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
C10orf71	118461	hgsc.bcm.edu	37	10	50534484	50534486	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	19.0	19.0	0.0	0.0	1.000	.	.	.	none	.	C10orf71	179	.	NM_001135196	exon3	c.3893_3895del	p.1298_1299del	.	.	PASS	Pindel,Atlas-Indel
STAT3	6774	hgsc.bcm.edu	37	17	40475061	40475063	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	16.0	16.0	0.0	0.0	1.000	.	.	.	none	.	STAT3	268	.	NM_003150	exon20	c.1848_1850del	p.616_617del	.	.	PASS	Pindel,Atlas-Indel
KRTAP4-5	85289	hgsc.bcm.edu	37	17	39305774	39305775	+	In_Frame_Ins	INS	-	-	TGGCAGCAGCTGGGG	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	45.0	25.0	46.0	0.0	0.555556	0	.	.	none	KRTAP4-5,NS,carcinoma,0,1	KRTAP4-5	34	1	NM_033188	exon1	c.246_247insCCCCAGCTGCTGCCA	p.Q82delinsHPSCCQ	.	.	PASS	Atlas-Indel
DMKN	93099	hgsc.bcm.edu	37	19	36002421	36002422	+	In_Frame_Ins	INS	-	-	CTGCTGCTG	rs71940230	alternate_allele	TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	47.0	14.0	51.0	0.0	0.297872	0	.	.	alt	DMKN,colon,carcinoma,0,1	DMKN	116	1	NM_033317	exon5	c.810_811insCAGCAGCAG	p.G270delinsGSSS	.	.	PASS	Atlas-Indel
B2M	567	hgsc.bcm.edu	37	15	45007714	45007714	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	67.0	35.0	106.0	1.0	0.522388	0.00943396	.	.	none	B2M,bladder,carcinoma,+1,1	B2M	99	1	NM_004048	exon2	c.A161T	p.D54V	CATCCGACATTGA	.	scavenged	Atlas-SNP
PDHA2	5161	hgsc.bcm.edu	37	4	96761963	96761963	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	47.0	19.0	69.0	0.0	0.404255	0	.	.	none	.	PDHA2	118	.	NM_005390	exon1	c.A662G	p.E221G	TCTGTGAGAATAA	.	PASS	Atlas-SNP
NTM	50863	hgsc.bcm.edu	37	11	132016345	132016345	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	116.0	41.0	110.0	0.0	0.353448	0	.	.	none	.	NTM	253	.	NM_001144059	exon2	c.T337A	p.Y113N	GGCCCTTACACCT	.	PASS	Atlas-SNP
SBSPON	157869	hgsc.bcm.edu	37	8	73993379	73993379	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	170.0	59.0	151.0	1.0	0.347059	0.00662252	.	.	none	C8orf84,NS,carcinoma,-1,1	.	.	1	NM_153225	exon2	c.G284A	p.R95H	CGCACACGGGTTG	.	scavenged	Atlas-SNP
TSPAN31	6302	hgsc.bcm.edu	37	12	58140844	58140844	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	164.0	64.0	130.0	0.0	0.390244	0	.	.	none	.	TSPAN31	20	.	NM_005981	exon5	c.A488C	p.K163T	GAGAAAAGTTTCT	.	PASS	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	37	17	76567366	76567366	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	157.0	64.0	127.0	0.0	0.407643	0	.	.	none	.	DNAH17	347	.	NM_173628	exon5	c.C827T	p.T276I	CCTTCAGTGACGT	.	PASS	Atlas-SNP
IRF8	3394	hgsc.bcm.edu	37	16	85936784	85936784	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	88.0	69.0	75.0	0.0	0.784091	0	.	.	none	IRF8,lymph_node,lymphoid_neoplasm,0,1	IRF8	65	1	NM_002163	exon2	c.T163G	p.S55A	GATGCCTCCATTT	.	PASS	Atlas-SNP
EFHD1	80303	hgsc.bcm.edu	37	2	233546429	233546429	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	45.0	13.0	42.0	0.0	0.288889	0	.	.	none	.	EFHD1	28	.	NM_025202	exon4	c.G720T	p.X240Y	TACATAGTCCTGC	.	PASS	Atlas-SNP
OR10C1	442194	hgsc.bcm.edu	37	6	29407999	29407999	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	74.0	28.0	58.0	0.0	0.378378	0	.	.	none	.	OR10C1	58	.	NM_013941	exon1	c.G207C	p.E69D	CTTGGAGATTGGC	.	PASS	Atlas-SNP
CDKL5	6792	hgsc.bcm.edu	37	X	18671625	18671625	+	Silent	SNP	C	C	G	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	46.0	13.0	44.0	0.0	0.282609	0	.	.	none	.	CDKL5	124	.	NM_003159	exon21	c.C3054G	p.L1018L	TGCGCTCCTGACA	.	PASS	Atlas-SNP
MOS	4342	hgsc.bcm.edu	37	8	57026520	57026520	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	112.0	33.0	144.0	0.0	0.294643	0	.	.	none	.	MOS	63	.	NM_005372	exon1	c.C22T	p.R8C	AGGGGCGTAGGGC	.	PASS	Atlas-SNP
TMEM178B	100507421	hgsc.bcm.edu	37	7	141137460	141137460	+	Silent	SNP	C	C	T	rs13233459	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	4.0	4.0	0.0	0.0	1	.	C|0.785;T|0.215	0.215	strong	.	.	.	.	NM_001195278	exon3	c.C549T	p.L183L	CATCCTCTTTGGC	.	PASS	Atlas-SNP
CTGF	1490	hgsc.bcm.edu	37	6	132271952	132271952	+	Missense_Mutation	SNP	G	G	C	rs7451102	bycluster;byhapmap;by1000genomes	TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	6.0	6.0	0.0	0.0	1	.	G|0.000;C|1.000	1.000	strong	.	CTGF	36	.	NM_001901	exon2	c.C247G	p.H83D	CGAAGTGACAGAA	.	PASS	Atlas-SNP
EPHX2	2053	hgsc.bcm.edu	37	8	27382956	27382956	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	154.0	55.0	115.0	0.0	0.357143	0	.	.	none	EPHX2,NS,carcinoma,-1,1	EPHX2	57	1	NM_001979	exon12	c.C1136T	p.P379L	CCAACCCAGTATT	.	PASS	Atlas-SNP
B2M	567	hgsc.bcm.edu	37	15	45007809	45007809	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	98.0	56.0	147.0	1.0	0.571429	0.00680272	.	.	none	B2M,NS,lymphoid_neoplasm,-2,2	B2M	99	2	NM_004048	exon2	c.T256G	p.Y86D	CTCTTGTACTACA	.	scavenged	Atlas-SNP
KALRN	8997	hgsc.bcm.edu	37	3	124175525	124175525	+	Silent	SNP	C	C	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	174.0	51.0	174.0	0.0	0.293103	0	.	.	none	.	KALRN	556	.	NM_003947	exon23	c.C3798T	p.D1266D	GCGGGACGCCAAC	.	PASS	Atlas-SNP
PPP2CA	5515	hgsc.bcm.edu	37	5	133561476	133561476	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	37.0	17.0	15.0	0.0	0.459459	0	.	.	none	.	PPP2CA	29	.	NM_002715	exon1	c.C77T	p.S26F	ACCTGGGACTCGG	.	PASS	Atlas-SNP
MEGF9	1955	hgsc.bcm.edu	37	9	123367753	123367753	+	Silent	SNP	T	T	C	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	202.0	74.0	205.0	0.0	0.366337	0	.	.	none	.	MEGF9	33	.	NM_001080497	exon6	c.A1524G	p.V508V	CCATGATACATCA	.	PASS	Atlas-SNP
CDH2	1000	hgsc.bcm.edu	37	18	25583075	25583075	+	Silent	SNP	C	C	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	107.0	41.0	148.0	1.0	0.383178	0.00675676	.	.	none	CDH2,right_upper_lobe,carcinoma,-1,2	CDH2	194	2	NM_001792	exon7	c.G906A	p.G302G	CAACATCCCATTG	.	scavenged	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29910609	29910609	+	Missense_Mutation	SNP	G	G	T	rs199474372	alternate_allele	TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	200.0	107.0	174.0	0.0	0.535	0	.	.	alt	.	HLA-A	89	.	NM_001242758	exon2	c.G149T	p.G50V	CCGTGGGCTACGT	.	PASS	Atlas-SNP
CIDEB	27141	hgsc.bcm.edu	37	14	24775219	24775219	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	65.0	23.0	60.0	0.0	0.353846	0	.	.	none	.	CIDEB	17	.	NM_014430	exon6	c.C461T	p.A154V	AATGTGGCTTTGA	.	PASS	Atlas-SNP
RUNX2	860	hgsc.bcm.edu	37	6	45390482	45390482	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	24.0	2.0	17.0	1.0	0.0833333	0.0588235	.	.	none	RUNX2_ENST00000352853,NS,carcinoma,0,2	RUNX2	128	2	NM_001024630	exon3	c.C211G	p.Q71E	CAGCAGCAGGAGG	.	scavenged	Atlas-SNP
RNASE4	6038	hgsc.bcm.edu	37	14	21167775	21167775	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	34.0	8.0	36.0	0.0	0.235294	0	.	.	none	RNASE4,caecum,carcinoma,+1,2	RNASE4	18	2	NM_002937	exon2	c.G245A	p.R82H	ACATTCGTAGTAT	.	PASS	Atlas-SNP
MARCKSL1	65108	hgsc.bcm.edu	37	1	32800454	32800454	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	48.0	13.0	42.0	0.0	0.270833	0	.	.	none	.	MARCKSL1	17	.	NM_023009	exon2	c.A332T	p.E111V	CCACCCTCCTTCC	.	PASS	Atlas-SNP
RASSF9	9182	hgsc.bcm.edu	37	12	86198771	86198771	+	Silent	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	113.0	45.0	133.0	0.0	0.39823	0	.	.	none	.	RASSF9	100	.	NM_005447	exon2	c.C1017T	p.I339I	TTTCTGGATGCCA	.	PASS	Atlas-SNP
CACNA2D4	93589	hgsc.bcm.edu	37	12	1993483	1993483	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	78.0	28.0	71.0	0.0	0.358974	0	.	.	none	.	CACNA2D4	220	.	NM_172364	exon12	c.G1277A	p.R426Q	AAAACTCGGACCT	.	PASS	Atlas-SNP
ZNF709	163051	hgsc.bcm.edu	37	19	12577645	12577645	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	50.0	11.0	78.0	0.0	0.22	0	.	.	none	.	ZNF709	80	.	NM_152601	exon2	c.A23G	p.D8G	GCCACATCCTCAA	.	PASS	Atlas-SNP
HELT	391723	hgsc.bcm.edu	37	4	185941741	185941741	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	21.0	11.0	31.0	0.0	0.52381	0	.	.	none	.	HELT	34	.	NM_001029887	exon4	c.G799A	p.A267T	CCTGGCGCGGCCC	.	PASS	Atlas-SNP
ZC3H4	23211	hgsc.bcm.edu	37	19	47572412	47572412	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	35.0	2.0	45.0	0.0	0.0571429	0	.	.	none	ZC3H4,colon,carcinoma,0,1	ZC3H4	96	1	NM_015168	exon14	c.G2335C	p.E779Q	CCTCCTCCTGCTG	.	scavenged	Atlas-SNP
VPRBP	9730	hgsc.bcm.edu	37	3	51497147	51497147	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	100.0	38.0	83.0	1.0	0.38	0.0120482	.	.	none	VPRBP,colon,carcinoma,+1,1	VPRBP	107	1	NM_014703	exon6	c.G358A	p.V120I	AGACGACAGCAGT	.	scavenged	Atlas-SNP
SALL4	57167	hgsc.bcm.edu	37	20	50408196	50408196	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	29.0	8.0	41.0	0.0	0.275862	0	.	.	none	.	SALL4	168	.	NM_020436	exon2	c.A826C	p.S276R	TCTGGCTGAGCAA	.	PASS	Atlas-SNP
CTSD	1509	hgsc.bcm.edu	37	11	1780809	1780809	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	23.0	7.0	29.0	0.0	0.304348	0	.	.	none	.	CTSD	26	.	NM_001909	exon3	c.G289A	p.D97N	CCGTGTCGAAGAC	.	PASS	Atlas-SNP
AHCYL2	23382	hgsc.bcm.edu	37	7	129028933	129028933	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	180.0	77.0	175.0	1.0	0.427778	0.00571429	.	.	none	AHCYL2,caecum,carcinoma,-1,1	AHCYL2	79	1	NM_015328	exon3	c.C512T	p.S171L	AGACATCGCCCAG	.	scavenged	Atlas-SNP
HYDIN	54768	hgsc.bcm.edu	37	16	70989411	70989411	+	Silent	SNP	G	G	A	rs375756894		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	39.0	12.0	47.0	0.0	0.307692	0	.	.	weak	.	HYDIN	788	.	NM_001270974	exon40	c.C6183T	p.N2061N	GGCTGCGTTGTAG	.	PASS	Atlas-SNP
C5orf42	65250	hgsc.bcm.edu	37	5	37224369	37224369	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	123.0	39.0	156.0	0.0	0.317073	0	.	.	none	.	C5orf42	422	.	NM_023073	exon14	c.A2567G	p.E856G	TCGATTTCTTGTA	.	PASS	Atlas-SNP
GPN3	51184	hgsc.bcm.edu	37	12	110902947	110902947	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	87.0	37.0	94.0	0.0	0.425287	0	.	.	none	.	GPN3	37	.	NM_001164372	exon2	c.C238T	p.P80S	CTGCTGGATCCAG	.	PASS	Atlas-SNP
CRISP3	10321	hgsc.bcm.edu	37	6	49704124	49704124	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	107.0	37.0	125.0	0.0	0.345794	0	.	.	none	.	CRISP3	67	.	NM_001190986	exon3	c.G238T	p.A80S	TTCTGGCAGGGGG	.	PASS	Atlas-SNP
S1PR2	9294	hgsc.bcm.edu	37	19	10334796	10334796	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	18.0	8.0	40.0	0.0	0.444444	0	.	.	none	.	S1PR2	36	.	NM_004230	exon2	c.C786A	p.H262Q	GCAGGAGTGGACG	.	PASS	Atlas-SNP
DACH2	117154	hgsc.bcm.edu	37	X	85403679	85403679	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	121.0	41.0	164.0	0.0	0.338843	0	.	.	none	.	DACH2	263	.	NM_001139514	exon1	c.C55T	p.P19S	GGCGTCCCGGGGG	.	PASS	Atlas-SNP
PNPLA6	10908	hgsc.bcm.edu	37	19	7620541	7620541	+	Silent	SNP	C	C	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	84.0	36.0	70.0	0.0	0.428571	0	.	.	none	.	PNPLA6	163	.	NM_001166111	exon26	c.C3015T	p.V1005V	GGGGGTCCCCGTG	.	PASS	Atlas-SNP
FAM81B	153643	hgsc.bcm.edu	37	5	94764428	94764428	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	195.0	67.0	180.0	1.0	0.34359	0.00555556	.	.	none	FAM81B,NS,carcinoma,0,1	FAM81B	51	1	NM_152548	exon6	c.G778A	p.D260N	AACTTGGACATGA	.	scavenged	Atlas-SNP
PEG3	5178	hgsc.bcm.edu	37	19	57327786	57327786	+	Missense_Mutation	SNP	C	C	G	rs371769465	alternate_allele	TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	181.0	8.0	198.0	0.0	0.0441989	0	.	.	alt	ZIM2_ENST00000326441,NS,carcinoma,0,4	PEG3	414	4	NM_001146184	exon9	c.G2024C	p.R675P	TTCTGACGCCTTT	.	PASS	Atlas-SNP
ZNF547	284306	hgsc.bcm.edu	37	19	57889498	57889498	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	73.0	19.0	63.0	0.0	0.260274	0	.	.	none	ZNF547,NS,carcinoma,0,1	ZNF547	45	1	NM_173631	exon4	c.A1154C	p.K385T	GTGGGAAATTCTT	.	PASS	Atlas-SNP
S1PR2	9294	hgsc.bcm.edu	37	19	10334795	10334795	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	18.0	8.0	40.0	0.0	0.444444	0	.	.	none	.	S1PR2	36	.	NM_004230	exon2	c.T787C	p.S263P	GGCAGGAGTGGAC	.	PASS	Atlas-SNP
ITGAV	3685	hgsc.bcm.edu	37	2	187533626	187533626	+	Silent	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	174.0	60.0	187.0	0.0	0.344828	0	.	.	none	.	ITGAV	124	.	NM_002210	exon25	c.G2571A	p.E857E	TATGGAGATCAAC	.	PASS	Atlas-SNP
SLC25A37	51312	hgsc.bcm.edu	37	8	23429084	23429084	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	86.0	35.0	87.0	0.0	0.406977	0	.	.	none	SLC25A37,NS,carcinoma,0,1	SLC25A37	27	1	NM_016612	exon4	c.G733A	p.G245R	CTGGCCGGGGCCC	.	PASS	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240370997	240370997	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	96.0	64.0	93.0	1.0	0.666667	0.0107527	.	.	none	FMN2,NS,carcinoma,-1,2	FMN2	451	2	NM_020066	exon5	c.C2885A	p.A962E	CCGGGGCAGGCAT	.	scavenged	Atlas-SNP
KIAA0146	23514	hgsc.bcm.edu	37	8	48614293	48614293	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	111.0	40.0	126.0	0.0	0.36036	0	.	.	none	KIAA0146,bladder,carcinoma,+1,1	KIAA0146	64	1	NM_001080394	exon13	c.A1784C	p.H595P	AAACTCATCTGCC	.	PASS	Atlas-SNP
CTGF	1490	hgsc.bcm.edu	37	6	132271959	132271959	+	Silent	SNP	T	T	G	rs12206231	bycluster;byhapmap;by1000genomes	TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	5.0	5.0	0.0	0.0	1	.	T|0.000;G|1.000	1.000	strong	.	CTGF	36	.	NM_001901	exon2	c.A240C	p.L80L	ACAGAATAGGCCC	.	PASS	Atlas-SNP
PTPN3	5774	hgsc.bcm.edu	37	9	112225710	112225710	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	103.0	36.0	99.0	0.0	0.349515	0	.	.	none	.	PTPN3	106	.	NM_001145368	exon2	c.C5G	p.T2S	CGGGAGGTCATAA	.	PASS	Atlas-SNP
SCNN1A	6337	hgsc.bcm.edu	37	12	6471387	6471387	+	Silent	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	97.0	24.0	97.0	0.0	0.247423	0	.	.	none	SCNN1A,NS,adenocarcinoma,-2,1	SCNN1A	54	1	NM_001159576	exon3	c.C882T	p.D294D	GAAGCAGTCCGAT	.	PASS	Atlas-SNP
ZSCAN20	7579	hgsc.bcm.edu	37	1	33956948	33956948	+	Silent	SNP	C	C	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	107.0	42.0	135.0	0.0	0.392523	0	.	.	none	.	ZSCAN20	107	.	NM_145238	exon6	c.C1090T	p.L364L	GAGCAGCTAAGGG	.	PASS	Atlas-SNP
CISD2	493856	hgsc.bcm.edu	37	4	103806567	103806567	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	97.0	34.0	96.0	0.0	0.350515	0	.	.	none	.	CISD2	9	.	NM_001008388	exon2	c.A298T	p.R100W	TATTGTAGGTGTT	.	PASS	Atlas-SNP
ZNF547	284306	hgsc.bcm.edu	37	19	57889497	57889497	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	73.0	20.0	63.0	0.0	0.273973	0	.	.	none	ZNF547,NS,carcinoma,-1,1	ZNF547	45	1	NM_173631	exon4	c.A1153G	p.K385E	TGTGGGAAATTCT	.	PASS	Atlas-SNP
TNN	63923	hgsc.bcm.edu	37	1	175049323	175049323	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	40.0	14.0	32.0	0.0	0.35	0	.	.	none	.	TNN	297	.	NM_022093	exon4	c.T809C	p.L270P	TGCAGCTGCTCAA	.	PASS	Atlas-SNP
ATOH1	474	hgsc.bcm.edu	37	4	94751127	94751127	+	Silent	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	83.0	23.0	74.0	0.0	0.277108	0	.	.	none	.	ATOH1	40	.	NM_005172	exon1	c.G1050A	p.S350S	TGACTCGGATGAG	.	PASS	Atlas-SNP
APOA1	335	hgsc.bcm.edu	37	11	116707093	116707093	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	78.0	32.0	66.0	0.0	0.410256	0	.	.	none	.	APOA1	19	.	NM_000039	exon4	c.T235C	p.S79P	AGGTGGAGGTCAC	.	PASS	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	37	1	216251568	216251568	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	114.0	39.0	130.0	0.0	0.342105	0	.	.	none	.	USH2A	1168	.	NM_206933	exon27	c.T5435G	p.I1812R	GCTGATATGAAAG	.	PASS	Atlas-SNP
MURC	347273	hgsc.bcm.edu	37	9	103348299	103348299	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	115.0	38.0	111.0	0.0	0.330435	0	.	.	none	.	MURC	43	.	NM_001018116	exon2	c.A661T	p.I221F	AACAGAATTAGAA	.	PASS	Atlas-SNP
RASL12	51285	hgsc.bcm.edu	37	15	65347441	65347441	+	Silent	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	49.0	16.0	33.0	0.0	0.326531	0	.	.	none	.	RASL12	32	.	NM_016563	exon5	c.C597T	p.S199S	CTCCTCGGAGATG	.	PASS	Atlas-SNP
CYP2C8	1558	hgsc.bcm.edu	37	10	96802724	96802724	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	133.0	49.0	111.0	0.0	0.368421	0	.	.	none	.	CYP2C8	73	.	NM_000770	exon7	c.T1072C	p.Y358H	CACTGTATCTCTG	.	PASS	Atlas-SNP
LTN1	26046	hgsc.bcm.edu	37	21	30365143	30365143	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	84.0	27.0	85.0	0.0	0.321429	0	.	.	none	.	LTN1	141	.	NM_015565	exon1	c.C122T	p.T41I	GCAGCTGTACTCT	.	PASS	Atlas-SNP
ADAM22	53616	hgsc.bcm.edu	37	7	87765308	87765308	+	Silent	SNP	C	C	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	72.0	19.0	79.0	0.0	0.263889	0	.	.	none	.	ADAM22	280	.	NM_021722	exon14	c.C1182T	p.C394C	TAAATGCGAGGAC	.	PASS	Atlas-SNP
MAGEC1	9947	hgsc.bcm.edu	37	X	140995449	140995449	+	Silent	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	49.0	17.0	52.0	0.0	0.346939	0	.	.	none	.	MAGEC1	317	.	NM_005462	exon4	c.G2259A	p.L753L	TTCTTTGAGTCTT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195515026	195515026	+	Missense_Mutation	SNP	G	G	C	rs200763050		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	87.0	5.0	90.0	0.0	0.0574713	0	G|0.998;C|0.002	0.002	weak	MUC4_ENST00000463781,NS,carcinoma,0,4	MUC4	1505	4	NM_018406	exon2	c.C3425G	p.T1142S	GAGGAAGTGTCGG	.	PASS	Atlas-SNP
NUDT5	11164	hgsc.bcm.edu	37	10	12215729	12215729	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	60.0	21.0	77.0	0.0	0.35	0	.	.	none	.	NUDT5	10	.	NM_014142	exon6	c.G373A	p.E125K	AACATTCGGCAAT	.	PASS	Atlas-SNP
ZWINT	11130	hgsc.bcm.edu	37	10	58120984	58120984	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	27.0	16.0	26.0	0.0	0.592593	0	.	.	none	.	ZWINT	39	.	NM_007057	exon1	c.A14G	p.E5G	TCTGTCTCCGCTG	.	PASS	Atlas-SNP
XIRP1	165904	hgsc.bcm.edu	37	3	39230658	39230658	+	Silent	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	63.0	6.0	63.0	0.0	0.0952381	0	.	.	none	.	XIRP1	173	.	NM_001198621	exon2	c.C279T	p.C93C	GCGCATGCACTGA	.	PASS	Atlas-SNP
FAAH2	158584	hgsc.bcm.edu	37	X	57515299	57515299	+	Silent	SNP	G	G	T	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	130.0	34.0	131.0	0.0	0.261538	0	.	.	none	.	FAAH2	66	.	NM_174912	exon11	c.G1533T	p.L511L	TCATCTGACCCTG	.	PASS	Atlas-SNP
STARD13	90627	hgsc.bcm.edu	37	13	33684064	33684064	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	81.0	32.0	81.0	0.0	0.395062	0	.	.	none	.	STARD13	100	.	NM_178006	exon12	c.A2993T	p.Q998L	ACATACTGGTAGA	.	PASS	Atlas-SNP
TMEM177	80775	hgsc.bcm.edu	37	2	120438454	120438454	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	98.0	37.0	97.0	0.0	0.377551	0	.	.	none	.	TMEM177	26	.	NM_030577	exon2	c.G25A	p.A9T	CGGACCGCAGCAT	.	PASS	Atlas-SNP
MYD88	4615	hgsc.bcm.edu	37	3	38181908	38181908	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	40.0	27.0	37.0	0.0	0.675	0	.	.	none	.	MYD88	900	.	NM_002468	exon3	c.A532G	p.I178V	GCCTTCATCTGCT	.	PASS	Atlas-SNP
ZHX2	22882	hgsc.bcm.edu	37	8	123966206	123966206	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	98.0	50.0	87.0	0.0	0.510204	0	.	.	none	.	ZHX2	106	.	NM_014943	exon3	c.T2456C	p.V819A	AAGGTGTGTCGGA	.	PASS	Atlas-SNP
FCER1G	2207	hgsc.bcm.edu	37	1	161187859	161187859	+	Silent	SNP	C	C	A	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	74.0	24.0	52.0	0.0	0.324324	0	.	.	none	FCER1G,NS,carcinoma,-1,2	FCER1G	11	2	NM_004106	exon2	c.C133A	p.R45R	TACTGTCGACTGA	.	PASS	Atlas-SNP
APBA3	9546	hgsc.bcm.edu	37	19	3751204	3751204	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-RQ-A6JB-01A-11D-A31X-10	TCGA-RQ-A6JB-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	820fd611-7c08-4a0a-8884-6d25954b28f4	47b47ec9-ab7b-47f1-b2f6-e76b3584891f	33.0	10.0	55.0	0.0	0.30303	0	.	.	none	.	APBA3	28	.	NM_004886	exon10	c.A1639C	p.T547P	CCTCGGTGAGCAG	.	PASS	Atlas-SNP