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	COSMIC_Codon	COSMIC_Gene	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	TTotCov	TVarCov	NTotCov	NVarCov	dbSNPPopFreq	COSMIC_Gene_Freq	COSMIC_Site_Freq	TVarRat	NVarRat	dbSNP_Strength	dbSNP_AF	dbSNP_PopFreq	Confidence	Algorithm
AMY2B	280	hgsc.bcm.edu	hg19	1	104122036	104122036	+	Missense_Mutation	SNP	G	G	A	rs143243690		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	AMY2B	NM_020978	exon12	c.G1450A	p.V484I	ATCTACGTTTCTG	.	1115.0	198.0	735.0	1.0	.	80	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
LRIG2	9860	hgsc.bcm.edu	hg19	1	113616063	113616063	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	LRIG2	NM_014813	exon1	c.A35T	p.Q12L	AGGAGCAGTTGCT	.	352.0	123.0	320.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA0907	22889	hgsc.bcm.edu	hg19	1	155899153	155899153	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	KIAA0907	NM_014949	exon4	c.G398C	p.S133T	GCCCCACTAAGTC	.	139.0	52.0	88.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
USF1	7391	hgsc.bcm.edu	hg19	1	161011569	161011569	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	USF1	NM_001276373	exon6	c.A344G	p.H115R	GTATAGTGCGTCT	.	141.0	13.0	123.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
IMMT	10989	hgsc.bcm.edu	hg19	2	86371415	86371415	+	Silent	SNP	T	T	G	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	IMMT	NM_006839	exon15	c.A2253C	p.G751G	AGTGGTTCCTATT	.	101.0	40.0	94.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
VWC2L	402117	hgsc.bcm.edu	hg19	2	215440518	215440518	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	VWC2L	NM_001080500	exon4	c.G643T	p.E215X	AAACGTGAATGCC	.	305.0	93.0	211.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
OGG1	4968	hgsc.bcm.edu	hg19	3	9798228	9798228	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	OGG1	NM_016819	exon5	c.T821A	p.I274N	GGCACATTGCCCA	.	79.0	31.0	77.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
RAF1	5894	hgsc.bcm.edu	hg19	3	12633229	12633229	+	Missense_Mutation	SNP	T	T	A	rs368807126		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	RAF1	NM_002880	exon11	c.A1171T	p.R391W	CATTCCTGAAGGC	.	102.0	31.0	77.0	0.0	.	66	.	.	.	weak	.	.	PASS	Atlas-SNP
TOP2B	7155	hgsc.bcm.edu	hg19	3	25646332	25646332	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	TOP2B,rectum,carcinoma,0,1	TOP2B	NM_001068	exon33	c.G4393T	p.D1465Y	CAGAATCTTCTTC	.	142.0	54.0	82.0	1.0	.	98	.	.	.	none	.	.	PASS	Atlas-SNP
SCN10A	6336	hgsc.bcm.edu	hg19	3	38835251	38835251	+	Missense_Mutation	SNP	G	G	A	rs140609990	bycluster	TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	SCN10A	NM_006514	exon1	c.C251T	p.P84L	TAGAACGGATCTA	.	316.0	94.0	212.0	0.0	.	359	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
ATP6V1A	523	hgsc.bcm.edu	hg19	3	113503595	113503595	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	ATP6V1A	NM_001690	exon5	c.C479G	p.S160W	AGAACTCGCTTAT	.	171.0	58.0	125.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
RUFY3	22902	hgsc.bcm.edu	hg19	4	71659564	71659564	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	RUFY3	NM_001037442	exon13	c.A1400G	p.D467G	AACAGGACTTTGG	.	99.0	34.0	83.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
TIGD2	166815	hgsc.bcm.edu	hg19	4	90035227	90035227	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	TIGD2	NM_145715	exon1	c.G1102T	p.E368X	ATTTATGAAGTGT	.	103.0	31.0	54.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
PCDH18	54510	hgsc.bcm.edu	hg19	4	138450855	138450855	+	Silent	SNP	G	G	A	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	PCDH18	NM_019035	exon1	c.C2388T	p.H796H	ACTGTTGTGACTC	.	97.0	44.0	69.0	0.0	.	229	.	.	.	none	.	.	PASS	Atlas-SNP
ABCE1	6059	hgsc.bcm.edu	hg19	4	146041306	146041306	+	Splice_Site	SNP	G	G	A	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	ABCE1	NM_002940	exon11	c.1144+1G>A	.	AAAATGGTAAGTT	.	95.0	33.0	62.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
DDR1	780	hgsc.bcm.edu	hg19	6	30857025	30857025	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	DDR1	NM_001202523	exon4	c.G289A	p.V97M	GGGTCGGTGTTTC	.	482.0	150.0	384.0	0.0	.	213	.	.	.	none	.	.	PASS	Atlas-SNP
PREP	5550	hgsc.bcm.edu	hg19	6	105825364	105825364	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	PREP,NS,carcinoma,0,1	PREP	NM_002726	exon3	c.G151C	p.V51L	ATGGCACAGTAAT	.	173.0	62.0	100.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
ROS1	6098	hgsc.bcm.edu	hg19	6	117622147	117622147	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	ROS1	NM_002944	exon42	c.A6723C	p.E2241D	AAAGCTTTCATTT	.	109.0	38.0	76.0	0.0	.	728	.	.	.	none	.	.	PASS	Atlas-SNP
POLM	27434	hgsc.bcm.edu	hg19	7	44121926	44121926	+	Missense_Mutation	SNP	G	G	T	rs375526665		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	POLM	NM_013284	exon1	c.C112A	p.R38S	CCATGCGAGGCTC	.	22.0	7.0	14.0	0.0	.	50	.	.	.	weak	.	.	PASS	Atlas-SNP
ASB15	142685	hgsc.bcm.edu	hg19	7	123264837	123264837	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	ASB15	NM_080928	exon6	c.C666A	p.H222Q	TGGTCACTGTGAC	.	83.0	35.0	61.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
MGAM	8972	hgsc.bcm.edu	hg19	7	141800677	141800677	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	MGAM	NM_004668	exon45	c.T5262G	p.D1754E	GGATGATGGGCAA	.	52.0	26.0	32.0	0.0	.	767	.	.	.	none	.	.	PASS	Atlas-SNP
SNTB1	6641	hgsc.bcm.edu	hg19	8	121587444	121587444	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	SNTB1	NM_021021	exon4	c.C1018T	p.Q340X	TCCACTGTTTCTT	.	219.0	62.0	170.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
COL17A1	1308	hgsc.bcm.edu	hg19	10	105793764	105793764	+	Silent	SNP	A	A	G	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	COL17A1	NM_000494	exon52	c.T4095C	p.A1365A	AAAGTCAGCTCCC	.	140.0	42.0	122.0	0.0	.	149	.	.	.	none	.	.	PASS	Atlas-SNP
PTPRE	5791	hgsc.bcm.edu	hg19	10	129859261	129859261	+	Silent	SNP	C	C	A	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	PTPRE	NM_006504	exon8	c.C570A	p.I190I	CTACATCAATGCT	.	109.0	38.0	87.0	0.0	.	132	.	.	.	none	.	.	PASS	Atlas-SNP
PAOX	196743	hgsc.bcm.edu	hg19	10	135193909	135193909	+	Silent	SNP	C	C	T	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	PAOX	NM_207128	exon2	c.C588T	p.G196G	GAGCGGCACCCAC	.	83.0	7.0	73.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
GYS2	2998	hgsc.bcm.edu	hg19	12	21757442	21757442	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	GYS2	NM_021957	exon1	c.C85A	p.L29M	AGAGCAGTAACTC	.	346.0	175.0	207.0	0.0	.	110	.	.	.	none	.	.	PASS	Atlas-SNP
TSFM	10102	hgsc.bcm.edu	hg19	12	58177005	58177005	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	TSFM	NM_005726	exon2	c.C170T	p.T57I	GGAAAACAGGCTA	.	337.0	96.0	215.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC63	160762	hgsc.bcm.edu	hg19	12	111321841	111321841	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	CCDC63	NM_152591	exon8	c.G861C	p.K287N	TCTCAAGGCAAAG	.	296.0	144.0	170.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
PTPN11	5781	hgsc.bcm.edu	hg19	12	112892458	112892458	+	Silent	SNP	T	T	C	rs78376169	bycluster	TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	PTPN11,NS,carcinoma,0,2	PTPN11	NM_080601	exon5	c.T616C	p.L206L	GAAACATTGGGTA	.	120.0	6.0	61.0	0.0	.	623	.	.	.	weak	.	.	PASS	Atlas-SNP
MYH7	4625	hgsc.bcm.edu	hg19	14	23886422	23886422	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	MYH7	NM_000257	exon32	c.G4459A	p.A1487T	CATAGGCGTTCTT	.	257.0	77.0	234.0	0.0	.	349	.	.	.	none	.	.	PASS	Atlas-SNP
PLCB2	5330	hgsc.bcm.edu	hg19	15	40594160	40594160	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	PLCB2	NM_004573	exon7	c.A580T	p.K194X	TCACTTTGCCTTT	.	72.0	21.0	99.0	0.0	.	177	.	.	.	none	.	.	PASS	Atlas-SNP
GLDN	342035	hgsc.bcm.edu	hg19	15	51693835	51693835	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	GLDN	NM_181789	exon9	c.G1073A	p.G358D	TGAATGGCAGTTA	.	197.0	76.0	176.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
VPS13C	54832	hgsc.bcm.edu	hg19	15	62221845	62221845	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	VPS13C	NM_020821	exon51	c.G6141C	p.K2047N	ATACAGCTTGTCA	.	82.0	30.0	76.0	0.0	.	506	.	.	.	none	.	.	PASS	Atlas-SNP
MYO9A	4649	hgsc.bcm.edu	hg19	15	72192125	72192125	+	Silent	SNP	T	T	G	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	MYO9A	NM_006901	exon24	c.A3373C	p.R1125R	TCCATCTTGCTTG	.	123.0	46.0	97.0	0.0	.	203	.	.	.	none	.	.	PASS	Atlas-SNP
SLX4	84464	hgsc.bcm.edu	hg19	16	3641173	3641173	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	SLX4	NM_032444	exon12	c.G2466C	p.M822I	TGCCCACATTGAC	.	291.0	79.0	247.0	0.0	.	173	.	.	.	none	.	.	PASS	Atlas-SNP
SRCAP	10847	hgsc.bcm.edu	hg19	16	30732089	30732089	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	SRCAP	NM_006662	exon20	c.C3043A	p.P1015T	AACAACCCACGGG	.	275.0	93.0	223.0	0.0	.	298	.	.	.	none	.	.	PASS	Atlas-SNP
ZZEF1	23140	hgsc.bcm.edu	hg19	17	3953114	3953114	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	ZZEF1	NM_015113	exon37	c.G5903A	p.G1968E	GAGTCCCCATCTG	.	170.0	54.0	111.0	0.0	.	195	.	.	.	none	.	.	PASS	Atlas-SNP
QRICH2	84074	hgsc.bcm.edu	hg19	17	74283337	74283337	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	QRICH2	NM_032134	exon7	c.A3449T	p.Q1150L	CTGTCTTGGCTCT	.	118.0	31.0	74.0	0.0	.	143	.	.	.	none	.	.	PASS	Atlas-SNP
TBCD	6904	hgsc.bcm.edu	hg19	17	80888515	80888515	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	TBCD	NM_005993	exon33	c.G3109C	p.E1037Q	CTGAATGAGAGGT	.	106.0	27.0	60.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
HDHD2	84064	hgsc.bcm.edu	hg19	18	44662721	44662721	+	Silent	SNP	T	T	C	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	HDHD2	NM_032124	exon2	c.A90G	p.E30E	AAGAGCTTCCTGT	.	221.0	83.0	159.0	0.0	.	12	.	.	.	none	.	.	PASS	Atlas-SNP
MYO5B	4645	hgsc.bcm.edu	hg19	18	47500737	47500737	+	Silent	SNP	C	C	T	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	MYO5B	NM_001080467	exon10	c.G1305A	p.G435G	CAGGACCCCGATG	.	92.0	35.0	108.0	0.0	.	178	.	.	.	none	.	.	PASS	Atlas-SNP
RFX2	5990	hgsc.bcm.edu	hg19	19	6013026	6013026	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	RFX2	NM_000635	exon8	c.G870A	p.M290I	CTGCCGCATGGCC	.	320.0	119.0	279.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF99	7652	hgsc.bcm.edu	hg19	19	22940806	22940806	+	Silent	SNP	G	G	A	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	ZNF99,NS,carcinoma,0,1	ZNF99	NM_001080409	exon4	c.C1905T	p.T635T	TCTAAGGGTTGAG	.	118.0	6.0	95.0	1.0	.	273	.	.	.	none	.	.	PASS	Atlas-SNP
GIPR	2696	hgsc.bcm.edu	hg19	19	46184876	46184876	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	GIPR	NM_000164	exon13	c.C1167G	p.S389R	GGTCAGCGTCCTC	.	99.0	30.0	96.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
SIGLEC9	27180	hgsc.bcm.edu	hg19	19	51633170	51633170	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	SIGLEC9	NM_014441	exon7	c.C1226G	p.A409G	CTTGGGCAGAAGA	.	142.0	38.0	141.0	0.0	.	85	.	.	.	none	.	.	PASS	Atlas-SNP
CD40	958	hgsc.bcm.edu	hg19	20	44757638	44757638	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	CD40	NM_001250	exon9	c.G793C	p.D265H	CAGGAGGATGGCA	.	208.0	43.0	120.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
ZNFX1	57169	hgsc.bcm.edu	hg19	20	47887763	47887763	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	ZNFX1	NM_021035	exon3	c.A586G	p.S196G	TGGAGCTACAAGC	.	306.0	151.0	183.0	0.0	.	194	.	.	.	none	.	.	PASS	Atlas-SNP
GNAZ	2781	hgsc.bcm.edu	hg19	22	23438484	23438484	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	GNAZ,NS,carcinoma,-1,1	GNAZ	NM_002073	exon2	c.A602G	p.D201G	TGGTGGACGTGGG	.	228.0	69.0	247.0	1.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
CABIN1	23523	hgsc.bcm.edu	hg19	22	24447425	24447425	+	Silent	SNP	T	T	A	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	CABIN1	NM_001199281	exon8	c.T795A	p.I265I	GCCCATTCCTTTC	.	56.0	24.0	58.0	0.0	.	153	.	.	.	none	.	.	PASS	Atlas-SNP
DEPDC5	9681	hgsc.bcm.edu	hg19	22	32193641	32193641	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	DEPDC5	NM_001242897	exon13	c.A823T	p.K275X	ACCATTAAAAAAC	.	69.0	28.0	58.0	0.0	.	266	.	.	.	none	.	.	PASS	Atlas-SNP
SOX10	6663	hgsc.bcm.edu	hg19	22	38374016	38374016	+	Silent	SNP	C	C	T	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	SOX10	NM_006941	exon3	c.G555A	p.Q185Q	CTCGCCCTGGGCG	.	67.0	19.0	65.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
MXRA5	25878	hgsc.bcm.edu	hg19	X	3238719	3238719	+	Silent	SNP	A	A	G	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	MXRA5	NM_015419	exon5	c.T5007C	p.S1669S	TGTTGTACTTGAT	.	292.0	220.0	221.0	0.0	.	815	.	.	.	none	.	.	PASS	Atlas-SNP
CTPS2	56474	hgsc.bcm.edu	hg19	X	16685795	16685795	+	Silent	SNP	A	A	C	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	CTPS2	NM_001144002	exon12	c.T1242G	p.L414L	CAAGTTAAGGCAG	.	85.0	58.0	67.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
C10orf12	26148	hgsc.bcm.edu	hg19	10	98741324	98741326	+	In_Frame_Del	DEL	TTT	TTT	-	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	TTT	TTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	C10orf12	NM_015652	exon1	c.176_178del	p.59_60del	.	.	108.0	37.0	79.0	0.0	.	94	.	0.342593	0	none	.	.	PASS	Atlas-INDEL
OGG1	4968	hgsc.bcm.edu	hg19	3	9798226	9798227	+	Frame_Shift_Ins	INS	-	-	AA	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	OGG1	NM_016821	exon5	c.819_820insAA	p.H273fs	.	.	86.0	28.0	80.0	0.0	.	57	.	0.325581	0	none	.	.	PASS	Atlas-INDEL
ANAPC5	51433	hgsc.bcm.edu	hg19	12	121746455	121746458	+	Frame_Shift_Del	DEL	TTCT	TTCT	-	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	TTCT	TTCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	ANAPC5	NM_016237	exon17	c.2094_2097del	p.698_699del	.	.	299.0	132.0	220.0	0.0	.	60	.	0.441472	0	none	.	.	PASS	Atlas-INDEL
GIGYF2	26058	hgsc.bcm.edu	hg19	2	233681733	233681734	+	Frame_Shift_Ins	INS	-	-	AGGAAAC	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	GIGYF2	NM_001103147	exon22	c.2424_2425insAGGAAAC	p.R808fs	.	.	323.0	45.0	261.0	0.0	.	288	.	0.139319	0	none	.	.	PASS	Atlas-INDEL
RAB27B	5874	hgsc.bcm.edu	hg19	18	52555227	52555230	+	Frame_Shift_Del	DEL	CCAA	CCAA	-	novel		TCGA-B3-3925-01A-01D-1458-08	TCGA-B3-3925-10A-01D-1458-08	CCAA	CCAA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	5bb6b194-3bad-4d65-8345-c5a0161b4a0f	acd62c81-b9cd-47ac-b708-52546a54aa37	.	RAB27B	NM_004163	exon5	c.344_347del	p.115_116del	.	.	199.0	39.0	131.0	0.0	.	24	.	0.19598	0	none	.	.	PASS	Atlas-INDEL
