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
SLC35A2	7355	hgsc.bcm.edu	37	X	48762343	48762346	+	Frame_Shift_Del	DEL	GCCG	GCCG	-	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	GCCG	GCCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	47.0	13.0	54.0	0.0	0.277	.	.	.	none	.	SLC35A2	46	.	NM_001042498	exon4	c.841_844del	p.281_282del	.	.	PASS	Pindel,Atlas-Indel
FRAS1	80144	hgsc.bcm.edu	37	4	79176419	79176419	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	133.0	27.0	194.0	0.0	0.203008	0	.	.	none	.	FRAS1	779	.	NM_025074	exon6	c.492delT	p.H164fs	.	.	PASS	Atlas-Indel
SUPT20HL1	100130302	hgsc.bcm.edu	37	X	24382417	24382418	+	In_Frame_Ins	INS	-	-	CTGCTGCTC	rs72220486	alternate_allele	TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	80.0	40.0	91.0	0.0	0.5	0	.	.	alt	.	.	.	.	NM_001136234	exon1	c.1540_1541insCTGCTGCTC	p.A514delinsAAAP	.	.	PASS	Atlas-Indel
GPR125	166647	hgsc.bcm.edu	37	4	22446632	22446632	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	142.0	28.0	189.0	0.0	0.197183	0	.	.	none	GPR125,NS,carcinoma,+2,1	GPR125	118	1	NM_145290	exon6	c.C670A	p.P224T	TGACTGGTTGGGC	.	PASS	Atlas-SNP
TLL2	7093	hgsc.bcm.edu	37	10	98157024	98157024	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	46.0	14.0	62.0	0.0	0.304348	0	.	.	none	.	TLL2	122	.	NM_012465	exon11	c.G1303A	p.V435I	TGGAGACGAGGGG	.	PASS	Atlas-SNP
GLP2R	9340	hgsc.bcm.edu	37	17	9745901	9745901	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	33.0	7.0	50.0	0.0	0.212121	0	.	.	none	GLP2R,rectum,carcinoma,0,1	GLP2R	90	1	NM_004246	exon4	c.G472A	p.E158K	GACTCCGAATGCT	.	PASS	Atlas-SNP
COL14A1	7373	hgsc.bcm.edu	37	8	121282320	121282320	+	Silent	SNP	C	C	A	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	65.0	16.0	84.0	0.0	0.246154	0	.	.	none	COL14A1,NS,carcinoma,+1,1	COL14A1	292	1	NM_021110	exon26	c.C3120A	p.S1040S	TGGATCCTGGAGC	.	PASS	Atlas-SNP
EPG5	57724	hgsc.bcm.edu	37	18	43514836	43514836	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	156.0	28.0	126.0	0.0	0.179487	0	.	.	none	.	EPG5	199	.	NM_020964	exon11	c.C2196T	p.S732S	GTTCTCGCTCTCC	.	PASS	Atlas-SNP
ACE2	59272	hgsc.bcm.edu	37	X	15612969	15612969	+	Missense_Mutation	SNP	C	C	T	rs201900069	bycluster;by1000genomes	TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	58.0	33.0	57.0	0.0	0.568965	0	C|0.999;T|0.001	0.001	strong	.	ACE2	87	.	NM_021804	exon3	c.G344A	p.R115Q	CGTACCCGTTTGC	.	PASS	Atlas-SNP
GPR171	29909	hgsc.bcm.edu	37	3	150916504	150916504	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	242.0	39.0	231.0	0.0	0.161157	0	.	.	none	.	GPR171	36	.	NM_013308	exon3	c.A670G	p.N224D	GTATGTTGATGAG	.	PASS	Atlas-SNP
ASXL3	80816	hgsc.bcm.edu	37	18	31324277	31324277	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	55.0	22.0	67.0	0.0	0.4	0	.	.	none	.	ASXL3	405	.	NM_030632	exon12	c.G4465A	p.V1489I	CTGACTGTCTCCG	.	PASS	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	37	18	6978310	6978310	+	Silent	SNP	C	C	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	151.0	29.0	123.0	0.0	0.192053	0	.	.	none	LAMA1,NS,carcinoma,-1,1	LAMA1	458	1	NM_005559	exon43	c.G6075A	p.T2025T	CCTCAGCGTGCTC	.	PASS	Atlas-SNP
MLXIP	22877	hgsc.bcm.edu	37	12	122612486	122612486	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	41.0	13.0	57.0	0.0	0.317073	0	.	.	none	.	MLXIP	46	.	NM_014938	exon3	c.G577T	p.V193L	GGCTCTGTGGACG	.	PASS	Atlas-SNP
KLHL6	89857	hgsc.bcm.edu	37	3	183273174	183273174	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	152.0	66.0	160.0	0.0	0.434211	0	.	.	none	.	KLHL6	100	.	NM_130446	exon1	c.C268T	p.L90F	CGGCAAGCACCAC	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	37	12	49435033	49435033	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	29.0	10.0	42.0	0.0	0.344828	0	.	.	none	MLL2_ENST00000301067,NS,lymphoid_neoplasm,0,2	MLL2	1173	2	NM_003482	exon31	c.C6520T	p.Q2174X	GGTCCTGCGAAGG	.	PASS	Atlas-SNP
PRKG1	5592	hgsc.bcm.edu	37	10	54048530	54048530	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	136.0	33.0	167.0	0.0	0.242647	0	.	.	none	.	PRKG1	167	.	NM_006258	exon15	c.T1754C	p.I585T	ACATCATATTGAG	.	PASS	Atlas-SNP
ABCA1	19	hgsc.bcm.edu	37	9	107571802	107571802	+	Missense_Mutation	SNP	C	C	T	rs189206655	bycluster;by1000genomes	TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	136.0	22.0	169.0	1.0	0.161765	0.00591716	C|1.000;T|0.000	0.000	strong	ABCA1,caecum,carcinoma,0,4	ABCA1	244	4	NM_005502	exon30	c.G4219A	p.A1407T	TGAGGGCGTTTAA	.	scavenged	Atlas-SNP
LAMA3	3909	hgsc.bcm.edu	37	18	21508671	21508671	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	174.0	20.0	130.0	0.0	0.114943	0	.	.	none	.	LAMA3	397	.	NM_198129	exon64	c.C8378T	p.A2793V	TCCAGGCCTCATT	.	PASS	Atlas-SNP
PTCHD3	374308	hgsc.bcm.edu	37	10	27703150	27703150	+	Silent	SNP	C	C	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	55.0	18.0	87.0	0.0	0.327273	0	.	.	none	.	PTCHD3	140	.	NM_001034842	exon1	c.G30A	p.P10P	CGGCCCCGGCCTG	.	PASS	Atlas-SNP
BRAP	8315	hgsc.bcm.edu	37	12	112103531	112103531	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	78.0	17.0	113.0	0.0	0.217949	0	.	.	none	.	BRAP	42	.	NM_006768	exon6	c.C808T	p.R270C	CCATGCGCTCCAG	.	PASS	Atlas-SNP
CYTB	0	hgsc.bcm.edu	37	MT	15172	15172	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	8.0	4.0	6.0	0.0	0.5	0	.	.	none	.	.	.	.	ENST00000361789	exon1	c.G426A	p.G142G	CTGAGGGGCCACA	.	PASS	Atlas-SNP
NCOA3	8202	hgsc.bcm.edu	37	20	46254225	46254225	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	83.0	4.0	110.0	0.0	0.0481928	0	.	.	none	.	NCOA3	156	.	NM_181659	exon5	c.G357T	p.Q119H	ACTTCAGGCAAGT	.	PASS	Atlas-SNP
COLEC12	81035	hgsc.bcm.edu	37	18	333015	333015	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	172.0	20.0	156.0	0.0	0.116279	0	.	.	none	.	COLEC12	121	.	NM_130386	exon7	c.G1945A	p.E649K	GTTCCTCTCTAGT	.	PASS	Atlas-SNP
MAGI2	9863	hgsc.bcm.edu	37	7	79082348	79082348	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	27.0	12.0	30.0	0.0	0.444444	0	.	.	none	.	MAGI2	246	.	NM_012301	exon1	c.T289A	p.C97S	TGACACACTTGAG	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30955191	30955191	+	Silent	SNP	G	G	C	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	48.0	3.0	72.0	0.0	0.0625	0	.	.	none	MUC21,NS,carcinoma,0,2	MUC21	98	2	NM_001010909	exon2	c.G1239C	p.V413V	CACAGTGTCCAGT	.	scavenged	Atlas-SNP
CLCN1	1180	hgsc.bcm.edu	37	7	143049009	143049009	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	102.0	16.0	114.0	0.0	0.156863	0	.	.	none	.	CLCN1	141	.	NM_000083	exon23	c.C2918T	p.P973L	AGGGCCCCAGCCT	.	PASS	Atlas-SNP
SPANXN2	494119	hgsc.bcm.edu	37	X	142795338	142795338	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	139.0	37.0	183.0	0.0	0.266187	0	.	.	none	.	SPANXN2	67	.	NM_001009615	exon2	c.G340T	p.D114Y	CCAGGTCTTCGTC	.	PASS	Atlas-SNP
GRIA3	2892	hgsc.bcm.edu	37	X	122336604	122336604	+	Missense_Mutation	SNP	C	C	G	rs72609489		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	62.0	5.0	68.0	0.0	0.0806452	0	.	.	weak	.	GRIA3	386	.	NM_001256743	exon3	c.C385G	p.P129A	GGTGGGCCCGCCA	.	PASS	Atlas-SNP
POF1B	79983	hgsc.bcm.edu	37	X	84586012	84586012	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	185.0	93.0	200.0	0.0	0.502703	0	.	.	none	.	POF1B	77	.	NM_024921	exon7	c.G797A	p.R266H	TTCTTACGGCTCA	.	PASS	Atlas-SNP
RC3H1	149041	hgsc.bcm.edu	37	1	173951933	173951933	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	158.0	73.0	155.0	0.0	0.462025	0	.	.	none	.	RC3H1	110	.	NM_172071	exon4	c.T700A	p.F234I	GAGGAAACCGTGG	.	PASS	Atlas-SNP
CLSTN2	64084	hgsc.bcm.edu	37	3	140275464	140275464	+	Missense_Mutation	SNP	C	C	T	rs368537354		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	89.0	13.0	99.0	0.0	0.146067	0	.	.	weak	CLSTN2,caecum,carcinoma,-1,2	CLSTN2	190	2	NM_022131	exon11	c.C1784T	p.T595M	TCCCAACGGCGGG	.	PASS	Atlas-SNP
TPO	7173	hgsc.bcm.edu	37	2	1491693	1491693	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	62.0	21.0	75.0	0.0	0.33871	0	.	.	none	.	TPO	224	.	NM_001206744	exon10	c.G1698A	p.V566V	CTTTGTGCTGTCC	.	PASS	Atlas-SNP
EBLN2	55096	hgsc.bcm.edu	37	3	73111480	73111480	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	144.0	8.0	150.0	0.0	0.0555556	0	.	.	none	.	EBLN2	18	.	NM_018029	exon1	c.A248C	p.N83T	GGAAAAACAGACA	.	PASS	Atlas-SNP
CAMSAP2	23271	hgsc.bcm.edu	37	1	200818866	200818866	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	185.0	97.0	153.0	0.0	0.524324	0	.	.	none	CAMSAP1L1,NS,carcinoma,+1,1	.	.	1	NM_203459	exon11	c.G2969A	p.R990Q	TGAATCGAACCTT	.	PASS	Atlas-SNP
HIST1H1E	3008	hgsc.bcm.edu	37	6	26157030	26157030	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	72.0	16.0	100.0	0.0	0.222222	0	.	.	none	.	HIST1H1E	69	.	NM_005321	exon1	c.C412T	p.P138S	AAGAAGCCCAAGA	.	PASS	Atlas-SNP
MROH2B	133558	hgsc.bcm.edu	37	5	41054902	41054902	+	Silent	SNP	T	T	G	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	154.0	44.0	192.0	0.0	0.285714	0	.	.	none	.	.	.	.	NM_173489	exon11	c.A1074C	p.T358T	TTTGACTGTTCTT	.	PASS	Atlas-SNP
CARD11	84433	hgsc.bcm.edu	37	7	2977662	2977662	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	62.0	14.0	76.0	0.0	0.225806	0	.	.	none	.	CARD11	339	.	NM_032415	exon8	c.T1022A	p.L341Q	TCCTCCAGGTACT	.	PASS	Atlas-SNP
UGT2B7	7364	hgsc.bcm.edu	37	4	69978319	69978319	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	112.0	35.0	140.0	0.0	0.3125	0	.	.	none	.	UGT2B7	79	.	NM_001074	exon6	c.G1455A	p.W485X	CACCTGGTTCCAG	.	PASS	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22182158	22182158	+	Silent	SNP	G	G	A	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	39.0	8.0	58.0	0.0	0.205128	0	.	.	none	.	HSPG2	311	.	NM_005529	exon46	c.C5712T	p.G1904G	CTGGCCGCCGGGG	.	PASS	Atlas-SNP
OR2F2	135948	hgsc.bcm.edu	37	7	143633276	143633276	+	Silent	SNP	T	T	C	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	56.0	4.0	40.0	0.0	0.0714286	0	.	.	none	.	OR2F2	63	.	NM_001004685	exon1	c.T951C	p.T317T	GGGAACTTGACTC	.	PASS	Atlas-SNP
RPS6KA6	27330	hgsc.bcm.edu	37	X	83357092	83357092	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	178.0	92.0	248.0	0.0	0.516854	0	.	.	none	.	RPS6KA6	116	.	NM_014496	exon18	c.G1729T	p.G577X	GAAGTCCATTTTC	.	PASS	Atlas-SNP
MAGI1	9223	hgsc.bcm.edu	37	3	65425591	65425591	+	Silent	SNP	T	T	C	rs79701778		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	93.0	5.0	90.0	2.0	0.0537634	0.0222222	T|0.500;C|0.500	0.500	weak	MAGI1_ENST00000402939,NS,carcinoma,0,3	MAGI1	481	3	NM_001033057	exon9	c.A1233G	p.Q411Q	CTGCTGTTGCTGC	.	scavenged	Atlas-SNP
CTNNA2	1496	hgsc.bcm.edu	37	2	80801387	80801387	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	106.0	29.0	127.0	0.0	0.273585	0	.	.	none	CTNNA2_ENST00000466387,NS,carcinoma,+1,3	CTNNA2	462	3	NM_001164883	exon13	c.G1841A	p.R614H	CCTCTCGCCTGGT	.	PASS	Atlas-SNP
BAZ2B	29994	hgsc.bcm.edu	37	2	160285738	160285738	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	463.0	102.0	561.0	2.0	0.220302	0.00356506	.	.	none	BAZ2B,NS,carcinoma,-1,1	BAZ2B	196	1	NM_013450	exon11	c.G2228A	p.R743H	AGTTCACGTTCAT	.	scavenged	Atlas-SNP
ZC3H7A	29066	hgsc.bcm.edu	37	16	11855353	11855353	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	106.0	40.0	113.0	0.0	0.377358	0	.	.	none	ZC3H7A,NS,carcinoma,-1,1	ZC3H7A	72	1	NM_014153	exon19	c.G2228A	p.R743Q	GCACGCCGGTCTT	.	PASS	Atlas-SNP
MESP2	145873	hgsc.bcm.edu	37	15	90320144	90320144	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	18.0	6.0	9.0	0.0	0.333333	0	.	.	none	.	MESP2	20	.	NM_001039958	exon1	c.C556G	p.Q186E	CAGGGGCAGGGGC	.	PASS	Atlas-SNP
C11orf84	144097	hgsc.bcm.edu	37	11	63585573	63585573	+	Missense_Mutation	SNP	G	G	A	rs373118347		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	43.0	11.0	55.0	0.0	0.255814	0	.	.	weak	.	C11orf84	33	.	NM_138471	exon2	c.G424A	p.V142M	CAAGACGTGAGAG	.	PASS	Atlas-SNP
MPP7	143098	hgsc.bcm.edu	37	10	28420542	28420542	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	97.0	24.0	85.0	0.0	0.247423	0	.	.	none	.	MPP7	60	.	NM_173496	exon8	c.G394A	p.D132N	CCTCATCGTCAAT	.	PASS	Atlas-SNP
SLC9A3	6550	hgsc.bcm.edu	37	5	480029	480029	+	Silent	SNP	C	C	T	rs147340203	bycluster;by1000genomes	TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	35.0	7.0	50.0	0.0	0.2	0	C|1.000;T|0.000	0.000	strong	.	SLC9A3	89	.	NM_004174	exon10	c.G1569A	p.S523S	CTGGGCCGACCGT	.	PASS	Atlas-SNP
CSK	1445	hgsc.bcm.edu	37	15	75093927	75093927	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-FF-A7CW-01A-11D-A382-10	TCGA-FF-A7CW-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	422d5ebf-9d30-4c11-b1fe-c437822f0143	22d154b9-2ceb-409b-94d1-8f44d359d3a3	69.0	8.0	71.0	0.0	0.115942	0	.	.	none	.	CSK	43	.	NM_001127190	exon11	c.A878G	p.K293R	TCCTCAAGTTCTC	.	PASS	Atlas-SNP