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
PEX10	5192	hgsc.bcm.edu	hg19	1	2340282	2340282	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	PEX10	NM_002617	exon3	c.G209C	p.G70A	TCCTCCCCCAGGG	.	58.0	14.0	54.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
PER3	8863	hgsc.bcm.edu	hg19	1	7887456	7887456	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	PER3	NM_016831	exon17	c.G2443A	p.A815T	GAATACGCAGCCC	.	112.0	28.0	162.0	0.0	.	95	.	.	.	none	.	.	PASS	Atlas-SNP
YARS	8565	hgsc.bcm.edu	hg19	1	33246690	33246690	+	Silent	SNP	G	G	T	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	YARS,caecum,carcinoma,0,1	YARS	NM_003680	exon10	c.C1099A	p.R367R	CCAGCCGGGATGG	.	185.0	8.0	194.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
ATXN7L2	127002	hgsc.bcm.edu	hg19	1	110034064	110034064	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	ATXN7L2	NM_153340	exon10	c.C1879A	p.L627M	GGGCCCCTGGACT	.	52.0	20.0	85.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
INSRR	3645	hgsc.bcm.edu	hg19	1	156811976	156811976	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	INSRR	NM_014215	exon19	c.A3325C	p.N1109H	ACTTGTTGGCAGC	.	41.0	12.0	58.0	0.0	.	309	.	.	.	none	.	.	PASS	Atlas-SNP
PLEKHA6	22874	hgsc.bcm.edu	hg19	1	204198070	204198070	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	PLEKHA6	NM_014935	exon19	c.A2746G	p.K916E	CCTCCTTATTGAT	.	187.0	49.0	163.0	0.0	.	115	.	.	.	none	.	.	PASS	Atlas-SNP
TP53BP2	7159	hgsc.bcm.edu	hg19	1	223984099	223984099	+	Silent	SNP	A	A	G	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	TP53BP2	NM_001031685	exon13	c.T2142C	p.N714N	GTAAGGATTAGAT	.	228.0	52.0	208.0	0.0	.	144	.	.	.	none	.	.	PASS	Atlas-SNP
DUSP11	8446	hgsc.bcm.edu	hg19	2	74007101	74007101	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	DUSP11	NM_003584	exon1	c.A142G	p.M48V	GGCTCATGTGGGT	.	82.0	24.0	108.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
RAPGEF4	11069	hgsc.bcm.edu	hg19	2	173885421	173885421	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	RAPGEF4	NM_007023	exon23	c.C2231A	p.P744Q	CTTGCCCGCGAGA	.	198.0	9.0	216.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
CNTN6	27255	hgsc.bcm.edu	hg19	3	1371578	1371578	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	CNTN6	NM_014461	exon11	c.C1323G	p.I441M	AGCTATCTCTTGG	.	59.0	14.0	50.0	0.0	.	245	.	.	.	none	.	.	PASS	Atlas-SNP
CHDH	55349	hgsc.bcm.edu	hg19	3	53857341	53857341	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	CHDH	NM_018397	exon3	c.T695C	p.I232T	TCATGGATGGTCA	.	17.0	5.0	18.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
PDS5A	23244	hgsc.bcm.edu	hg19	4	39978137	39978137	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	PDS5A_ENST00000503396,NS,carcinoma,0,2	PDS5A	NM_001100399	exon2	c.G61T	p.G21W	TCTTCCCGTCGGC	.	140.0	8.0	161.0	1.0	.	114	.	.	.	none	.	.	PASS	Atlas-SNP
SLC30A9	10463	hgsc.bcm.edu	hg19	4	42072612	42072612	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	SLC30A9	NM_006345	exon15	c.T1322A	p.L441H	CATTCCTCATCTA	.	133.0	43.0	110.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
WDFY3	23001	hgsc.bcm.edu	hg19	4	85781624	85781624	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	WDFY3	NM_014991	exon4	c.C121T	p.H41Y	TCATGTGCCGGGG	.	156.0	30.0	128.0	0.0	.	314	.	.	.	none	.	.	PASS	Atlas-SNP
RAD50	10111	hgsc.bcm.edu	hg19	5	131976367	131976367	+	Silent	SNP	T	T	C	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	RAD50	NM_005732	exon24	c.T3622C	p.L1208L	CAGGTATTAGCCT	.	177.0	36.0	186.0	0.0	.	246	.	.	.	none	.	.	PASS	Atlas-SNP
TRIM38	10475	hgsc.bcm.edu	hg19	6	25967011	25967011	+	Silent	SNP	G	G	C	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	TRIM38,NS,carcinoma,0,1	TRIM38	NM_006355	exon3	c.G261C	p.T87T	AGAGACGGATCAA	.	54.0	17.0	54.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
ITPR3	3710	hgsc.bcm.edu	hg19	6	33644599	33644599	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	ITPR3	NM_002224	exon26	c.G3337A	p.E1113K	AAGTCGGAGCTGG	.	67.0	19.0	94.0	0.0	.	409	.	.	.	none	.	.	PASS	Atlas-SNP
DOPEY1	23033	hgsc.bcm.edu	hg19	6	83839062	83839062	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	DOPEY1	NM_015018	exon16	c.C2176A	p.Q726K	AATTCACAAGGAG	.	85.0	16.0	56.0	0.0	.	190	.	.	.	none	.	.	PASS	Atlas-SNP
FAM120B	84498	hgsc.bcm.edu	hg19	6	170700175	170700175	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	FAM120B	NM_032448	exon8	c.C2565G	p.I855M	ACGCATCACTGGC	.	58.0	4.0	60.0	0.0	.	108	.	.	.	none	.	.	PASS	Atlas-SNP
OGDH	4967	hgsc.bcm.edu	hg19	7	44685022	44685022	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	OGDH	NM_001165036	exon3	c.G319T	p.V107L	GCTGCTGTGGCCC	.	169.0	35.0	159.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	hg19	7	116423407	116423407	+	Missense_Mutation	SNP	G	G	C	rs121913671	alternate_allele	TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	MET,colon,carcinoma,-2,1	MET	NM_001127500	exon19	c.G3736C	p.D1246H	GCCAGAGACATGT	.	101.0	30.0	67.0	1.0	.	412	.	.	.	alt	.	.	PASS	Atlas-SNP
ADAM32	203102	hgsc.bcm.edu	hg19	8	39044454	39044454	+	Silent	SNP	A	A	G	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	ADAM32	NM_145004	exon11	c.A942G	p.A314A	GGAGGCATTTGCA	.	139.0	34.0	83.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
OSGIN2	734	hgsc.bcm.edu	hg19	8	90936955	90936955	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	OSGIN2	NM_001126111	exon6	c.G845C	p.R282T	AAATTAGGGGTTA	.	95.0	30.0	84.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM133	83935	hgsc.bcm.edu	hg19	11	100863392	100863392	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	TMEM133	NM_032021	exon1	c.T353A	p.L118H	TTCCACTTGGTAA	.	153.0	28.0	177.0	0.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
PHLDB1	23187	hgsc.bcm.edu	hg19	11	118516166	118516166	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	PHLDB1	NM_001144758	exon16	c.G3214C	p.G1072R	CTTCACGGGGCAG	.	90.0	26.0	152.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
GRIK4	2900	hgsc.bcm.edu	hg19	11	120745883	120745883	+	Silent	SNP	C	C	T	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	GRIK4	NM_014619	exon9	c.C1095T	p.F365F	TGAATTCAACAGC	.	136.0	24.0	111.0	0.0	.	149	.	.	.	none	.	.	PASS	Atlas-SNP
CDON	50937	hgsc.bcm.edu	hg19	11	125880565	125880565	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	CDON	NM_016952	exon8	c.T1223A	p.I408N	GCCGTAATTATAA	.	75.0	18.0	87.0	0.0	.	137	.	.	.	none	.	.	PASS	Atlas-SNP
SLC2A14	144195	hgsc.bcm.edu	hg19	12	7982586	7982586	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	SLC2A14	NM_153449	exon6	c.A358T	p.I120F	TGACAATCAGCAT	.	81.0	16.0	63.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
ANO6	196527	hgsc.bcm.edu	hg19	12	45695869	45695869	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	ANO6	NM_001204803	exon3	c.C206A	p.P69Q	GAACCCCGGAGTT	.	152.0	7.0	102.0	0.0	.	163	.	.	.	none	.	.	PASS	Atlas-SNP
SLC38A1	81539	hgsc.bcm.edu	hg19	12	46633478	46633478	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	SLC38A1	NM_030674	exon3	c.A106T	p.N36Y	GACCATTTTCTAC	.	171.0	33.0	88.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
TCTN1	79600	hgsc.bcm.edu	hg19	12	111070319	111070319	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	TCTN1,NS,lymphoid_neoplasm,0,1	TCTN1	NM_024549	exon5	c.C667T	p.P223S	AGATTTCCTTCGT	.	244.0	52.0	182.0	1.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
ATXN2	6311	hgsc.bcm.edu	hg19	12	111908459	111908459	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	ATXN2	NM_002973	exon19	c.C3086G	p.A1029G	GGGGTGGCTGCAA	.	179.0	63.0	149.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
SBNO1	55206	hgsc.bcm.edu	hg19	12	123806180	123806180	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	SBNO1	NM_001167856	exon16	c.A2225G	p.N742S	TCTTCATTATCAG	.	218.0	90.0	132.0	0.0	.	138	.	.	.	none	.	.	PASS	Atlas-SNP
MTHFD1	4522	hgsc.bcm.edu	hg19	14	64915025	64915025	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	MTHFD1	NM_005956	exon23	c.A2269C	p.N757H	GCCGTGAATGCAT	.	59.0	12.0	43.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
ATG2B	55102	hgsc.bcm.edu	hg19	14	96784101	96784101	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	ATG2B	NM_018036	exon19	c.G2971C	p.A991P	GACTGGCTACTGA	.	189.0	35.0	134.0	0.0	.	169	.	.	.	none	.	.	PASS	Atlas-SNP
TMED3	23423	hgsc.bcm.edu	hg19	15	79606106	79606106	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	TMED3	NM_007364	exon2	c.C176G	p.T59S	TCATCACTGGAGG	.	51.0	8.0	42.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
SRRM2	23524	hgsc.bcm.edu	hg19	16	2808492	2808492	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	SRRM2	NM_016333	exon5	c.T537A	p.S179R	TAGCAGTTCTCGC	.	274.0	50.0	268.0	0.0	.	263	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF23	7571	hgsc.bcm.edu	hg19	16	71483580	71483580	+	Silent	SNP	G	G	T	rs376275643	alternate_allele	TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	ZNF23	NM_145911	exon6	c.C348A	p.P116P	CTCCACGGGGCTT	.	242.0	10.0	232.0	0.0	.	65	.	.	.	alt	.	.	PASS	Atlas-SNP
DHX38	9785	hgsc.bcm.edu	hg19	16	72138441	72138441	+	Silent	SNP	G	G	T	rs199994362	bycluster;alternate_allele	TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	DHX38,rectum,carcinoma,0,1	DHX38	NM_014003	exon15	c.G2067T	p.A689A	GGATGCGGAGAAG	.	128.0	7.0	114.0	0.0	.	91	.	.	.	alt	G|0.999;A|0.001	.	PASS	Atlas-SNP
WSCD1	23302	hgsc.bcm.edu	hg19	17	6012935	6012935	+	Silent	SNP	C	C	G	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	WSCD1,NS,carcinoma,0,1	WSCD1	NM_015253	exon6	c.C858G	p.P286P	GTTCCCCTTGGCC	.	392.0	87.0	483.0	1.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF830	91603	hgsc.bcm.edu	hg19	17	33289281	33289281	+	Silent	SNP	T	T	C	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	ZNF830	NM_052857	exon1	c.T696C	p.H232H	AATACATGAAAAA	.	59.0	16.0	63.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
NR1D1	9572	hgsc.bcm.edu	hg19	17	38253601	38253601	+	Silent	SNP	A	A	G	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	NR1D1	NM_021724	exon2	c.T87C	p.P29P	GGATTCAGGGCTG	.	30.0	12.0	47.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
NAGS	162417	hgsc.bcm.edu	hg19	17	42083544	42083544	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	NAGS	NM_153006	exon3	c.T854C	p.L285P	AGGCGCTGCGGCC	.	60.0	14.0	82.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
CATSPERD	257062	hgsc.bcm.edu	hg19	19	5744442	5744442	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	.	NM_152784	exon8	c.A578G	p.E193G	AGGCAGAAATCAT	.	125.0	16.0	112.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
C3	718	hgsc.bcm.edu	hg19	19	6711075	6711075	+	Missense_Mutation	SNP	C	C	A	rs148820222	alternate_allele	TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	C3	NM_000064	exon12	c.G1402T	p.G468W	TCTCCCCGGGTCT	.	176.0	8.0	234.0	0.0	.	192	.	.	.	alt	C|1.000;T|0.000	.	PASS	Atlas-SNP
QTRT1	81890	hgsc.bcm.edu	hg19	19	10823458	10823458	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	QTRT1	NM_031209	exon8	c.A886G	p.T296A	GTGCCCACTGGGA	.	228.0	44.0	249.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
NOTCH3	4854	hgsc.bcm.edu	hg19	19	15289675	15289675	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	NOTCH3	NM_000435	exon23	c.G3796C	p.G1266R	CAGGACCCGGGCT	.	17.0	5.0	25.0	0.0	.	340	.	.	.	none	.	.	PASS	Atlas-SNP
GPR32	2854	hgsc.bcm.edu	hg19	19	51273914	51273914	+	Silent	SNP	G	G	C	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	GPR32	NM_001506	exon1	c.G57C	p.L19L	GGTCCTGACACGT	.	45.0	8.0	51.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF416	55659	hgsc.bcm.edu	hg19	19	58084258	58084258	+	Silent	SNP	A	A	G	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	ZNF416	NM_017879	exon4	c.T1014C	p.S338S	GTTGGAACTTTGG	.	75.0	15.0	74.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
CSE1L	1434	hgsc.bcm.edu	hg19	20	47691344	47691344	+	Silent	SNP	A	A	G	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	CSE1L	NM_001316	exon11	c.A1089G	p.E363E	ATTTGAAGATAAT	.	58.0	12.0	48.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
TXN2	25828	hgsc.bcm.edu	hg19	22	36876727	36876727	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	TXN2	NM_012473	exon2	c.A158G	p.Y53C	GTGGTGTATATTG	.	117.0	24.0	117.0	0.0	.	15	.	.	.	none	.	.	PASS	Atlas-SNP
GSN	2934	hgsc.bcm.edu	hg19	9	124089637	124089638	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	GSN	NM_000177	exon13	c.1792_1793insC	p.T598fs	.	.	85.0	16.0	83.0	0.0	.	81	.	0.188235	0	none	.	.	PASS	Atlas-INDEL
KLHL7	55975	hgsc.bcm.edu	hg19	7	23163475	23163476	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	KLHL7	NM_001031710	exon2	c.200_201insT	p.H67fs	.	.	94.0	30.0	49.0	0.0	.	102	.	0.319149	0	none	.	.	PASS	Atlas-INDEL
TBC1D9B	23061	hgsc.bcm.edu	hg19	5	179318454	179318455	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	TBC1D9B	NM_198868	exon6	c.969_970insT	p.M323fs	.	.	176.0	41.0	184.0	0.0	.	157	.	0.232955	0	none	.	.	PASS	Atlas-INDEL
PTCHD3	374308	hgsc.bcm.edu	hg19	10	27687672	27687673	+	In_Frame_Ins	INS	-	-	GTATAT	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	PTCHD3	NM_001034842	exon4	c.1855_1856insATATAC	p.G619delinsIYG	.	.	107.0	13.0	130.0	0.0	.	140	.	0.121495	0	none	.	.	PASS	Atlas-INDEL
MAML1	9794	hgsc.bcm.edu	hg19	5	179193559	179193560	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	MAML1	NM_014757	exon2	c.1548_1549insC	p.K516fs	.	.	80.0	19.0	103.0	0.0	.	118	.	0.2375	0	none	.	.	PASS	Atlas-INDEL
H2AFJ	55766	hgsc.bcm.edu	hg19	12	14927683	14927684	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	H2AFJ,caecum,carcinoma,+1,1	H2AFJ	NM_177925	exon1	c.279_280insT	p.E93fs	.	.	159.0	58.0	131.0	0.0	.	14	.	0.36478	0	none	.	.	PASS	Atlas-INDEL
DNAJC1	64215	hgsc.bcm.edu	hg19	10	22171214	22171214	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	DNAJC1	NM_022365	exon8	c.976delC	p.Q326fs	.	.	77.0	16.0	66.0	0.0	.	42	.	0.207792	0	none	.	.	PASS	Atlas-INDEL
MCPH1	79648	hgsc.bcm.edu	hg19	8	6335132	6335133	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	MCPH1	NM_024596	exon10	c.1953_1954insA	p.V651fs	.	.	281.0	77.0	159.0	0.0	.	65	.	0.274021	0	none	.	.	PASS	Atlas-INDEL
NR3C2	4306	hgsc.bcm.edu	hg19	4	149357285	149357285	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	NR3C2	NM_001166104	exon2	c.729delT	p.N243fs	.	.	149.0	46.0	147.0	0.0	.	94	.	0.308725	0	none	.	.	PASS	Atlas-INDEL
THRAP3	9967	hgsc.bcm.edu	hg19	1	36767245	36767245	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	THRAP3	NM_005119	exon11	c.2593delC	p.R865fs	.	.	78.0	21.0	75.0	0.0	.	93	.	0.269231	0	none	.	.	PASS	Atlas-INDEL
OGG1	4968	hgsc.bcm.edu	hg19	3	9800959	9800960	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	OGG1	NM_016828	exon7	c.1037_1038insT	p.S346fs	.	.	157.0	32.0	172.0	0.0	.	57	.	0.203822	0	none	.	.	PASS	Atlas-INDEL
PHLDB1	23187	hgsc.bcm.edu	hg19	11	118516164	118516164	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BQ-7059-01A-11D-1961-08	TCGA-BQ-7059-11A-01D-1961-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9beec2fe-169d-4c3d-b177-f0d7bd9e5e96	bdab2c62-1568-47e5-b8f6-99ada040a736	.	PHLDB1	NM_001144758	exon16	c.3211delC	p.H1071fs	.	.	92.0	27.0	143.0	0.0	.	103	.	0.293478	0	none	.	.	PASS	Atlas-INDEL