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
SEMA6D	80031	hgsc.bcm.edu	37	15	48058789	48058791	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	116.0	11.0	118.0	0.0	0.0948276	0	.	.	none	.	SEMA6D	322	.	NM_020858	exon16	c.1661_1663del	p.554_555del	.	.	PASS	Atlas-Indel
SRSF1	6426	hgsc.bcm.edu	37	17	56083716	56083717	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	11.0	11.0	0.0	0.0	1.000	.	.	.	none	SRSF1,NS,carcinoma,-1,1	SRSF1	41	1	NM_001078166	exon2	c.367_368del	p.123_123del	.	.	PASS	Pindel,Atlas-Indel
URB1	9875	hgsc.bcm.edu	37	21	33747729	33747731	+	In_Frame_Del	DEL	AAA	AAA	-	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	AAA	AAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	128.0	12.0	136.0	0.0	0.09375	0	.	.	none	.	URB1	176	.	NM_014825	exon6	c.727_729del	p.243_243del	.	.	PASS	Atlas-Indel
CCDC168	643677	hgsc.bcm.edu	37	13	103383805	103383806	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	13.0	13.0	0.0	0.0	1.000	.	.	.	none	.	.	.	.	NM_001146197	exon4	c.19242_19243insA	p.N6414fs	.	.	PASS	Pindel,Atlas-Indel
CXCR5	643	hgsc.bcm.edu	37	11	118765330	118765331	+	Frame_Shift_Del	DEL	TC	TC	-	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	34.0	11.0	31.0	0.0	0.323529	0	.	.	none	.	CXCR5	34	.	NM_001716	exon2	c.1076_1077del	p.359_359del	.	.	PASS	Atlas-Indel
UNK	85451	hgsc.bcm.edu	37	17	73780999	73780999	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	51.0	8.0	57.0	0.0	0.156863	0	.	.	none	.	UNK	87	.	NM_001080419	exon1	c.C38T	p.S13F	CAGCTTCCTCGGC	.	PASS	Atlas-SNP
KCNJ6	3763	hgsc.bcm.edu	37	21	39087049	39087049	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	79.0	9.0	110.0	0.0	0.113924	0	.	.	none	.	KCNJ6	58	.	NM_002240	exon3	c.C411T	p.N137N	GAACCCGTTGAGG	.	PASS	Atlas-SNP
CTSH	1512	hgsc.bcm.edu	37	15	79215405	79215405	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	104.0	14.0	95.0	0.0	0.134615	0	.	.	none	.	CTSH	23	.	NM_004390	exon11	c.T862C	p.Y288H	CTCCATACCCAAC	.	PASS	Atlas-SNP
HPS3	84343	hgsc.bcm.edu	37	3	148863160	148863160	+	Silent	SNP	A	A	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	83.0	7.0	74.0	0.0	0.0843373	0	.	.	none	.	HPS3	104	.	NM_032383	exon5	c.A990G	p.G330G	TGATGGAAAAAAT	.	PASS	Atlas-SNP
HLA-C	3107	hgsc.bcm.edu	37	6	31238202	31238202	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	58.0	5.0	76.0	0.0	0.0862069	0	.	.	none	.	HLA-C	92	.	NM_002117	exon4	c.G680A	p.C227Y	GCCCAGCACCTCA	.	PASS	Atlas-SNP
MPEG1	219972	hgsc.bcm.edu	37	11	58978525	58978525	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	108.0	43.0	67.0	0.0	0.398148	0	.	.	none	.	MPEG1	72	.	NM_001039396	exon1	c.C1814T	p.A605V	GTGGCAGCCTGAC	.	PASS	Atlas-SNP
ZNF575	284346	hgsc.bcm.edu	37	19	44039461	44039461	+	Silent	SNP	G	G	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	76.0	5.0	90.0	1.0	0.0657895	0.0111111	.	.	none	ZNF575,NS,carcinoma,+1,1	ZNF575	14	1	NM_174945	exon4	c.G360T	p.P120P	GCACCCGTGCCCA	.	scavenged	Atlas-SNP
PCDH12	51294	hgsc.bcm.edu	37	5	141324966	141324966	+	Missense_Mutation	SNP	T	T	C	rs62380003	bycluster;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	51.0	14.0	35.0	0.0	0.27451	0	T|0.988;C|0.012	0.012	strong	.	PCDH12	133	.	NM_016580	exon4	c.A3535G	p.S1179G	TGCTGCTGCTGCT	.	PASS	Atlas-SNP
PEX2	5828	hgsc.bcm.edu	37	8	77896279	77896279	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	102.0	8.0	89.0	0.0	0.0784314	0	.	.	none	.	PEX2	44	.	NM_000318	exon4	c.C136T	p.P46S	GCCCAGGTTTAAA	.	PASS	Atlas-SNP
DEFB114	245928	hgsc.bcm.edu	37	6	49928117	49928117	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	97.0	18.0	107.0	0.0	0.185567	0	.	.	none	.	DEFB114	12	.	NM_001037499	exon2	c.A98T	p.Y33F	CGACCGTAACGTT	.	PASS	Atlas-SNP
ATN1	1822	hgsc.bcm.edu	37	12	7045924	7045924	+	Missense_Mutation	SNP	G	G	T	rs199988271	bycluster;alternate_allele	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	36.0	3.0	41.0	2.0	0.0833333	0.0487805	G|0.999;A|0.001	.	alt	ATN1,colon,carcinoma,0,1	ATN1	95	1	NM_001007026	exon5	c.G1494T	p.Q498H	GCAGCAGCAGCAG	.	scavenged	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	37	6	32017196	32017196	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	85.0	4.0	109.0	0.0	0.0470588	0	.	.	none	.	TNXB	553	.	NM_019105	exon28	c.G9602A	p.R3201K	CCGTCCCTGTCCT	.	PASS	Atlas-SNP
TRPM6	140803	hgsc.bcm.edu	37	9	77427256	77427256	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	61.0	5.0	74.0	0.0	0.0819672	0	.	.	none	TRPM6,NS,carcinoma,0,1	TRPM6	377	1	NM_017662	exon12	c.C1402T	p.R468C	GAAAGCGATGGAG	.	scavenged	Atlas-SNP
PHKA1	5255	hgsc.bcm.edu	37	X	71855062	71855062	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	55.0	17.0	49.0	0.0	0.309091	0	.	.	none	.	PHKA1	129	.	NM_001172436	exon16	c.C1657T	p.R553C	GCCAGCGGCTACA	.	PASS	Atlas-SNP
MPEG1	219972	hgsc.bcm.edu	37	11	58978341	58978341	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	138.0	11.0	70.0	0.0	0.0797101	0	.	.	none	.	MPEG1	72	.	NM_001039396	exon1	c.C1998T	p.T666T	CAGAATGGTGGTG	.	PASS	Atlas-SNP
MYH13	8735	hgsc.bcm.edu	37	17	10267752	10267752	+	Silent	SNP	G	G	A	rs189377998	by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	159.0	19.0	193.0	0.0	0.119497	0	G|1.000;A|0.000	0.000	strong	MYH13_ENST00000252172,NS,carcinoma,0,2	MYH13	533	2	NM_003802	exon3	c.C96T	p.F32F	GGAATCGAATGGA	.	PASS	Atlas-SNP
LPHN1	22859	hgsc.bcm.edu	37	19	14288465	14288465	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	48.0	7.0	78.0	0.0	0.145833	0	.	.	none	LPHN1,NS,carcinoma,-1,1	LPHN1	107	1	NM_001008701	exon3	c.C162T	p.D54D	GATGACGTCGCTG	.	PASS	Atlas-SNP
NOM1	64434	hgsc.bcm.edu	37	7	156743222	156743222	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	72.0	3.0	73.0	2.0	0.0416667	0.0273973	.	.	none	NOM1,NS,carcinoma,+1,1	NOM1	73	1	NM_138400	exon1	c.A791G	p.E264G	AGGAGGAGGGAGA	.	scavenged	Atlas-SNP
MPEG1	219972	hgsc.bcm.edu	37	11	58978740	58978740	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	99.0	6.0	67.0	0.0	0.0606061	0	.	.	none	MPEG1,NS,lymphoid_neoplasm,0,2	MPEG1	72	2	NM_001039396	exon1	c.C1599T	p.S533S	TGTGCAGCTAAAG	.	PASS	Atlas-SNP
C21orf62	56245	hgsc.bcm.edu	37	21	34166724	34166724	+	Silent	SNP	T	T	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	63.0	7.0	63.0	0.0	0.111111	0	.	.	none	.	C21orf62	26	.	NM_001162495	exon4	c.A9T	p.P3P	GGAAGGTGGTGCC	.	PASS	Atlas-SNP
ADARB1	104	hgsc.bcm.edu	37	21	46595934	46595934	+	Silent	SNP	G	G	A	rs201356458		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	124.0	16.0	137.0	0.0	0.129032	0	G|0.999;A|0.001	0.001	weak	ADARB1_ENST00000389863,NS,carcinoma,0,4	ADARB1	81	4	NM_001160230	exon4	c.G318A	p.A106A	GCACGCGCCTTTG	.	PASS	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	37	15	63970537	63970537	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	79.0	10.0	79.0	0.0	0.126582	0	.	.	none	.	HERC1	624	.	NM_003922	exon37	c.G6577A	p.G2193S	GTGTGCCACGCAT	.	PASS	Atlas-SNP
HIST1H2BK	85236	hgsc.bcm.edu	37	6	27114250	27114250	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	81.0	9.0	110.0	0.0	0.111111	0	.	.	none	.	HIST1H2BK	68	.	NM_080593	exon1	c.C328T	p.H110Y	CGGCGTGCTTGGC	.	PASS	Atlas-SNP
FCRLB	127943	hgsc.bcm.edu	37	1	161695618	161695618	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	56.0	4.0	67.0	0.0	0.0714286	0	.	.	none	.	FCRLB	35	.	NM_001002901	exon4	c.G315A	p.L105L	TTGGCTGATTCTG	.	PASS	Atlas-SNP
NLRP9	338321	hgsc.bcm.edu	37	19	56244558	56244558	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	84.0	11.0	102.0	0.0	0.130952	0	.	.	none	NLRP9,NS,carcinoma,0,1	NLRP9	163	1	NM_176820	exon2	c.C639T	p.I213I	GTCTTCGATCTTC	.	PASS	Atlas-SNP
CHERP	10523	hgsc.bcm.edu	37	19	16640580	16640580	+	Silent	SNP	T	T	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	28.0	2.0	42.0	0.0	0.0714286	0	.	.	none	CHERP,NS,carcinoma,0,2	CHERP	70	2	NM_006387	exon8	c.A1008G	p.Q336Q	CTGCTGTTGCTGC	.	scavenged	Atlas-SNP
DDX52	11056	hgsc.bcm.edu	37	17	35993354	35993354	+	Silent	SNP	T	T	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	60.0	9.0	70.0	0.0	0.15	0	.	.	none	.	DDX52	40	.	NM_007010	exon3	c.A381C	p.L127L	GGAAGTTAGTTTA	.	PASS	Atlas-SNP
KRT37	8688	hgsc.bcm.edu	37	17	39580747	39580747	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	71.0	6.0	78.0	0.0	0.084507	0	.	.	none	.	KRT37	61	.	NM_003770	exon1	c.G29T	p.C10F	AGAGGGCATGAGG	.	PASS	Atlas-SNP
RBM5	10181	hgsc.bcm.edu	37	3	50154752	50154752	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	88.0	8.0	101.0	0.0	0.0909091	0	.	.	none	.	RBM5	76	.	NM_005778	exon24	c.G2262A	p.M754I	GGCCATGGGCTGG	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	37	11	1092971	1092971	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	43.0	6.0	34.0	2.0	0.139535	0.0588235	.	.	none	MUC2_ENST00000441003,NS,carcinoma,0,1	MUC2	614	1	NM_002457	exon30	c.C4790T	p.T1597I	CCCCAACACCCAC	.	scavenged	Atlas-SNP
RIMS2	9699	hgsc.bcm.edu	37	8	105263836	105263836	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	100.0	12.0	105.0	0.0	0.12	0	.	.	none	RIMS2_ENST00000507740,NS,carcinoma,-2,4	RIMS2	1357	4	NM_001100117	exon24	c.G3838A	p.V1280I	ATCATCGTCTGGG	.	PASS	Atlas-SNP
KIAA1549	57670	hgsc.bcm.edu	37	7	138603173	138603173	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	91.0	9.0	82.0	0.0	0.0989011	0	.	.	none	.	KIAA1549	314	.	NM_020910	exon2	c.C1199T	p.P400L	GGACCGGGGAGGG	.	PASS	Atlas-SNP
DTX1	1840	hgsc.bcm.edu	37	12	113496044	113496044	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	111.0	9.0	153.0	0.0	0.0810811	0	.	.	none	DTX1,NS,lymphoid_neoplasm,0,1	DTX1	83	1	NM_004416	exon1	c.G47A	p.G16D	GTCTGGGCTTCCC	.	PASS	Atlas-SNP
TNFRSF14	8764	hgsc.bcm.edu	37	1	2494626	2494626	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	65.0	13.0	60.0	0.0	0.2	0	.	.	none	.	TNFRSF14	89	.	NM_003820	exon8	c.G766C	p.E256Q	GTCATTGAGGCCC	.	PASS	Atlas-SNP
TAS2R16	50833	hgsc.bcm.edu	37	7	122634960	122634960	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	102.0	8.0	123.0	0.0	0.0784314	0	.	.	none	.	TAS2R16	57	.	NM_016945	exon1	c.A729G	p.I243M	GATGAGTATGGTT	.	PASS	Atlas-SNP
TMPRSS13	84000	hgsc.bcm.edu	37	11	117789317	117789317	+	Silent	SNP	T	T	C	rs201369736		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	56.0	4.0	57.0	1.0	0.0714286	0.0175439	.	.	weak	TMPRSS13,caecum,carcinoma,0,1	TMPRSS13	75	1	NM_001206790	exon2	c.A258G	p.P86P	CCGGGCTGGAGAT	.	scavenged	Atlas-SNP
BTG2	7832	hgsc.bcm.edu	37	1	203276375	203276375	+	Silent	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	57.0	11.0	52.0	0.0	0.192982	0	.	.	none	.	BTG2	16	.	NM_006763	exon2	c.C286T	p.L96L	CAGCTGCTGCCCA	.	PASS	Atlas-SNP
CLCN6	1185	hgsc.bcm.edu	37	1	11879572	11879572	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	98.0	7.0	96.0	1.0	0.0714286	0.0104167	.	.	none	CLCN6,NS,carcinoma,-1,1	CLCN6	77	1	NM_001286	exon5	c.C307T	p.R103X	TTTGTGCGACTCT	.	scavenged	Atlas-SNP
BAZ1A	11177	hgsc.bcm.edu	37	14	35231204	35231204	+	Silent	SNP	A	A	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	140.0	12.0	106.0	0.0	0.0857143	0	.	.	none	.	BAZ1A	128	.	NM_013448	exon24	c.T4002C	p.R1334R	AGTAGAACGACTG	.	PASS	Atlas-SNP
CXCL3	2921	hgsc.bcm.edu	37	4	74904067	74904067	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	155.0	14.0	187.0	0.0	0.0903226	0	.	.	none	.	CXCL3	9	.	NM_002090	exon2	c.A164G	p.K55R	ATGTTCTTGAGGT	.	PASS	Atlas-SNP
PIK3C2G	5288	hgsc.bcm.edu	37	12	18691191	18691191	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	110.0	15.0	109.0	1.0	0.136364	0.00917431	.	.	none	PIK3C2G_ENST00000433979,colon,carcinoma,0,2	PIK3C2G	315	2	NM_004570	exon24	c.G3302A	p.R1101H	GCTGTCGTGCTTA	.	scavenged	Atlas-SNP
GP9	2815	hgsc.bcm.edu	37	3	128780664	128780664	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	75.0	19.0	75.0	1.0	0.253333	0.0133333	.	.	none	GP9,colon,carcinoma,-1,1	GP9	10	1	NM_000174	exon3	c.G82A	p.A28T	TGCCGCGCCCTGG	.	scavenged	Atlas-SNP
COL4A5	1287	hgsc.bcm.edu	37	X	107923951	107923951	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	102.0	22.0	109.0	0.0	0.215686	0	.	.	none	.	COL4A5	262	.	NM_000495	exon43	c.C3967A	p.P1323T	GGAGATCCTGGTC	.	PASS	Atlas-SNP
SPEN	23013	hgsc.bcm.edu	37	1	16235856	16235856	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	96.0	23.0	117.0	0.0	0.239583	0	.	.	none	SPEN,NS,carcinoma,0,2	SPEN	374	2	NM_015001	exon4	c.C922T	p.R308X	CCAGCTCGATCAG	.	PASS	Atlas-SNP
DSEL	92126	hgsc.bcm.edu	37	18	65180409	65180409	+	Silent	SNP	G	G	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	113.0	11.0	121.0	0.0	0.0973451	0	.	.	none	.	DSEL	196	.	NM_032160	exon2	c.C1467A	p.P489P	TCCATTGGGGGCA	.	PASS	Atlas-SNP
ZDHHC17	23390	hgsc.bcm.edu	37	12	77242136	77242136	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	90.0	4.0	104.0	0.0	0.0444444	0	.	.	none	.	ZDHHC17	45	.	NM_015336	exon15	c.G1631T	p.W544L	TCATGTGGGTGGC	.	PASS	Atlas-SNP
EBF1	1879	hgsc.bcm.edu	37	5	158267047	158267047	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	127.0	21.0	123.0	0.0	0.165354	0	.	.	none	EBF1,colon,carcinoma,-1,1	EBF1	110	1	NM_024007	exon7	c.G626T	p.R209L	AATCTCCGCATGT	.	PASS	Atlas-SNP
CCDC170	80129	hgsc.bcm.edu	37	6	151914338	151914338	+	Nonsense_Mutation	SNP	C	C	T	rs201819308	bycluster;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	62.0	8.0	87.0	0.0	0.129032	0	C|1.000;T|0.000	0.000	strong	.	.	.	.	NM_025059	exon8	c.C1390T	p.R464X	TTAGCTCGAACAG	.	PASS	Atlas-SNP
BAZ2A	11176	hgsc.bcm.edu	37	12	56992706	56992706	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	35.0	5.0	39.0	0.0	0.142857	0	.	.	none	.	BAZ2A	263	.	NM_013449	exon28	c.T5498G	p.I1833S	TTGATGATGCGCC	.	PASS	Atlas-SNP
IQCJ	654502	hgsc.bcm.edu	37	3	158980510	158980510	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	109.0	9.0	134.0	0.0	0.0825688	0	.	.	none	.	IQCJ	28	.	NM_001042706	exon4	c.C329A	p.T110K	ACTTGACATTCAA	.	PASS	Atlas-SNP
PRMT2	3275	hgsc.bcm.edu	37	21	48069615	48069615	+	Silent	SNP	C	C	T	rs111614078	bycluster;byfrequency	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	164.0	22.0	128.0	0.0	0.134146	0	C|1.000;T|0.000	0.000	strong	.	PRMT2	48	.	NM_001242864	exon6	c.C618T	p.D206D	GGTGGACGTGCTG	.	PASS	Atlas-SNP
NRXN1	9378	hgsc.bcm.edu	37	2	51254998	51254998	+	Silent	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	53.0	8.0	50.0	0.0	0.150943	0	.	.	none	.	NRXN1	1118	.	NM_004801	exon2	c.G414A	p.V138V	GACCTCCACCCAC	.	PASS	Atlas-SNP
EPHB6	2051	hgsc.bcm.edu	37	7	142564346	142564346	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	57.0	6.0	55.0	0.0	0.105263	0	.	.	none	EPHB6,NS,carcinoma,0,1	EPHB6	168	1	NM_004445	exon10	c.C1570T	p.R524C	CAGCTCCGCTACT	.	scavenged	Atlas-SNP
SLC37A3	84255	hgsc.bcm.edu	37	7	140055490	140055490	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	48.0	6.0	50.0	0.0	0.125	0	.	.	none	.	SLC37A3	80	.	NM_207113	exon7	c.C596A	p.S199Y	AGAACAGAAGAAG	.	PASS	Atlas-SNP
ANGPT4	51378	hgsc.bcm.edu	37	20	865839	865839	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	65.0	9.0	88.0	0.0	0.138462	0	.	.	none	.	ANGPT4	77	.	NM_015985	exon4	c.C717T	p.R239R	CAGGCCGCGCTCG	.	PASS	Atlas-SNP
HYDIN	54768	hgsc.bcm.edu	37	16	71004449	71004449	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	51.0	5.0	51.0	0.0	0.0980392	0	.	.	none	LOC652153,NS,carcinoma,0,1	HYDIN	788	1	NM_001270974	exon36	c.G5593T	p.D1865Y	GCTGATCAAATTC	.	scavenged	Atlas-SNP
INTS3	65123	hgsc.bcm.edu	37	1	153719499	153719499	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	87.0	11.0	87.0	0.0	0.126437	0	.	.	none	INTS3,NS,carcinoma,0,1	INTS3	83	1	NM_023015	exon4	c.A385G	p.I129V	AACCAGATACTTA	.	PASS	Atlas-SNP
NOTCH2	4853	hgsc.bcm.edu	37	1	120458147	120458147	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	53.0	17.0	64.0	1.0	0.320755	0.015625	.	.	none	NOTCH2,NS,lymphoid_neoplasm,0,26	NOTCH2	348	26	NM_024408	exon34	c.C7198T	p.R2400X	GTGTTCGCTCAGC	.	scavenged	Atlas-SNP
ARAP1	116985	hgsc.bcm.edu	37	11	72408662	72408662	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	87.0	7.0	75.0	0.0	0.0804598	0	.	.	none	.	ARAP1	168	.	NM_001040118	exon20	c.G2770A	p.V924M	CCAGCACCAGCAC	.	PASS	Atlas-SNP
ZNF324	25799	hgsc.bcm.edu	37	19	58983107	58983107	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	77.0	9.0	105.0	0.0	0.116883	0	.	.	none	.	ZNF324	46	.	NM_014347	exon4	c.G1248A	p.Q416Q	GCACCAGCGCGTG	.	PASS	Atlas-SNP
THSD7A	221981	hgsc.bcm.edu	37	7	11676123	11676123	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	53.0	7.0	40.0	0.0	0.132075	0	.	.	none	.	THSD7A	219	.	NM_015204	exon2	c.G656A	p.R219H	ACATGACGCGTCC	.	PASS	Atlas-SNP
KCTD3	51133	hgsc.bcm.edu	37	1	215759865	215759865	+	Silent	SNP	A	A	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	98.0	8.0	123.0	0.0	0.0816327	0	.	.	none	.	KCTD3	101	.	NM_016121	exon9	c.A654G	p.Q218Q	GCAGCAAGTGTTT	.	PASS	Atlas-SNP
LRIG2	9860	hgsc.bcm.edu	37	1	113655236	113655236	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	70.0	3.0	115.0	1.0	0.0428571	0.00869565	.	.	none	LRIG2,NS,lymphoid_neoplasm,0,1	LRIG2	67	1	NM_014813	exon14	c.C1934T	p.A645V	TTCCTGCGGCTCG	.	scavenged	Atlas-SNP
AHCYL2	23382	hgsc.bcm.edu	37	7	129064932	129064932	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	66.0	14.0	48.0	0.0	0.212121	0	.	.	none	.	AHCYL2	79	.	NM_015328	exon15	c.C1658T	p.A553V	ACAATGCTCCTGA	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49427102	49427102	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	41.0	7.0	43.0	0.0	0.170732	0	.	.	none	.	MLL2	1173	.	NM_003482	exon39	c.C11386T	p.Q3796X	GCCCCTGGGGTGG	.	PASS	Atlas-SNP
IFT80	57560	hgsc.bcm.edu	37	3	159998476	159998476	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	119.0	12.0	127.0	0.0	0.10084	0	.	.	none	IFT80,colon,carcinoma,0,1	IFT80	68	1	NM_020800	exon15	c.C1643T	p.T548I	TATAATGTTTTAG	.	PASS	Atlas-SNP
TMPRSS13	84000	hgsc.bcm.edu	37	11	117789345	117789345	+	Missense_Mutation	SNP	G	G	C	rs61900347	bycluster;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	52.0	7.0	76.0	0.0	0.134615	0	G|0.899;C|0.101	0.101	strong	TMPRSS13_ENST00000445164,NS,carcinoma,0,2	TMPRSS13	75	2	NM_001206790	exon2	c.C230G	p.A77G	GCCTGGGCTGGAG	.	PASS	Atlas-SNP
NUP210	23225	hgsc.bcm.edu	37	3	13427859	13427859	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	64.0	10.0	87.0	0.0	0.15625	0	.	.	none	.	NUP210	182	.	NM_024923	exon6	c.C733T	p.L245L	GGTTCAGAAGGAT	.	PASS	Atlas-SNP
COPRS	55352	hgsc.bcm.edu	37	17	30179882	30179882	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	84.0	16.0	94.0	2.0	0.190476	0.0212766	.	.	none	C17orf79,colon,carcinoma,+1,1	.	.	1	NM_018405	exon3	c.T334G	p.F112V	CATTAAAAAGATC	.	scavenged	Atlas-SNP
DUSP2	1844	hgsc.bcm.edu	37	2	96810531	96810531	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	51.0	6.0	84.0	0.0	0.117647	0	.	.	none	.	DUSP2	20	.	NM_004418	exon2	c.G479A	p.R160H	TCGGAGCGGCTGG	.	PASS	Atlas-SNP
AURKB	9212	hgsc.bcm.edu	37	17	8108196	8108196	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	42.0	6.0	40.0	0.0	0.142857	0	.	.	none	.	AURKB	47	.	NM_004217	exon9	c.T1028C	p.V343A	CAGGCGACAGATT	.	PASS	Atlas-SNP
PISD	23761	hgsc.bcm.edu	37	22	32015667	32015667	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	90.0	13.0	91.0	0.0	0.144444	0	.	.	none	.	PISD	53	.	NM_014338	exon9	c.C1059T	p.P353P	GTCCTTGGGGGCC	.	PASS	Atlas-SNP
MTMR11	10903	hgsc.bcm.edu	37	1	149906097	149906097	+	Missense_Mutation	SNP	C	C	T	rs143590446	bycluster;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	52.0	11.0	48.0	0.0	0.211538	0	C|1.000;T|0.000	0.000	strong	.	MTMR11	136	.	NM_001145862	exon7	c.G670A	p.D224N	CTACGTCGAACCT	.	PASS	Atlas-SNP
CBLB	868	hgsc.bcm.edu	37	3	105495385	105495385	+	Nonsense_Mutation	SNP	G	G	A	rs369966206		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	64.0	12.0	90.0	0.0	0.1875	0	.	.	weak	CBLB,NS,carcinoma,+1,3	CBLB	118	3	NM_170662	exon4	c.C421T	p.R141X	GATTTCGTCTGTA	.	PASS	Atlas-SNP
TMPRSS13	84000	hgsc.bcm.edu	37	11	117789327	117789327	+	Missense_Mutation	SNP	T	T	C	rs61900346	bycluster;byfrequency;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	63.0	8.0	55.0	1.0	0.126984	0.0181818	T|0.814;C|0.186	0.186	strong	TMPRSS13_ENST00000445164,NS,carcinoma,0,4	TMPRSS13	75	4	NM_001206790	exon2	c.A248G	p.Q83R	GATGCCTGGGCTG	.	scavenged	Atlas-SNP
FLG	2312	hgsc.bcm.edu	37	1	152278749	152278749	+	Silent	SNP	T	T	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	110.0	11.0	110.0	0.0	0.1	0	.	.	none	.	FLG	900	.	NM_002016	exon3	c.A8613C	p.S2871S	TGCCTGTGAGTGT	.	PASS	Atlas-SNP
GOLGA6L6	727832	hgsc.bcm.edu	37	15	20740191	20740191	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	81.0	5.0	94.0	0.0	0.0617284	0	.	.	none	GOLGA6L6,NS,carcinoma,-1,2	GOLGA6L6	37	2	NM_001145004	exon8	c.G1559T	p.R520L	TGCTCCCGTATCT	.	scavenged	Atlas-SNP
CLCN3	1182	hgsc.bcm.edu	37	4	170616831	170616831	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	55.0	8.0	72.0	0.0	0.145455	0	.	.	none	.	CLCN3	85	.	NM_001829	exon8	c.T1005G	p.F335L	TCTTTTTAGCCTG	.	PASS	Atlas-SNP
KDM2B	84678	hgsc.bcm.edu	37	12	121882313	121882313	+	Silent	SNP	G	G	A	rs34911648	bycluster;byfrequency;by1000genomes	TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	52.0	11.0	58.0	0.0	0.211538	0	G|0.990;A|0.010	0.010	strong	.	KDM2B	218	.	NM_032590	exon15	c.C2130T	p.N710N	CTCGTCGTTGACC	.	PASS	Atlas-SNP
NF1	4763	hgsc.bcm.edu	37	17	29528446	29528446	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	312.0	30.0	276.0	0.0	0.0961538	0	.	.	none	.	NF1	1586	.	NM_001128147	exon11	c.T1203A	p.N401K	TCAGAATTCACCT	.	PASS	Atlas-SNP
SIRT4	23409	hgsc.bcm.edu	37	12	120750455	120750455	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	70.0	9.0	94.0	0.0	0.128571	0	.	.	none	SIRT4,colon,carcinoma,0,1	SIRT4	29	1	NM_012240	exon3	c.G694A	p.V232I	GATGTCGTTTTCT	.	PASS	Atlas-SNP
TMEM130	222865	hgsc.bcm.edu	37	7	98449156	98449156	+	Silent	SNP	C	C	G	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	46.0	5.0	66.0	2.0	0.108696	0.030303	.	.	none	TMEM130,NS,carcinoma,0,1	TMEM130	54	1	NM_152913	exon6	c.G894C	p.A298A	GTTGTACGCTGTG	.	scavenged	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	7049165	7049165	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	113.0	14.0	123.0	0.0	0.123894	0	.	.	none	.	LAMA1	458	.	NM_005559	exon5	c.G680A	p.R227H	TGCAAGCGAAGGC	.	PASS	Atlas-SNP
LPHN1	22859	hgsc.bcm.edu	37	19	14266282	14266282	+	Silent	SNP	G	G	A	novel		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	88.0	17.0	101.0	0.0	0.193182	0	.	.	none	.	LPHN1	107	.	NM_001008701	exon19	c.C3198T	p.F1066F	GAGGCCGAAAGCC	.	PASS	Atlas-SNP
SBF1	6305	hgsc.bcm.edu	37	22	50887015	50887015	+	Missense_Mutation	SNP	C	C	T	rs367954544		TCGA-FA-A4BB-01A-11D-A31X-10	TCGA-FA-A4BB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	698b2e1b-0389-4dd2-a8bd-1499e0912f11	c1a1aa05-7d9f-41a8-b682-776d11b54183	33.0	4.0	18.0	0.0	0.121212	0	.	.	weak	.	SBF1	211	.	NM_002972	exon37	c.G5108A	p.R1703Q	TTCACCCGGTCCC	.	PASS	Atlas-SNP