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
PRDM16	63976	hgsc.bcm.edu	hg19	1	3342300	3342300	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	PRDM16	NM_022114	exon13	c.A3095G	p.H1032R	ACGAGCACGAGAA	.	123.0	24.0	137.0	0.0	.	147	.	.	.	none	.	.	PASS	Atlas-SNP
TAS1R1	80835	hgsc.bcm.edu	hg19	1	6639491	6639491	+	Silent	SNP	C	C	T	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	TAS1R1	NM_138697	exon6	c.C2373T	p.A791A	TGCGGCCAACATG	.	114.0	46.0	105.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
COL8A2	1296	hgsc.bcm.edu	hg19	1	36564488	36564488	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	COL8A2	NM_005202	exon2	c.A794G	p.E265G	CCTGGCTCCCCCC	.	65.0	4.0	61.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
MCOLN2	255231	hgsc.bcm.edu	hg19	1	85431299	85431299	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	MCOLN2	NM_153259	exon2	c.G170T	p.R57L	CTGGCTCGGTATT	.	109.0	5.0	111.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
PAPPA2	60676	hgsc.bcm.edu	hg19	1	176809321	176809321	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	PAPPA2	NM_020318	exon22	c.G5215A	p.D1739N	CAAGCAGATGGTT	.	310.0	90.0	277.0	0.0	.	665	.	.	.	none	.	.	PASS	Atlas-SNP
GREB1	9687	hgsc.bcm.edu	hg19	2	11716612	11716612	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	GREB1	NM_148903	exon5	c.T588A	p.N196K	CCGTAATGCACAA	.	192.0	8.0	168.0	0.0	.	308	.	.	.	none	.	.	PASS	Atlas-SNP
GRM2	2912	hgsc.bcm.edu	hg19	3	51750001	51750001	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	GRM2	NM_000839	exon4	c.C2212T	p.L738F	GTGCTCCTCATCG	.	104.0	31.0	133.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA2018	205717	hgsc.bcm.edu	hg19	3	113376859	113376859	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	KIAA2018	NM_001009899	exon7	c.G3670T	p.A1224S	AAGATGCATTTGA	.	101.0	29.0	97.0	0.0	.	180	.	.	.	none	.	.	PASS	Atlas-SNP
ADAD1	132612	hgsc.bcm.edu	hg19	4	123305047	123305047	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	ADAD1	NM_139243	exon5	c.C455G	p.S152C	CTAGATCCAATGC	.	115.0	29.0	99.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
FNDC9	408263	hgsc.bcm.edu	hg19	5	156769880	156769880	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	FNDC9	NM_001001343	exon2	c.G665T	p.C222F	TCCCCACAATGAG	.	94.0	4.0	98.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
SLC35D3	340146	hgsc.bcm.edu	hg19	6	137245376	137245376	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	SLC35D3	NM_001008783	exon2	c.G793A	p.A265T	AGCATCGCCACCA	.	76.0	12.0	72.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
IFNGR1	3459	hgsc.bcm.edu	hg19	6	137519461	137519461	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	IFNGR1	NM_000416	exon7	c.G1177T	p.A393S	TTAAAGCGATGCT	.	103.0	5.0	125.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
LAMB1	3912	hgsc.bcm.edu	hg19	7	107572810	107572810	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	LAMB1,NS,carcinoma,0,1	LAMB1	NM_002291	exon28	c.C4201T	p.P1401S	CTGGGGGTGTTCC	.	152.0	45.0	132.0	1.0	.	185	.	.	.	none	.	.	PASS	Atlas-SNP
PTPRZ1	5803	hgsc.bcm.edu	hg19	7	121653581	121653581	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	PTPRZ1	NM_002851	exon12	c.G4481T	p.S1494I	CAGACAGTCAAAC	.	91.0	29.0	78.0	0.0	.	605	.	.	.	none	.	.	PASS	Atlas-SNP
SCARA5	286133	hgsc.bcm.edu	hg19	8	27737097	27737097	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	SCARA5,NS,carcinoma,0,1	SCARA5	NM_173833	exon8	c.G1340A	p.R447Q	CCGAATCGAGCTG	.	187.0	49.0	171.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
RAD21	5885	hgsc.bcm.edu	hg19	8	117862960	117862960	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	RAD21	NM_006265	exon12	c.C1517T	p.P506L	TCTTCTGGGGGAA	.	173.0	7.0	150.0	0.0	.	95	.	.	.	none	.	.	PASS	Atlas-SNP
CCIN	881	hgsc.bcm.edu	hg19	9	36170395	36170395	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	CCIN	NM_005893	exon1	c.C896T	p.A299V	TGTTTGCTTATAT	.	135.0	8.0	169.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
ANO5	203859	hgsc.bcm.edu	hg19	11	22294380	22294380	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.,1	ANO5	NM_213599	exon19	c.C2080A	p.P694T	TTGGCTCCTCTTC	.	98.0	29.0	98.0	1.0	.	162	.	.	.	none	.	.	PASS	Atlas-SNP
RCOR2	283248	hgsc.bcm.edu	hg19	11	63679913	63679913	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	RCOR2	NM_173587	exon11	c.G1121T	p.R374L	CGGCGCCGGTAGC	.	180.0	55.0	188.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
RBM4B	83759	hgsc.bcm.edu	hg19	11	66444485	66444485	+	Silent	SNP	G	G	A	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	RBM4B	NM_031492	exon2	c.C66T	p.F22F	CTGCTCGAAGAGT	.	235.0	52.0	259.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
SLC36A4	120103	hgsc.bcm.edu	hg19	11	92917687	92917687	+	Splice_Site	SNP	C	C	A	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	SLC36A4	NM_152313	exon4	c.180-1G>T	.	ACAAATCTGAAAA	.	135.0	50.0	135.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
ITGAL	3683	hgsc.bcm.edu	hg19	16	30490672	30490672	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	ITGAL	NM_002209	exon6	c.G466A	p.D156N	AACGTAGACCTGG	.	101.0	43.0	104.0	0.0	.	149	.	.	.	none	.	.	PASS	Atlas-SNP
SHD	56961	hgsc.bcm.edu	hg19	19	4290585	4290585	+	Silent	SNP	C	C	T	rs111268424		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	SHD	NM_020209	exon6	c.C978T	p.A326A	GGGTGCCGAGCAT	.	107.0	42.0	105.0	0.0	.	33	.	.	.	weak	C|0.500;T|0.500	0.500	PASS	Atlas-SNP
TP53RK	112858	hgsc.bcm.edu	hg19	20	45315804	45315804	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	TP53RK	NM_033550	exon2	c.A350G	p.E117G	GAGCCTTCAATTT	.	360.0	116.0	408.0	1.0	.	13	.	.	.	none	.	.	PASS	Atlas-SNP
KDELR3	11015	hgsc.bcm.edu	hg19	22	38877225	38877225	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	KDELR3	NM_016657	exon4	c.G360A	p.W120X	CCTCTGGACTTTC	.	282.0	79.0	285.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
ND4L	0	hgsc.bcm.edu	hg19	MT	10668	10668	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	.	ENST00000361335	exon1	c.G199A	p.A67T	GTCTTTGCCGCCT	.	9.0	6.0	1.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
DNAJA2	10294	hgsc.bcm.edu	hg19	16	47005807	47005807	+	Splice_Site	DEL	C	C	-	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	DNAJA2	NM_005880	exon3	c.138+2G>-	.	.	.	155.0	47.0	179.0	0.0	.	28	.	0.303226	0	none	.	.	PASS	Atlas-INDEL
CADPS	8618	hgsc.bcm.edu	hg19	3	62477094	62477096	+	In_Frame_Del	DEL	AAC	AAC	-	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	AAC	AAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	CADPS	NM_183394	exon20	c.2975_2977del	p.992_993del	.	.	191.0	53.0	203.0	0.0	.	387	.	0.277487	0	none	.	.	PASS	Atlas-INDEL
ARHGAP35	2909	hgsc.bcm.edu	hg19	19	47422875	47422875	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-A4-7915-01A-11D-2201-08	TCGA-A4-7915-10A-01D-2201-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	42528857-7966-471e-a0fe-27a109429871	e6538442-84f0-47d1-aee6-60a032d2d9d0	.	.	NM_004491	exon1	c.942delT	p.T314fs	.	.	46.0	13.0	55.0	0.0	.	.	.	0.282609	0	none	.	.	PASS	Atlas-INDEL
