCCCTGGGCGAGT	.	PASS	Atlas-SNP
MMP13	4322	hgsc.bcm.edu	37	11	102825227	102825227	+	Silent	SNP	G	G	A	rs368161332		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	108.0	70.0	137.0	0.0	0.648148	0	.	.	weak	MMP13,NS,malignant_melanoma,-2,1	MMP13	75	1	NM_002427	exon3	c.C471T	p.H157H	GCCATCGTGAAGT	.	PASS	Atlas-SNP
DOCK8	81704	hgsc.bcm.edu	37	9	340230	340230	+	Missense_Mutation	SNP	G	G	A	rs373187839		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	91.0	37.0	81.0	1.0	0.406593	0.0123457	.	.	weak	DOCK8_ENST00000453981,NS,carcinoma,-2,2	DOCK8	401	2	NM_203447	exon14	c.G1588A	p.V530M	CTGCCCGTGAAAC	.	scavenged	Atlas-SNP
VWA3A	146177	hgsc.bcm.edu	37	16	22144377	22144377	+	Silent	SNP	C	C	A	rs371670962	alternate_allele	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	27.0	91.0	0.0	0.380282	0	.	.	alt	.	VWA3A	115	.	NM_173615	exon20	c.C2029A	p.R677R	GTCACCCGGGCTG	.	PASS	Atlas-SNP
PCNX	22990	hgsc.bcm.edu	37	14	71443816	71443816	+	Silent	SNP	T	T	G	rs35702999	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	218.0	94.0	227.0	0.0	0.431193	0	T|0.991;G|0.009	0.009	strong	.	PCNX	198	.	NM_014982	exon6	c.T762G	p.S254S	TCAGTCTCTGTCC	.	PASS	Atlas-SNP
TREX2	11219	hgsc.bcm.edu	37	X	152710185	152710185	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	50.0	18.0	139.0	0.0	0.36	0	.	.	none	.	TREX2	36	.	NM_080701	exon2	c.A704C	p.E235A	CAGGCCTCCAGGC	.	PASS	Atlas-SNP
EGFR	1956	hgsc.bcm.edu	37	7	55238087	55238087	+	Silent	SNP	C	C	T	rs10258429	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	145.0	66.0	152.0	0.0	0.455172	0	C|0.889;T|0.111	0.111	strong	.	EGFR	20426	.	NM_201284	exon16	c.C1968T	p.H656H	GTCCCACCAGAGC	.	PASS	Atlas-SNP
ADAM32	203102	hgsc.bcm.edu	37	8	39068684	39068684	+	Silent	SNP	T	T	A	rs61753544	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	71.0	56.0	89.0	0.0	0.788732	0	T|0.999;A|0.001	0.001	strong	.	ADAM32	70	.	NM_145004	exon12	c.T1074A	p.T358T	GAAGACTTTTAGC	.	PASS	Atlas-SNP
FAM135A	57579	hgsc.bcm.edu	37	6	71195892	71195892	+	Silent	SNP	A	A	G	rs142935920	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	201.0	94.0	232.0	0.0	0.467662	0	A|0.999;G|0.001	0.001	strong	.	FAM135A	181	.	NM_020819	exon9	c.A717G	p.L239L	GCTCCTATATGAG	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	37	7	4843307	4843307	+	Missense_Mutation	SNP	T	T	C	rs187128776	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	116.0	26.0	111.0	1.0	0.224138	0.00900901	T|0.985;C|0.015	0.015	strong	RADIL,brain,glioma,0,1	RADIL	110	1	NM_018059	exon11	c.A2369G	p.N790S	AGGCAGTTGGCTT	.	scavenged	Atlas-SNP
DYNC2H1	79659	hgsc.bcm.edu	37	11	103116000	103116000	+	Silent	SNP	T	T	C	rs192003811	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	51.0	8.0	62.0	0.0	0.156863	0	T|0.997;C|0.003	0.003	strong	.	DYNC2H1	246	.	NM_001080463	exon66	c.T9960C	p.A3320A	CACAGCTCTTGAA	.	PASS	Atlas-SNP
DOCK4	9732	hgsc.bcm.edu	37	7	111375211	111375211	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	37.0	11.0	44.0	0.0	0.297297	0	.	.	none	.	DOCK4	365	.	NM_014705	exon50	c.C5291G	p.T1764S	CTAGGGGTGGGGT	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	37	2	179393691	179393691	+	Missense_Mutation	SNP	G	G	A	rs55842557	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	202.0	80.0	229.0	0.0	0.39604	0	G|0.993;A|0.007	0.007	strong	.	TTN	18412	.	NM_001267550	exon360	c.C106787T	p.T35596I	TGTGATGTTTTAG	.	PASS	Atlas-SNP
TUBB4A	10382	hgsc.bcm.edu	37	19	6495199	6495199	+	Silent	SNP	C	C	T	rs369467354		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	49.0	18.0	54.0	0.0	0.367347	0	.	.	weak	.	.	.	.	NM_006087	exon4	c.G1311A	p.E437E	CGCCTCCTCCTCG	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126336348	126336348	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	107.0	7.0	126.0	0.0	0.0654206	0	.	.	none	.	FAT4	1752	.	NM_024582	exon5	c.C6230G	p.P2077R	CTGACCCAGATAG	.	PASS	Atlas-SNP
SMO	6608	hgsc.bcm.edu	37	7	128843277	128843277	+	Silent	SNP	C	C	T	rs45571737	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	103.0	40.0	99.0	0.0	0.38835	0	C|0.993;T|0.007	0.007	strong	.	SMO	145	.	NM_005631	exon2	c.C384T	p.A128A	GTGTGCCGTATAC	.	PASS	Atlas-SNP
CCDC158	339965	hgsc.bcm.edu	37	4	77272155	77272155	+	Silent	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	89.0	18.0	81.0	0.0	0.202247	0	.	.	none	.	CCDC158	114	.	NM_001042784	exon17	c.G2658T	p.L886L	ATGAGACAGGAAG	.	PASS	Atlas-SNP
HS6ST3	266722	hgsc.bcm.edu	37	13	96743584	96743584	+	Silent	SNP	G	G	T	rs144263527	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	41.0	18.0	50.0	0.0	0.439024	0	G|0.998;T|0.002	0.002	strong	HS6ST3,NS,carcinoma,0,1	HS6ST3	54	1	NM_153456	exon1	c.G468T	p.T156T	GAAGACGGGGGGC	.	PASS	Atlas-SNP
KCND1	3750	hgsc.bcm.edu	37	X	48826490	48826490	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	166.0	53.0	254.0	0.0	0.319277	0	.	.	none	.	KCND1	63	.	NM_004979	exon1	c.C189T	p.D63D	CAAGGTGTCTGGG	.	PASS	Atlas-SNP
ZBBX	79740	hgsc.bcm.edu	37	3	167045779	167045779	+	Silent	SNP	G	G	A	rs375095384		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	123.0	26.0	170.0	0.0	0.211382	0	.	.	weak	ZBBX_ENST00000455345,NS,carcinoma,0,2	ZBBX	299	2	NM_024687	exon11	c.C813T	p.T271T	ATTTCCGGTTCTC	.	PASS	Atlas-SNP
MS4A14	84689	hgsc.bcm.edu	37	11	60183483	60183483	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	214.0	162.0	230.0	0.0	0.757009	0	.	.	none	.	MS4A14	120	.	NM_001261828	exon6	c.T1141C	p.S381P	CAGTCTTCTAATC	.	PASS	Atlas-SNP
APOL6	80830	hgsc.bcm.edu	37	22	36055130	36055130	+	Missense_Mutation	SNP	T	T	A	rs5999923	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	54.0	23.0	61.0	0.0	0.425926	0	T|0.973;A|0.027	0.027	strong	.	APOL6	26	.	NM_030641	exon3	c.T519A	p.N173K	CTATAATCTTAGA	.	PASS	Atlas-SNP
CACTIN	58509	hgsc.bcm.edu	37	19	3612035	3612035	+	Silent	SNP	G	G	A	rs61738769	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	156.0	74.0	148.0	0.0	0.474359	0	G|0.999;A|0.001	0.001	strong	C19orf29_ENST00000429344,NS,neuroblastoma,0,2	.	.	2	NM_021231	exon10	c.C2163T	p.F721F	GATCTTGAAAGCG	.	PASS	Atlas-SNP
KRT84	3890	hgsc.bcm.edu	37	12	52779159	52779159	+	Missense_Mutation	SNP	G	G	A	rs145217788	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	118.0	52.0	165.0	0.0	0.440678	0	G|0.998;A|0.002	0.002	strong	.	KRT84	61	.	NM_033045	exon1	c.C211T	p.R71W	TGGGCCGAGAGCC	.	PASS	Atlas-SNP
COG1	9382	hgsc.bcm.edu	37	17	71193525	71193525	+	Missense_Mutation	SNP	G	G	C	rs117208167	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	49.0	24.0	75.0	0.0	0.489796	0	G|0.994;C|0.006	0.006	strong	.	COG1	46	.	NM_018714	exon4	c.G903C	p.Q301H	AGGCCAGCATCCT	.	PASS	Atlas-SNP
RIN2	54453	hgsc.bcm.edu	37	20	19955713	19955713	+	Silent	SNP	G	G	C	rs149398614	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	34.0	19.0	36.0	0.0	0.558824	0	G|0.983;C|0.017	0.017	strong	.	RIN2	126	.	NM_001242581	exon8	c.G1191C	p.L397L	AGCTCTGCCTGGA	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	37	5	13716797	13716797	+	Silent	SNP	A	A	G	rs61744054	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	101.0	42.0	88.0	1.0	0.415842	0.0113636	A|0.971;G|0.029	0.029	strong	DNAH5,NS,carcinoma,-1,1	DNAH5	868	1	NM_001369	exon74	c.T12708C	p.G4236G	GGAGACACCCTGG	.	scavenged	Atlas-SNP
U2SURP	23350	hgsc.bcm.edu	37	3	142747227	142747227	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	182.0	43.0	210.0	0.0	0.236264	0	.	.	none	.	U2SURP	66	.	NM_001080415	exon15	c.G1425A	p.W475X	TAGGTGGAAGCTT	.	PASS	Atlas-SNP
POLR3F	10621	hgsc.bcm.edu	37	20	18449662	18449662	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	267.0	67.0	238.0	0.0	0.250936	0	.	.	none	.	POLR3F	14	.	NM_006466	exon2	c.A137C	p.E46A	ATATAGAAGCCCA	.	PASS	Atlas-SNP
VWA3A	146177	hgsc.bcm.edu	37	16	22144378	22144378	+	Missense_Mutation	SNP	G	G	A	rs200086497	by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	72.0	27.0	91.0	0.0	0.375	0	G|1.000;A|0.000	0.000	strong	.	VWA3A	115	.	NM_173615	exon20	c.G2030A	p.R677Q	TCACCCGGGCTGC	.	PASS	Atlas-SNP
SSC5D	284297	hgsc.bcm.edu	37	19	56029489	56029489	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	128.0	12.0	146.0	0.0	0.09375	0	.	.	none	SSC5D,NS,carcinoma,+2,1	SSC5D	65	1	NM_001144950	exon14	c.C3846T	p.H1282H	CCCTCACCCCACC	.	scavenged	Atlas-SNP
OR4C13	283092	hgsc.bcm.edu	37	11	49974626	49974626	+	Missense_Mutation	SNP	G	G	A	rs150606357	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	157.0	111.0	219.0	0.0	0.707006	0	G|0.999;A|0.001	0.001	strong	.	OR4C13	96	.	NM_001001955	exon1	c.G652A	p.V218I	TGCGTGGTCATAC	.	PASS	Atlas-SNP
ECD	11319	hgsc.bcm.edu	37	10	74899209	74899209	+	Silent	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	77.0	18.0	101.0	0.0	0.233766	0	.	.	none	.	ECD	50	.	NM_001135752	exon12	c.C1378T	p.L460L	CCTGCAGCAGCTG	.	PASS	Atlas-SNP
FASTKD2	22868	hgsc.bcm.edu	37	2	207631446	207631446	+	Missense_Mutation	SNP	G	G	C	rs147727753	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	148.0	79.0	174.0	0.0	0.533784	0	G|0.996;C|0.004	0.004	strong	.	FASTKD2	49	.	NM_001136193	exon2	c.G29C	p.S10T	TTGGAAGTGTTTC	.	PASS	Atlas-SNP
BAZ2B	29994	hgsc.bcm.edu	37	2	160241785	160241785	+	Silent	SNP	T	T	C	rs372315034		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	135.0	60.0	96.0	0.0	0.444444	0	.	.	weak	.	BAZ2B	196	.	NM_013450	exon23	c.A3567G	p.G1189G	AGTTTGTCCACAG	.	PASS	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	37	1	215848914	215848914	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	138.0	29.0	128.0	0.0	0.210145	0	.	.	none	.	USH2A	1168	.	NM_206933	exon63	c.G12339T	p.L4113F	ACGATTCAAACCA	.	PASS	Atlas-SNP
PCDHB14	56122	hgsc.bcm.edu	37	5	140604621	140604621	+	Missense_Mutation	SNP	C	C	T	rs144421802	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	169.0	92.0	159.0	0.0	0.544379	0	C|0.994;T|0.006	0.006	strong	.	PCDHB14	132	.	NM_018934	exon1	c.C1544T	p.A515V	TGTTTGCCCTCAG	.	PASS	Atlas-SNP
KIF21A	55605	hgsc.bcm.edu	37	12	39716675	39716675	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	117.0	28.0	107.0	0.0	0.239316	0	.	.	none	.	KIF21A	238	.	NM_001173464	exon27	c.A3466T	p.R1156X	TGGTTCTCCTTCG	.	PASS	Atlas-SNP
CCSER1	401145	hgsc.bcm.edu	37	4	92519814	92519814	+	Missense_Mutation	SNP	C	C	T	rs370719096		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	74.0	21.0	107.0	0.0	0.283784	0	.	.	weak	.	.	.	.	NM_001145065	exon11	c.C2309T	p.S770L	GGTATTCGGCAGC	.	PASS	Atlas-SNP
KRAS	3845	hgsc.bcm.edu	37	12	25362777	25362777	+	Silent	SNP	A	A	G	rs1137282	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	127.0	126.0	166.0	0.0	0.992126	0	T|0.136;G|0.154;C|0.028;A|0.682	0.154	strong	.	KRAS	30930	.	NM_004985	exon5	c.T519C	p.D173D	TTTACCATCTTTG	.	PASS	Atlas-SNP
DLGAP1	9229	hgsc.bcm.edu	37	18	3534224	3534224	+	Missense_Mutation	SNP	C	C	T	rs35822832	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	160.0	70.0	160.0	0.0	0.4375	0	C|0.984;T|0.016	0.016	strong	.	DLGAP1	201	.	NM_001242761	exon10	c.G2447A	p.R816Q	TCTTCCCGCTCCA	.	PASS	Atlas-SNP
HIST1H1D	3007	hgsc.bcm.edu	37	6	26234735	26234735	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	99.0	27.0	125.0	0.0	0.272727	0	.	.	none	.	HIST1H1D	40	.	NM_005320	exon1	c.G427A	p.A143T	CGCCAGCCACCTT	.	PASS	Atlas-SNP
TMEM72	643236	hgsc.bcm.edu	37	10	45430257	45430257	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	86.0	37.0	83.0	0.0	0.430233	0	.	.	none	.	TMEM72	25	.	NM_001123376	exon5	c.C503T	p.T168I	AGCAAACCTACAC	.	PASS	Atlas-SNP
FAM13B	51306	hgsc.bcm.edu	37	5	137275968	137275968	+	Missense_Mutation	SNP	C	C	G	rs201094212	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	163.0	83.0	197.0	0.0	0.509202	0	C|0.999;G|0.001	0.001	strong	FAM13B,NS,carcinoma,0,2	FAM13B	46	2	NM_016603	exon23	c.G2694C	p.K898N	CCTAAGCTTGGCT	.	PASS	Atlas-SNP
ASPM	259266	hgsc.bcm.edu	37	1	197069640	197069640	+	Missense_Mutation	SNP	A	A	G	rs200856894	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	48.0	17.0	88.0	0.0	0.354167	0	A|0.999;G|0.001	0.001	weak	ASPM,NS,carcinoma,+1,1	ASPM	444	1	NM_018136	exon18	c.T8741C	p.I2914T	ATAATGATAACAC	.	PASS	Atlas-SNP
NFKBIZ	64332	hgsc.bcm.edu	37	3	101571753	101571753	+	Missense_Mutation	SNP	A	A	G	rs61730026	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	155.0	78.0	180.0	0.0	0.503226	0	A|0.998;G|0.002	0.002	strong	.	NFKBIZ	55	.	NM_031419	exon4	c.A484G	p.S162G	TCATACAGTGGGA	.	PASS	Atlas-SNP
FAM83B	222584	hgsc.bcm.edu	37	6	54735301	54735301	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	128.0	27.0	131.0	0.0	0.210938	0	.	.	none	.	FAM83B	186	.	NM_001010872	exon2	c.C257G	p.T86S	ATGATACCTTATC	.	PASS	Atlas-SNP
KIAA1751	85452	hgsc.bcm.edu	37	1	1900225	1900225	+	Missense_Mutation	SNP	C	C	T	rs72636304	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	59.0	17.0	118.0	0.0	0.288136	0	C|0.994;T|0.006	0.006	strong	.	KIAA1751	92	.	NM_001080484	exon11	c.G1094A	p.R365Q	AGAATCCGACTGA	.	PASS	Atlas-SNP
SGK1	6446	hgsc.bcm.edu	37	6	134495725	134495725	+	Splice_Site	SNP	C	C	T	rs186450029	by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	36.0	11.0	84.0	0.0	0.305556	0	C|1.000;T|0.000	0.000	strong	SGK1_ENST00000528577,NS,lymphoid_neoplasm,0,4	SGK1	387	4	NM_005627	exon3	c.77-1G>A	.	TGAAAGCTGTGGA	.	PASS	Atlas-SNP
THBS1	7057	hgsc.bcm.edu	37	15	39880818	39880818	+	Silent	SNP	C	C	T	rs41338344	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	70.0	34.0	76.0	0.0	0.485714	0	C|0.975;T|0.025	0.025	strong	.	THBS1	106	.	NM_003246	exon10	c.C1563T	p.N521N	CAACAACCCCACA	.	PASS	Atlas-SNP
PPP1R32	220004	hgsc.bcm.edu	37	11	61254455	61254455	+	Silent	SNP	T	T	C	rs77676987	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	148.0	120.0	200.0	1.0	0.810811	0.005	T|0.960;C|0.040	0.040	strong	.	.	.	.	NM_145017	exon10	c.T870C	p.S290S	CGTGAGTCACCAG	.	PASS	Atlas-SNP
APOBEC3B	9582	hgsc.bcm.edu	37	22	39381936	39381936	+	Silent	SNP	G	G	A	rs138362043		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	168.0	117.0	244.0	0.0	0.696429	0	G|1.000;A|0.000	0.000	weak	APOBEC3B,colon,carcinoma,+1,1	APOBEC3B	32	1	NM_004900	exon3	c.G294A	p.P98P	CTGCCCGGACTGT	.	PASS	Atlas-SNP
NOL8	55035	hgsc.bcm.edu	37	9	95069242	95069242	+	Silent	SNP	A	A	G	rs375530094		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	141.0	56.0	170.0	0.0	0.397163	0	.	.	weak	.	NOL8	118	.	NM_017948	exon11	c.T2751C	p.N917N	TACAACATTCAGG	.	PASS	Atlas-SNP
CLCN7	1186	hgsc.bcm.edu	37	16	1500567	1500567	+	Silent	SNP	C	C	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	136.0	106.0	90.0	0.0	0.779412	0	.	.	none	.	CLCN7	53	.	NM_001287	exon17	c.G1548A	p.P516P	CAGGGACGGGATG	.	PASS	Atlas-SNP
OR51A4	401666	hgsc.bcm.edu	37	11	4967834	4967834	+	Missense_Mutation	SNP	C	C	G	rs201205025		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	155.0	11.0	980.0	0.0	0.0709677	0	.	.	weak	OR51A4,colon,carcinoma,-1,1	OR51A4	73	1	NM_001005329	exon1	c.G497C	p.R166T	AAGTTTCTTAAAG	.	scavenged	Atlas-SNP
CD3G	917	hgsc.bcm.edu	37	11	118219742	118219742	+	Missense_Mutation	SNP	G	G	A	rs146393315	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	192.0	43.0	186.0	0.0	0.223958	0	G|0.999;A|0.001	0.001	strong	.	CD3G	31	.	NM_000073	exon2	c.G56A	p.G19D	TTACAGGTACTTT	.	PASS	Atlas-SNP
ANGPTL4	51129	hgsc.bcm.edu	37	19	8436289	8436289	+	Missense_Mutation	SNP	G	G	A	rs139998264	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	81.0	40.0	92.0	0.0	0.493827	0	G|0.999;A|0.001	0.001	strong	.	ANGPTL4	21	.	NM_139314	exon6	c.G922A	p.V308M	GCACCCGTGGCCG	.	PASS	Atlas-SNP
ADAM28	10863	hgsc.bcm.edu	37	8	24177788	24177788	+	Missense_Mutation	SNP	A	A	G	rs200839167	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	91.0	19.0	96.0	0.0	0.208791	0	A|0.999;G|0.001	0.001	weak	.	ADAM28	100	.	NM_014265	exon7	c.A616G	p.I206V	AAATACATAGAAT	.	PASS	Atlas-SNP
H2AFV	94239	hgsc.bcm.edu	37	7	44875203	44875203	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	56.0	15.0	87.0	0.0	0.267857	0	.	.	none	.	H2AFV	14	.	NM_012412	exon4	c.C250G	p.P84A	GACGCGGAGTGAT	.	PASS	Atlas-SNP
GOLGB1	2804	hgsc.bcm.edu	37	3	121410844	121410844	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	483.0	236.0	491.0	0.0	0.488613	0	.	.	none	.	GOLGB1	319	.	NM_001256486	exon14	c.A7367C	p.E2456A	ATGTTTTCCTTTT	.	PASS	Atlas-SNP
CEP164	22897	hgsc.bcm.edu	37	11	117214881	117214881	+	Splice_Site	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	157.0	28.0	183.0	0.0	0.178344	0	.	.	none	CEP164,colon,carcinoma,-2,1	CEP164	121	1	NM_001271933	exon3	c.83-1G>A	.	CTTGCAGAAATTC	.	PASS	Atlas-SNP
ZFYVE16	9765	hgsc.bcm.edu	37	5	79735832	79735832	+	Silent	SNP	C	C	T	rs114761271	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	67.0	23.0	79.0	0.0	0.343284	0	C|0.986;T|0.014	0.014	strong	.	ZFYVE16	100	.	NM_001105251	exon5	c.C2400T	p.C800C	AGTCTGCTATGAA	.	PASS	Atlas-SNP
KIAA1107	23285	hgsc.bcm.edu	37	1	92649498	92649498	+	Missense_Mutation	SNP	T	T	A	rs75212872	byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	206.0	84.0	251.0	0.0	0.407767	0	T|0.999;A|0.001	0.001	strong	.	KIAA1107	60	.	NM_015237	exon9	c.T3676A	p.Y1226N	CCAATATATGAGA	.	PASS	Atlas-SNP
ITGA4	3676	hgsc.bcm.edu	37	2	182392096	182392096	+	Silent	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	58.0	32.0	84.0	0.0	0.551724	0	.	.	none	.	ITGA4	142	.	NM_000885	exon22	c.A2412G	p.K804K	GGAGAAAATGAAC	.	PASS	Atlas-SNP
TECPR1	25851	hgsc.bcm.edu	37	7	97861156	97861156	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	61.0	14.0	57.0	0.0	0.229508	0	.	.	none	.	TECPR1	77	.	NM_015395	exon13	c.G1934T	p.S645I	AGGATGCTGTCCC	.	PASS	Atlas-SNP
PLCG1	5335	hgsc.bcm.edu	37	20	39802374	39802374	+	Silent	SNP	C	C	T	rs150104210		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	226.0	135.0	239.0	0.0	0.597345	0	C|1.000;T|0.000	0.000	weak	.	PLCG1	111	.	NM_182811	exon29	c.C3477T	p.F1159F	GCGCTTCGTGGTG	.	PASS	Atlas-SNP
FAM19A4	151647	hgsc.bcm.edu	37	3	68782299	68782299	+	Silent	SNP	C	C	T	rs146641270	bycluster;byfrequency	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	62.0	29.0	81.0	0.0	0.467742	0	C|0.999;T|0.001	0.001	strong	.	FAM19A4	23	.	NM_182522	exon6	c.G417A	p.T139T	CTACCGCGTTACC	.	PASS	Atlas-SNP
ATOH7	220202	hgsc.bcm.edu	37	10	69991266	69991266	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	55.0	32.0	42.0	0.0	0.581818	0	.	.	none	.	ATOH7	4	.	NM_145178	exon1	c.A169G	p.N57D	CAGTGTTGAGCCC	.	PASS	Atlas-SNP
VPS37A	137492	hgsc.bcm.edu	37	8	17123477	17123477	+	Missense_Mutation	SNP	A	A	G	rs372276569		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	183.0	42.0	230.0	0.0	0.229508	0	.	.	weak	.	VPS37A	22	.	NM_152415	exon2	c.A187G	p.I63V	CTGACAATTAACA	.	PASS	Atlas-SNP
OR10V1	390201	hgsc.bcm.edu	37	11	59481214	59481214	+	Silent	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	76.0	24.0	90.0	0.0	0.315789	0	.	.	none	.	OR10V1	40	.	NM_001005324	exon1	c.T105C	p.Y35Y	GGTCAGATACATC	.	PASS	Atlas-SNP
LRRIQ1	84125	hgsc.bcm.edu	37	12	85459100	85459100	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	82.0	16.0	105.0	0.0	0.195122	0	.	.	none	.	LRRIQ1	512	.	NM_001079910	exon9	c.A2452C	p.T818P	GAGTGTACAAATC	.	PASS	Atlas-SNP
PRDM9	56979	hgsc.bcm.edu	37	5	23527273	23527273	+	Silent	SNP	T	T	C	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	98.0	26.0	74.0	0.0	0.265306	0	.	.	none	PRDM9,NS,carcinoma,+1,1	PRDM9	344	1	NM_020227	exon11	c.T2076C	p.Y692Y	GCCCTATGTCTGC	.	PASS	Atlas-SNP
VIT	5212	hgsc.bcm.edu	37	2	36970364	36970364	+	Silent	SNP	A	A	G	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	98.0	45.0	129.0	0.0	0.459184	0	.	.	none	.	VIT	138	.	NM_001177969	exon4	c.A240G	p.A80A	GTATGCATCCTAC	.	PASS	Atlas-SNP
TH	7054	hgsc.bcm.edu	37	11	2190982	2190982	+	Silent	SNP	A	A	G	rs7950050	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	143.0	116.0	110.0	0.0	0.811189	0	A|0.952;G|0.048	0.048	strong	.	TH	43	.	NM_199292	exon3	c.T303C	p.A101A	GGCCACAGCCTCC	.	PASS	Atlas-SNP
CANX	821	hgsc.bcm.edu	37	5	179135309	179135309	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	246.0	78.0	202.0	0.0	0.317073	0	.	.	none	.	CANX	47	.	NM_001746	exon5	c.G374A	p.R125Q	TGTCTCGGGCCAA	.	PASS	Atlas-SNP
RNF26	79102	hgsc.bcm.edu	37	11	119206427	119206427	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	179.0	46.0	197.0	0.0	0.256983	0	.	.	none	RNF26,NS,carcinoma,-1,1	RNF26	23	1	NM_032015	exon1	c.G595A	p.A199T	GCCATGGCCATCC	.	PASS	Atlas-SNP
CEP290	80184	hgsc.bcm.edu	37	12	88520192	88520192	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	197.0	56.0	234.0	0.0	0.284264	0	.	.	none	.	CEP290	195	.	NM_025114	exon12	c.T966A	p.D322E	AATTTCATCATCT	.	PASS	Atlas-SNP
SACS	26278	hgsc.bcm.edu	37	13	23910850	23910850	+	Missense_Mutation	SNP	C	C	T	rs142869943	bycluster;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	81.0	44.0	85.0	0.0	0.54321	0	C|1.000;T|0.000	0.000	strong	.	SACS	871	.	NM_014363	exon10	c.G7165A	p.V2389M	CACCCACGGTTTC	.	PASS	Atlas-SNP
ZNF592	9640	hgsc.bcm.edu	37	15	85326939	85326939	+	Missense_Mutation	SNP	C	C	A	rs138966830	bycluster	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	121.0	42.0	117.0	0.0	0.347107	0	A|0.001;C|0.999	0.001	weak	ZNF592,arm,malignant_melanoma,0,1	ZNF592	95	1	NM_014630	exon4	c.C1033A	p.P345T	ATCAAGCCATCGG	.	PASS	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	37	5	90086955	90086955	+	Missense_Mutation	SNP	G	G	A	rs41304892	bycluster;byfrequency;by1000genomes	TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	269.0	115.0	255.0	1.0	0.427509	0.00392157	G|0.997;A|0.003	0.003	strong	.	GPR98	605	.	NM_032119	exon70	c.G14309A	p.R4770H	CGGATCGCCAGTC	.	PASS	Atlas-SNP
BAGE3	85318	hgsc.bcm.edu	37	21	11058316	11058316	+	Missense_Mutation	SNP	G	G	T	rs3877860		TCGA-G8-6909-01A-11D-2210-10	TCGA-G8-6909-14A-01D-2210-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e77b3e68-2caa-4d71-9b83-8c8de72ef6e8	b21ffba7-e2de-4285-baa3-fd0984c6c6ea	238.0	13.0	198.0	0.0	0.0546218	0	.	.	weak	.	.	.	.	NM_182481	exon3	c.C124A	p.H42N	CAAAATGCACATC	.	PASS	Atlas-SNP