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
ARHGEF19	128272	hgsc.bcm.edu	hg19	1	16532674	16532674	+	Splice_Site	SNP	C	C	T	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	ARHGEF19	NM_153213	exon8	c.1298+1G>A	.	TCTTCACCTCTCG	.	108.0	7.0	111.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
OLFML2B	25903	hgsc.bcm.edu	hg19	1	161953624	161953624	+	Nonsense_Mutation	SNP	G	G	T	rs150437510	bycluster;byfrequency;alternate_allele	TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	OLFML2B	NM_015441	exon8	c.C2094A	p.Y698X	GAAAGCGTAGGAG	.	197.0	13.0	200.0	0.0	.	114	.	.	.	alt	G|1.000;A|0.000	.	PASS	Atlas-SNP
MPC2	25874	hgsc.bcm.edu	hg19	1	167893755	167893755	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	.	NM_001143674	exon3	c.T130C	p.W44R	GAGCCCAGAAGAA	.	550.0	24.0	552.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF142	7701	hgsc.bcm.edu	hg19	2	219508733	219508733	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	ZNF142	NM_001105537	exon8	c.T2506A	p.F836I	AGCGGAAGGCTCG	.	126.0	10.0	159.0	0.0	.	190	.	.	.	none	.	.	PASS	Atlas-SNP
C3orf80	401097	hgsc.bcm.edu	hg19	3	159943902	159943902	+	Silent	SNP	T	T	C	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	C3orf80	NM_001168214	exon1	c.T480C	p.S160S	GGACAGTGGCGGC	.	6.0	5.0	0.0	0.0	.	1	.	.	.	none	.	.	PASS	Atlas-SNP
CXXC4	80319	hgsc.bcm.edu	hg19	4	105412357	105412357	+	Silent	SNP	T	T	C	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	CXXC4	NM_025212	exon2	c.A603G	p.L201L	AGGGGATAAGGTG	.	90.0	7.0	78.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
RUNX2	860	hgsc.bcm.edu	hg19	6	45390445	45390445	+	Silent	SNP	A	A	G	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	RUNX2_ENST00000352853,lower_third,carcinoma,0,2	RUNX2	NM_001024630	exon3	c.A174G	p.Q58Q	GCAGCAACAGCAG	.	65.0	3.0	79.0	0.0	.	128	.	.	.	none	.	.	PASS	Atlas-SNP
GPR126	57211	hgsc.bcm.edu	hg19	6	142714109	142714109	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	GPR126	NM_198569	exon8	c.A1333T	p.N445Y	AATTGGAACTACA	.	139.0	8.0	149.0	0.0	.	192	.	.	.	none	.	.	PASS	Atlas-SNP
SP4	6671	hgsc.bcm.edu	hg19	7	21468306	21468306	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	SP4,colon,carcinoma,0,1	SP4	NM_003112	exon2	c.G19A	p.E7K	AAGAAGGAGGAGG	.	143.0	6.0	105.0	1.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
PLXNA4	91584	hgsc.bcm.edu	hg19	7	131859623	131859623	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	PLXNA4	NM_020911	exon21	c.G3931A	p.G1311R	GAATCCCGGCTCC	.	100.0	7.0	94.0	0.0	.	873	.	.	.	none	.	.	PASS	Atlas-SNP
CNTLN	54875	hgsc.bcm.edu	hg19	9	17330790	17330790	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	CNTLN	NM_017738	exon9	c.C1502A	p.A501D	CAAGTGCTGAAGG	.	367.0	16.0	384.0	0.0	.	128	.	.	.	none	.	.	PASS	Atlas-SNP
OR6Q1	219952	hgsc.bcm.edu	hg19	11	57798465	57798465	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	OR6Q1	NM_001005186	exon1	c.T41A	p.F14Y	CTGAATTTGTCAT	.	145.0	14.0	127.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
FIGNL2	401720	hgsc.bcm.edu	hg19	12	52215801	52215801	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	.	NM_001013690	exon2	c.C397A	p.P133T	AAACTGGGGAGCC	.	140.0	12.0	164.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	hg19	12	57589521	57589521	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	LRP1	NM_002332	exon53	c.G8518T	p.D2840Y	GACCACGACCGTG	.	120.0	10.0	119.0	0.0	.	428	.	.	.	none	.	.	PASS	Atlas-SNP
LTK	4058	hgsc.bcm.edu	hg19	15	41797955	41797955	+	Silent	SNP	C	C	T	rs375203744		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	LTK	NM_002344	exon13	c.G1653A	p.S551S	CTGAGGCGAGCAG	.	264.0	12.0	250.0	0.0	.	117	.	.	.	weak	.	.	PASS	Atlas-SNP
CREBBP	1387	hgsc.bcm.edu	hg19	16	3786685	3786685	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	CREBBP	NM_004380	exon27	c.A4526G	p.K1509R	AACGCCTTGTCCA	.	111.0	5.0	156.0	0.0	.	546	.	.	.	none	.	.	PASS	Atlas-SNP
CACNG3	10368	hgsc.bcm.edu	hg19	16	24358125	24358125	+	Silent	SNP	C	C	T	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	CACNG3	NM_006539	exon2	c.C282T	p.A94A	CACAGCCGAATAT	.	96.0	7.0	80.0	0.0	.	112	.	.	.	none	.	.	PASS	Atlas-SNP
DHX38	9785	hgsc.bcm.edu	hg19	16	72133644	72133644	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	DHX38	NM_014003	exon8	c.A974T	p.D325V	ATCGGGATTGGTA	.	113.0	9.0	118.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
NCOR1	9611	hgsc.bcm.edu	hg19	17	15965099	15965099	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	NCOR1	NM_001190440	exon36	c.C5545A	p.Q1849K	CCATCTGGGGTGC	.	113.0	5.0	144.0	0.0	.	240	.	.	.	none	.	.	PASS	Atlas-SNP
SUZ12	23512	hgsc.bcm.edu	hg19	17	30315477	30315477	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	SUZ12	NM_015355	exon10	c.G1162T	p.E388X	CATCAGGAAAACA	.	267.0	14.0	263.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
SYCP2	10388	hgsc.bcm.edu	hg19	20	58445040	58445040	+	Splice_Site	SNP	T	T	G	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	SYCP2	NM_014258	exon36	c.3556-2A>C	.	CTGGGCTATGAAT	.	71.0	10.0	41.0	0.0	.	204	.	.	.	none	.	.	PASS	Atlas-SNP
MXRA5	25878	hgsc.bcm.edu	hg19	X	3235245	3235245	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	MXRA5	NM_015419	exon6	c.G6477T	p.R2159S	TCCGTACCTGACG	.	218.0	10.0	201.0	0.0	.	815	.	.	.	none	.	.	PASS	Atlas-SNP
MXRA5	25878	hgsc.bcm.edu	hg19	X	3235246	3235246	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	MXRA5	NM_015419	exon6	c.G6476T	p.R2159M	CCGTACCTGACGT	.	219.0	10.0	203.0	0.0	.	815	.	.	.	none	.	.	PASS	Atlas-SNP
COX1	5742	hgsc.bcm.edu	hg19	MT	7020	7020	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	.	ENST00000361624	exon1	c.G1117A	p.V373I	TACTACGTTGTAG	.	129.0	11.0	15.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
HEG1	57493	hgsc.bcm.edu	hg19	3	124732430	124732431	+	In_Frame_Ins	INS	-	-	GGAAGAGGAGGAGGAGGA	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	HEG1	NM_020733	exon6	c.1993_1994insTCCTCCTCCTCCTCTTCC	p.S665delinsSSSSSSS	.	.	110.0	11.0	95.0	0.0	.	109	.	0.1	0	none	.	.	PASS	Atlas-INDEL
SUSD1	64420	hgsc.bcm.edu	hg19	9	114864480	114864480	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	SUSD1	NM_022486	exon9	c.1258delG	p.V420fs	.	.	276.0	18.0	252.0	0.0	.	51	.	0.0652174	0	none	.	.	PASS	Atlas-Indel,Pindel
ABCC6	368	hgsc.bcm.edu	hg19	16	16302617	16302618	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-4A-A93Y-01A-11D-A36X-10	TCGA-4A-A93Y-10A-01D-A370-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ecd232a0-9ac6-4eda-8f3e-8ab73e39ce90	8502bb1a-6a04-42ad-88f1-4559e24b1286	.	ABCC6	NM_001171	exon7	c.762_763insA	p.K254fs	.	.	465.0	22.0	459.0	0.0	.	110	.	0.047	.	none	.	.	PASS	Pindel
