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
MESP2	145873	hgsc.bcm.edu	37	15	90320135	90320146	+	In_Frame_Del	DEL	GGGCAGGGGCAG	GGGCAGGGGCAG	-	rs199821487	by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	GGGCAGGGGCAG	GGGCAGGGGCAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	18	13	28	0	0.722222	0	GGGCAGGGGCAG|0.112;-|0.888	0.888	strong	MESP2,NS,carcinoma,0,1	MESP2	20	1	NM_001039958	exon1	c.546_557del	p.182_186del	.	.	PASS	Atlas-Indel
HLA-A	3105	hgsc.bcm.edu	37	6	29910559	29910565	+	Frame_Shift_Del	DEL	CACATCC	CACATCC	-	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	CACATCC	CACATCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	52	14	83	.	0.269	.	.	.	none	HLA-A,NS,lymphoid_neoplasm,0,1	HLA-A	89	1	NM_002116	exon2	c.98_104del	p.33_35del	.	.	PASS	Pindel,Atlas-Indel
PSMG2	56984	hgsc.bcm.edu	37	18	12720538	12720538	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	144	17	201	0	0.118056	0	.	.	none	.	PSMG2	17	.	NM_020232	exon5	c.436delT	p.S146fs	.	.	PASS	Atlas-Indel
UACA	55075	hgsc.bcm.edu	37	15	70959921	70959926	+	In_Frame_Del	DEL	CTTTAA	CTTTAA	-	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	CTTTAA	CTTTAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	218	33	266	.	0.151	.	.	.	none	.	UACA	235	.	NM_018003	exon16	c.3098_3103del	p.1033_1035del	.	.	PASS	Pindel,Atlas-Indel
SALL1	6299	hgsc.bcm.edu	37	16	51175656	51175664	+	In_Frame_Del	DEL	GCTGCTGCT	GCTGCTGCT	-	rs113614842	byfrequency	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	GCTGCTGCT	GCTGCTGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	125	25	137	0	0.2	0	-|0.500;GCC|0.250;GCT|0.250	0.500	strong	.	SALL1	301	.	NM_002968	exon2	c.470_478del	p.157_160del	.	.	PASS	Atlas-Indel
DMKN	93099	hgsc.bcm.edu	37	19	36002362	36002412	+	In_Frame_Del	DEL	CTGCTGCCACCACTGCTGCCGCCACTGCTGCCGCCACTGCTGCTGCCACTG	CTGCTGCCACCACTGCTGCCGCCACTGCTGCCGCCACTGCTGCTGCCACTG	-	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	CTGCTGCCACCACTGCTGCCGCCACTGCTGCCGCCACTGCTGCTGCCACTG	CTGCTGCCACCACTGCTGCCGCCACTGCTGCCGCCACTGCTGCTGCCACTG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	38	13	23	0	0.342105	0	.	.	none	.	DMKN	116	.	NM_033317	exon5	c.820_870del	p.274_290del	.	.	PASS	Atlas-Indel
MYL6	4637	hgsc.bcm.edu	37	12	56554083	56554083	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	77	12	60	0	0.155844	0	.	.	none	.	MYL6	16	.	NM_079423	exon5	c.405delC	p.S135fs	.	.	PASS	Atlas-Indel
THOC5	8563	hgsc.bcm.edu	37	22	29938874	29938876	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	64	15	59	0	0.234375	0	.	.	none	.	THOC5	58	.	NM_001002879	exon5	c.425_427del	p.142_143del	.	.	PASS	Atlas-Indel
KLRC4-KLRK1	0	hgsc.bcm.edu	37	12	10539559	10539559	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	260	59	246	0	0.226923	0	.	.	none	.	.	.	.	NM_001199805	exon8	c.92delC	p.S31X	.	.	PASS	Atlas-Indel
HLA-A	3105	hgsc.bcm.edu	37	6	29911113	29911115	+	In_Frame_Del	DEL	CGG	CGG	-	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	CGG	CGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	67	24	171	.	0.358	.	.	.	none	.	HLA-A	89	.	NM_002116	exon3	c.411_413del	p.137_138del	.	.	PASS	Pindel,Atlas-Indel
CA3	761	hgsc.bcm.edu	37	8	86352126	86352127	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	52	18	29	.	0.346	.	.	.	none	.	CA3	47	.	NM_005181	exon2	c.220_221insA	p.Y74_D75delinsX	.	.	PASS	Pindel,Atlas-Indel
HLA-B	3106	hgsc.bcm.edu	37	6	31324195	31324201	+	Frame_Shift_Del	DEL	TACATGC	TACATGC	-	rs151341217	alternate_allele	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	TACATGC	TACATGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	36	13	55	.	0.361	.	.	.	alt	.	HLA-B	54	.	NM_005514	exon3	c.363_369del	p.121_123del	.	.	PASS	Pindel,Atlas-Indel
PCED1A	64773	hgsc.bcm.edu	37	20	2816203	2816204	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	94	22	120	.	0.234	.	.	.	none	.	.	.	.	NM_022760	exon8	c.1270_1271insG	p.P424fs	.	.	PASS	Pindel,Atlas-Indel
RLF	6018	hgsc.bcm.edu	37	1	40697260	40697262	+	In_Frame_Del	DEL	GTC	GTC	-	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	GTC	GTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	179	36	200	.	0.201	.	.	.	none	.	RLF	152	.	NM_012421	exon7	c.1018_1020del	p.340_340del	.	.	PASS	Pindel,Atlas-Indel
MYO1H	283446	hgsc.bcm.edu	37	12	109858795	109858795	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	194	15	181	0	0.0773196	0	.	.	none	.	MYO1H	98	.	NM_001101421	exon15	c.1558delG	p.E520fs	.	.	PASS	Atlas-Indel
SOCS1	8651	hgsc.bcm.edu	37	16	11349102	11349103	+	Frame_Shift_Del	DEL	TC	TC	-	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	21	10	29	0	0.47619	0	.	.	none	SOCS1,lymph_node,lymphoid_neoplasm,+1,1	SOCS1	84	1	NM_003745	exon2	c.234_235del	p.78_79del	.	.	PASS	Atlas-Indel
IGSF3	3321	hgsc.bcm.edu	37	1	117122288	117122289	+	In_Frame_Ins	INS	-	-	TCC	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	88	15	81	0	0.170455	0	.	.	none	IGSF3_ENST00000369483,caecum,carcinoma,0,2	IGSF3	294	2	NM_001542	exon11	c.3120_3121insGGA	p.D1040delinsED	.	.	PASS	Atlas-Indel
IGLL5	100423062	hgsc.bcm.edu	37	22	23230415	23230416	+	In_Frame_Ins	INS	-	-	CAG	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	65	14	113	.	0.215	.	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.182_183insCAG	p.S61delinsSS	.	.	PASS	Pindel,Atlas-Indel
ABCA2	20	hgsc.bcm.edu	37	9	139909868	139909869	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	47	10	62	0	0.212766	0	.	.	none	.	ABCA2	113	.	NM_212533	exon24	c.3785_3786insC	p.Q1262fs	.	.	PASS	Atlas-Indel
NR1H2	7376	hgsc.bcm.edu	37	19	50881822	50881823	+	In_Frame_Ins	INS	-	-	CAG	rs34296657	bycluster	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	42	14	60	.	0.333	.	CAG|1.000	.	weak	.	NR1H2	47	.	NM_007121	exon6	c.516_517insCAG	p.K172delinsKQ	.	.	PASS	Pindel
AP3M1	26985	hgsc.bcm.edu	37	10	75896531	75896531	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	141	48	159	0	0.340426	0	.	.	none	.	AP3M1	28	.	NM_207012	exon4	c.A304G	p.I102V	CCTTAATTGCAGC	.	PASS	Atlas-SNP
PCDHA5	56143	hgsc.bcm.edu	37	5	140201800	140201800	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	149	38	137	0	0.255034	0	.	.	none	.	PCDHA5	361	.	NM_018908	exon1	c.C440T	p.P147L	GAATGCCAGATTC	.	PASS	Atlas-SNP
OR5M1	390168	hgsc.bcm.edu	37	11	56380719	56380719	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	174	100	228	0	0.574713	0	.	.	none	.	OR5M1	92	.	NM_001004740	exon1	c.C260T	p.S87L	TGTTCTGAGAGGA	.	PASS	Atlas-SNP
SLC30A4	7782	hgsc.bcm.edu	37	15	45814311	45814311	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	97	27	102	0	0.278351	0	.	.	none	.	SLC30A4	25	.	NM_013309	exon2	c.T242A	p.L81X	AAAGGTAAGTCTT	.	PASS	Atlas-SNP
NCAPG	64151	hgsc.bcm.edu	37	4	17843962	17843962	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	209	84	252	0	0.401914	0	.	.	none	.	NCAPG	76	.	NM_022346	exon20	c.A2884C	p.T962P	GCTAGGACGAACA	.	PASS	Atlas-SNP
KCNH5	27133	hgsc.bcm.edu	37	14	63175121	63175121	+	Missense_Mutation	SNP	C	C	T	rs200737420		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	75	12	90	0	0.16	0	C|0.999;T|0.001	0.001	weak	KCNH5,NS,malignant_melanoma,-1,5	KCNH5	320	5	NM_139318	exon11	c.G2072A	p.R691Q	TTCTGCCGGAGGC	.	PASS	Atlas-SNP
FKBP9	11328	hgsc.bcm.edu	37	7	33044805	33044805	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	94	21	141	0	0.223404	0	.	.	none	FKBP9_ENST00000490776,NS,carcinoma,0,4	FKBP9	335	4	NM_007270	exon10	c.G1555A	p.A519T	ATTCACGCCCAGG	.	PASS	Atlas-SNP
MACC1	346389	hgsc.bcm.edu	37	7	20199461	20199461	+	Missense_Mutation	SNP	G	G	A	rs200826339	bycluster;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	105	9	143	0	0.0857143	0	A|0.000;G|0.999;T|0.000	0.000	strong	MACC1,bladder,carcinoma,+2,1	MACC1	99	1	NM_182762	exon5	c.C523T	p.R175W	CCTCCCGATCATT	.	PASS	Atlas-SNP
ZNF512B	57473	hgsc.bcm.edu	37	20	62597525	62597525	+	Missense_Mutation	SNP	G	G	A	rs371234637		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	133	25	182	0	0.18797	0	.	.	weak	ZNF512B,NS,lymphoid_neoplasm,+1,1	ZNF512B	72	1	NM_020713	exon5	c.C1003T	p.R335C	TGGCACGAGGTGC	.	PASS	Atlas-SNP
BMP7	655	hgsc.bcm.edu	37	20	55748291	55748291	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	39	15	63	0	0.384615	0	.	.	none	.	BMP7	60	.	NM_001719	exon6	c.A1111G	p.M371V	CGTTCATGTAGGA	.	PASS	Atlas-SNP
CTAGE5	4253	hgsc.bcm.edu	37	14	39819363	39819363	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	144	53	190	2	0.368056	0.0105263	.	.	none	CTAGE5,colon,carcinoma,0,1	CTAGE5	75	1	NM_001247989	exon24	c.C2325A	p.F775L	ATTTTTCCCCCCA	.	scavenged	Atlas-SNP
MEPCE	56257	hgsc.bcm.edu	37	7	100028402	100028402	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	32	8	48	0	0.25	0	.	.	none	.	MEPCE	52	.	NM_019606	exon1	c.C761T	p.S254L	TTGCTTCGCCACT	.	PASS	Atlas-SNP
SPRR3	6707	hgsc.bcm.edu	37	1	152975715	152975715	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	57	9	64	1	0.157895	0.015625	.	.	none	SPRR3,colon,carcinoma,0,3	SPRR3	45	3	NM_001097589	exon2	c.C219T	p.G73G	GCCAGGCTGTACC	.	scavenged	Atlas-SNP
PCDH15	65217	hgsc.bcm.edu	37	10	55782695	55782695	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	165	42	190	0	0.254545	0	.	.	none	.	PCDH15	1715	.	NM_001142763	exon20	c.T2498C	p.V833A	TCTTCAACAAGGA	.	PASS	Atlas-SNP
PPP1CA	5499	hgsc.bcm.edu	37	11	67168324	67168324	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	82	17	87	0	0.207317	0	.	.	none	.	PPP1CA	83	.	NM_001008709	exon3	c.G287C	p.S96T	TAGTTGCTCTCGG	.	PASS	Atlas-SNP
PSEN1	5663	hgsc.bcm.edu	37	14	73614730	73614730	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	82	32	97	0	0.390244	0	.	.	none	PSEN1,NS,carcinoma,0,1	PSEN1	38	1	NM_000021	exon3	c.G3A	p.M1I	TCCAATGACAGAG	.	PASS	Atlas-SNP
BAI3	577	hgsc.bcm.edu	37	6	70070955	70070955	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	95	25	99	0	0.263158	0	.	.	none	BAI3,right_upper_lobe,carcinoma,-2,1	BAI3	451	1	NM_001704	exon29	c.G3790A	p.E1264K	ATGAATGAGCTTA	.	PASS	Atlas-SNP
TRHDE	29953	hgsc.bcm.edu	37	12	73046814	73046814	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	134	60	158	0	0.447761	0	.	.	none	.	TRHDE	194	.	NM_013381	exon17	c.G2727A	p.L909L	GTCACTGAATTCT	.	PASS	Atlas-SNP
SOCS1	8651	hgsc.bcm.edu	37	16	11348988	11348988	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	40	11	33	0	0.275	0	.	.	none	SOCS1,NS,lymphoid_neoplasm,0,2	SOCS1	84	2	NM_003745	exon2	c.C348T	p.S116S	CTTCACGCTAAGG	.	PASS	Atlas-SNP
PTPN9	5780	hgsc.bcm.edu	37	15	75762326	75762326	+	Silent	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	100	25	102	0	0.25	0	.	.	none	.	PTPN9	53	.	NM_002833	exon12	c.C1374A	p.R458R	CACCTGGCGTTTC	.	PASS	Atlas-SNP
FRG1	2483	hgsc.bcm.edu	37	4	190878626	190878626	+	Missense_Mutation	SNP	G	G	A	rs71229055		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	381	10	433	6	0.0262467	0.0138568	G|0.500;A|0.500	0.500	weak	FRG1,NS,carcinoma,+1,3	FRG1	76	3	NM_004477	exon6	c.G506A	p.S169N	CAAAAAGTAAAAC	.	scavenged	Atlas-SNP
CSNK2A1	1457	hgsc.bcm.edu	37	20	485848	485848	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	421	105	567	1	0.249406	0.00176367	.	.	none	.	CSNK2A1	36	.	NM_001895	exon3	c.C127T	p.R43X	ATTTTCGAACCAG	.	PASS	Atlas-SNP
CNTLN	54875	hgsc.bcm.edu	37	9	17135148	17135148	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	163	33	129	0	0.202454	0	.	.	none	.	CNTLN	128	.	NM_017738	exon1	c.G85A	p.A29T	CGGGGAGCTGAAG	.	PASS	Atlas-SNP
ST6GAL2	84620	hgsc.bcm.edu	37	2	107460134	107460134	+	Silent	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	185	69	204	0	0.372973	0	.	.	none	.	ST6GAL2	159	.	NM_032528	exon2	c.C300A	p.A100A	GGACTGGGCCCAT	.	PASS	Atlas-SNP
ZNF616	90317	hgsc.bcm.edu	37	19	52618943	52618943	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	128	38	124	0	0.296875	0	.	.	none	.	ZNF616	109	.	NM_178523	exon4	c.C1474T	p.P492S	TGTAAGGTTTCTC	.	PASS	Atlas-SNP
ATP10B	23120	hgsc.bcm.edu	37	5	160071166	160071166	+	Missense_Mutation	SNP	C	C	T	rs369830205	alternate_allele	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	77	33	62	0	0.428571	0	.	.	alt	.	ATP10B	201	.	NM_025153	exon9	c.G847A	p.V283I	TGCCAACAGCCAT	.	PASS	Atlas-SNP
ZNF257	113835	hgsc.bcm.edu	37	19	22271296	22271296	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	197	52	219	0	0.263959	0	.	.	none	.	ZNF257	156	.	NM_033468	exon4	c.G744A	p.K248K	ACATAAGGTAATT	.	PASS	Atlas-SNP
CISH	1154	hgsc.bcm.edu	37	3	50645816	50645816	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	35	12	66	0	0.342857	0	.	.	none	.	CISH	27	.	NM_013324	exon3	c.C280A	p.L94I	CCCGAAGGTAGGA	.	PASS	Atlas-SNP
RPUSD3	285367	hgsc.bcm.edu	37	3	9885228	9885228	+	Silent	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	117	30	137	0	0.25641	0	.	.	none	.	RPUSD3	19	.	NM_001142547	exon2	c.C183A	p.P61P	CGCGAAGGGCTGG	.	PASS	Atlas-SNP
SMC1B	27127	hgsc.bcm.edu	37	22	45789587	45789587	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	270	76	315	0	0.281481	0	.	.	none	.	SMC1B	215	.	NM_148674	exon9	c.C1472T	p.T491I	TCATGGGTATCAA	.	PASS	Atlas-SNP
UNC5C	8633	hgsc.bcm.edu	37	4	96222814	96222814	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	50	20	93	0	0.4	0	.	.	none	.	UNC5C	141	.	NM_003728	exon3	c.G433A	p.V145M	AGGCCACACACTG	.	PASS	Atlas-SNP
ACTB	60	hgsc.bcm.edu	37	7	5568300	5568300	+	Silent	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	69	18	101	0	0.26087	0	.	.	none	.	ACTB	45	.	NM_001101	exon4	c.T414A	p.A138A	TAGCACAGCCTGG	.	PASS	Atlas-SNP
FBLN1	2192	hgsc.bcm.edu	37	22	45958992	45958992	+	Missense_Mutation	SNP	G	G	A	rs11551	bycluster;byhapmap	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	81	26	92	0	0.320988	0	G|1.000	.	weak	.	FBLN1	143	.	NM_001996	exon15	c.G1898A	p.R633Q	CCACCCGGAAGGT	.	PASS	Atlas-SNP
HIST1H1B	3009	hgsc.bcm.edu	37	6	27835055	27835055	+	Silent	SNP	G	G	A	rs116008322	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	149	15	176	0	0.100671	0	G|0.982;A|0.018	0.018	strong	.	HIST1H1B	54	.	NM_005322	exon1	c.C253T	p.L85L	GGCCCAGCTTAAT	.	PASS	Atlas-SNP
IQGAP1	8826	hgsc.bcm.edu	37	15	90976986	90976986	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	175	49	196	0	0.28	0	.	.	none	.	IQGAP1	140	.	NM_003870	exon5	c.A426G	p.R142R	TGATCGAAAGAAC	.	PASS	Atlas-SNP
UNC13C	440279	hgsc.bcm.edu	37	15	54860103	54860103	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	175	48	284	0	0.274286	0	.	.	none	.	UNC13C	674	.	NM_001080534	exon28	c.G6064A	p.D2022N	ACTACTGATGCCT	.	PASS	Atlas-SNP
CPEB4	80315	hgsc.bcm.edu	37	5	173317293	173317293	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	189	40	165	0	0.21164	0	.	.	none	.	CPEB4	54	.	NM_030627	exon1	c.A557C	p.D186A	ATGAAGATGCAAG	.	PASS	Atlas-SNP
DOCK6	57572	hgsc.bcm.edu	37	19	11325005	11325005	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	60	19	74	0	0.316667	0	.	.	none	.	DOCK6	104	.	NM_020812	exon34	c.G4284A	p.Q1428Q	GGCACTCTGGGCA	.	PASS	Atlas-SNP
SGIP1	84251	hgsc.bcm.edu	37	1	67133214	67133214	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	90	20	110	0	0.222222	0	.	.	none	.	SGIP1	272	.	NM_032291	exon9	c.G473C	p.R158T	CACAGAGGCGCAG	.	PASS	Atlas-SNP
ZDHHC17	23390	hgsc.bcm.edu	37	12	77243231	77243231	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	328	38	342	0	0.115854	0	.	.	none	.	ZDHHC17	45	.	NM_015336	exon16	c.T1741G	p.S581A	ACAACGTCTATTG	.	PASS	Atlas-SNP
LYST	1130	hgsc.bcm.edu	37	1	235966354	235966354	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	92	35	96	0	0.380435	0	.	.	none	.	LYST	370	.	NM_000081	exon8	c.C3566G	p.S1189C	TCTGCAGATTGAT	.	PASS	Atlas-SNP
MLLT3	4300	hgsc.bcm.edu	37	9	20414376	20414376	+	Silent	SNP	A	A	G	rs1761445	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	118	51	46	0	0.432203	0	A|0.906;G|0.094	0.094	strong	MLLT3,colon,carcinoma,0,3	MLLT3	125	3	NM_004529	exon5	c.T468C	p.S156S	GCTGCTACTGCTG	.	PASS	Atlas-SNP
PRRC2B	84726	hgsc.bcm.edu	37	9	134319653	134319653	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	52	18	53	0	0.346154	0	.	.	none	.	PRRC2B	266	.	NM_013318	exon5	c.C551T	p.A184V	ACAAGGCTGGCAA	.	PASS	Atlas-SNP
VN1R1	57191	hgsc.bcm.edu	37	19	57967400	57967400	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	171	43	214	0	0.251462	0	.	.	none	.	VN1R1	48	.	NM_020633	exon1	c.C455A	p.P152H	ATACTGGGGTTGA	.	PASS	Atlas-SNP
VCPIP1	80124	hgsc.bcm.edu	37	8	67577327	67577327	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	180	76	168	0	0.422222	0	.	.	none	.	VCPIP1	110	.	NM_025054	exon1	c.T1867A	p.Y623N	CATCGTAAACATT	.	PASS	Atlas-SNP
DMD	1756	hgsc.bcm.edu	37	X	33146262	33146262	+	Splice_Site	SNP	A	A	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	99	63	87	0	0.636364	0	.	.	none	.	DMD	2127	.	NM_004009	exon2	c.19+2T>C	.	TTACTCACCAGAT	.	PASS	Atlas-SNP
INO80D	54891	hgsc.bcm.edu	37	2	206921607	206921607	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	184	60	172	0	0.326087	0	.	.	none	.	INO80D	134	.	NM_017759	exon4	c.G279T	p.K93N	ATCATTCTTTTTC	.	PASS	Atlas-SNP
BRCA2	675	hgsc.bcm.edu	37	13	32906689	32906689	+	Silent	SNP	G	G	A	rs276174805	alternate_allele	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	89	14	110	0	0.157303	0	.	.	alt	.	BRCA2	812	.	NM_000059	exon10	c.G1074A	p.V358V	TGAAGTGGAACCA	.	PASS	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	37	11	62284325	62284325	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	138	78	140	0	0.565217	0	.	.	none	.	AHNAK	532	.	NM_001620	exon5	c.T17564A	p.L5855Q	GAGGCCAGGGACA	.	PASS	Atlas-SNP
ASPM	259266	hgsc.bcm.edu	37	1	197093397	197093397	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	579	154	765	0	0.265976	0	.	.	none	.	ASPM	444	.	NM_001206846	exon13	c.G3233A	p.S1078N	TTTATACTCTTTG	.	PASS	Atlas-SNP
LMAN2	10960	hgsc.bcm.edu	37	5	176778602	176778602	+	Missense_Mutation	SNP	C	C	T	rs143985896	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	79	13	86	0	0.164557	0	C|0.999;T|0.001	0.001	strong	.	LMAN2	35	.	NM_006816	exon1	c.G47A	p.C16Y	CCCAGGCACCGCC	.	PASS	Atlas-SNP
COL23A1	91522	hgsc.bcm.edu	37	5	177695744	177695744	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	54	8	58	0	0.148148	0	.	.	none	.	COL23A1	47	.	NM_173465	exon7	c.C482T	p.P161L	CCTTTCGGGCCTG	.	PASS	Atlas-SNP
ACTB	60	hgsc.bcm.edu	37	7	5568897	5568897	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	72	16	86	0	0.222222	0	.	.	none	.	ACTB	45	.	NM_001101	exon3	c.G258C	p.W86C	GTGGTGCCAGATT	.	PASS	Atlas-SNP
RGPD4	285190	hgsc.bcm.edu	37	2	108487901	108487901	+	Silent	SNP	A	A	G	rs7563250	bycluster	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	7	7	4	4	1	1	G|1.000;|0.000	1.000	weak	RGPD4,NS,carcinoma,0,1	RGPD4	112	1	NM_182588	exon20	c.A3441G	p.L1147L	GCGGTTAGCAGCA	.	scavenged	Atlas-SNP
PRDM8	56978	hgsc.bcm.edu	37	4	81123614	81123614	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	43	25	73	0	0.581395	0	.	.	none	.	PRDM8	44	.	NM_001099403	exon4	c.G998A	p.R333Q	GGGGCCGGGGCCG	.	PASS	Atlas-SNP
CSNK2A1	1457	hgsc.bcm.edu	37	20	472918	472918	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	59	13	94	0	0.220339	0	.	.	none	.	CSNK2A1	36	.	NM_001895	exon8	c.G601A	p.E201K	GTAGCTCAGGACC	.	PASS	Atlas-SNP
NAA38	51691	hgsc.bcm.edu	37	7	117832025	117832025	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	119	31	141	1	0.260504	0.0070922	.	.	none	NAA38,NS,carcinoma,+1,1	NAA38	16	1	NM_016200	exon4	c.G260A	p.R87Q	ATATTCGAGCAGA	.	scavenged	Atlas-SNP
DDX47	51202	hgsc.bcm.edu	37	12	12966365	12966365	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	47	12	53	0	0.255319	0	.	.	none	.	DDX47	37	.	NM_201224	exon1	c.G64C	p.E22Q	GAGGAGGAAACTA	.	PASS	Atlas-SNP
PKD1	5310	hgsc.bcm.edu	37	16	2161349	2161349	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	46	17	54	0	0.369565	0	.	.	none	.	PKD1	184	.	NM_000296	exon15	c.C3819T	p.T1273T	ACCCACGGTCACT	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	2966134	2966134	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	45	20	78	0	0.444444	0	.	.	none	.	CSMD1	1469	.	NM_033225	exon44	c.A6745G	p.N2249D	GGAAATTGAGGAC	.	PASS	Atlas-SNP
PLXNA2	5362	hgsc.bcm.edu	37	1	208216538	208216538	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	70	10	87	0	0.142857	0	.	.	none	.	PLXNA2	178	.	NM_025179	exon21	c.G3885A	p.E1295E	CTGGAGCTCAGCA	.	PASS	Atlas-SNP
LOX	4015	hgsc.bcm.edu	37	5	121412595	121412595	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	44	5	24	0	0.113636	0	.	.	none	LOX,NS,carcinoma,+1,1	LOX	29	1	NM_002317	exon2	c.C733G	p.L245V	TGGCCAGACAGTT	.	PASS	Atlas-SNP
PLCE1	51196	hgsc.bcm.edu	37	10	96018781	96018781	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	126	39	154	0	0.309524	0	.	.	none	PLCE1_ENST00000371375,NS,carcinoma,-1,3	PLCE1	543	3	NM_016341	exon13	c.C3688T	p.R1230C	AGGAGCCGCAAGG	.	PASS	Atlas-SNP
BPIFB4	149954	hgsc.bcm.edu	37	20	31671452	31671452	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	100	27	138	2	0.27	0.0144928	.	.	none	C20orf186,NS,carcinoma,+1,1	.	.	1	NM_182519	exon3	c.G449A	p.R150Q	ACCGGCGAGAGCT	.	scavenged	Atlas-SNP
SLC30A4	7782	hgsc.bcm.edu	37	15	45814252	45814252	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	143	30	148	0	0.20979	0	.	.	none	SLC30A4,bladder,carcinoma,+2,1	SLC30A4	25	1	NM_013309	exon2	c.C301A	p.Q101K	CTCTCTGTTTGCT	.	PASS	Atlas-SNP
AQP7	364	hgsc.bcm.edu	37	9	33385698	33385698	+	Missense_Mutation	SNP	A	A	G	rs145516206	bycluster;byfrequency	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	46	8	8	2	0.173913	0.25	A|0.934;G|0.066	0.066	strong	AQP7,colon,carcinoma,0,2	AQP7	58	2	NM_001170	exon7	c.T692C	p.L231P	GGGGGCAGGTCCC	.	scavenged	Atlas-SNP
OR2T8	343172	hgsc.bcm.edu	37	1	248084440	248084440	+	Missense_Mutation	SNP	T	T	G	rs111379878	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	365	13	433	3	0.0356164	0.00692841	T|0.988;G|0.012	0.012	strong	OR2T8,NS,other,0,1	OR2T8	67	1	NM_001005522	exon1	c.T121G	p.S41A	GGCAATTCCCTCA	.	scavenged	Atlas-SNP
XPO6	23214	hgsc.bcm.edu	37	16	28187332	28187332	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	116	9	131	0	0.0775862	0	.	.	none	.	XPO6	177	.	NM_015171	exon4	c.C292T	p.H98Y	TATGGTGAGCCAA	.	PASS	Atlas-SNP
FAM198B	51313	hgsc.bcm.edu	37	4	159092202	159092202	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	60	23	84	0	0.383333	0	.	.	none	.	FAM198B	134	.	NM_016613	exon2	c.T326C	p.I109T	AGGGTAATGTACA	.	PASS	Atlas-SNP
PARD3	56288	hgsc.bcm.edu	37	10	34648142	34648142	+	Missense_Mutation	SNP	G	G	C	rs142553947		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	290	69	372	0	0.237931	0	G|1.000;C|0.000	0.000	weak	.	PARD3	131	.	NM_001184792	exon14	c.C2000G	p.S667C	TCAGTAGACATAG	.	PASS	Atlas-SNP
LRRN3	54674	hgsc.bcm.edu	37	7	110764124	110764124	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	54	13	56	0	0.240741	0	.	.	none	LRRN3,caecum,carcinoma,+2,2	LRRN3	132	2	NM_018334	exon2	c.A1296G	p.L432L	TAATCTAAATGTA	.	PASS	Atlas-SNP
BACH2	60468	hgsc.bcm.edu	37	6	90718537	90718537	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	67	15	69	0	0.223881	0	.	.	none	.	BACH2	224	.	NM_001170794	exon4	c.C27T	p.S9S	CATGGGGGAGTCA	.	PASS	Atlas-SNP
ZBTB16	7704	hgsc.bcm.edu	37	11	114027086	114027086	+	Silent	SNP	C	C	T	rs148436647	bycluster;byfrequency	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	69	13	71	0	0.188406	0	C|1.000;T|0.000	0.000	strong	.	ZBTB16	101	.	NM_006006	exon3	c.C1296T	p.Y432Y	GACGTACGGGTGC	.	PASS	Atlas-SNP
SOCS1	8651	hgsc.bcm.edu	37	16	11348978	11348978	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	40	8	38	1	0.2	0.0263158	.	.	none	SOCS1,NS,lymphoid_neoplasm,+2,1	SOCS1	84	1	NM_003745	exon2	c.G358A	p.A120T	CCGAGGCCATCTT	.	scavenged	Atlas-SNP
HIST1H2AD	3013	hgsc.bcm.edu	37	6	26199193	26199193	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	195	53	259	1	0.271795	0.003861	.	.	none	HIST1H2AD,NS,lymphoid_neoplasm,0,1	HIST1H2AD	20	1	NM_021065	exon1	c.G279A	p.E93E	GTTTAGCTCCTCG	.	scavenged	Atlas-SNP
PHC1	1911	hgsc.bcm.edu	37	12	9089488	9089488	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	101	18	96	0	0.178218	0	.	.	none	.	PHC1	67	.	NM_004426	exon12	c.A2405C	p.Y802S	GCGAGTACTGTGG	.	PASS	Atlas-SNP
TAPT1	202018	hgsc.bcm.edu	37	4	16168278	16168278	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	146	64	200	0	0.438356	0	.	.	none	.	TAPT1	31	.	NM_153365	exon13	c.G1452A	p.Q484Q	TTTGTTCTGTGAT	.	PASS	Atlas-SNP
PXDN	7837	hgsc.bcm.edu	37	2	1652954	1652954	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	51	19	56	0	0.372549	0	.	.	none	.	PXDN	255	.	NM_012293	exon17	c.C2598A	p.D866E	CCGGGAGTCATTG	.	PASS	Atlas-SNP
MAST4	375449	hgsc.bcm.edu	37	5	66462503	66462503	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	128	31	108	0	0.242188	0	.	.	none	.	MAST4	218	.	NM_001164664	exon29	c.A7496T	p.N2499I	CCAGCAACAGGGA	.	PASS	Atlas-SNP
FGFR4	2264	hgsc.bcm.edu	37	5	176516652	176516652	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	159	76	139	0	0.477987	0	.	.	none	.	FGFR4	174	.	NM_022963	exon1	c.C49T	p.P17S	CCTGGGCCTCCAG	.	PASS	Atlas-SNP
HCN1	348980	hgsc.bcm.edu	37	5	45262330	45262330	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	88	28	85	0	0.318182	0	.	.	none	HCN1,NS,carcinoma,0,2	HCN1	298	2	NM_021072	exon8	c.C2366G	p.S789W	GGCTGCGAGGCGG	.	PASS	Atlas-SNP
TLR4	7099	hgsc.bcm.edu	37	9	120476234	120476234	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	86	20	99	0	0.232558	0	.	.	none	.	TLR4	220	.	NM_138554	exon3	c.G1828T	p.A610S	GAATGTGCAACAC	.	PASS	Atlas-SNP
PIM2	11040	hgsc.bcm.edu	37	X	48775891	48775891	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	109	85	71	0	0.779817	0	.	.	none	.	PIM2	31	.	NM_006875	exon2	c.G93C	p.E31D	TCGATACTCGGCC	.	PASS	Atlas-SNP
KRTAP4-5	85289	hgsc.bcm.edu	37	17	39305785	39305785	+	Missense_Mutation	SNP	A	A	T	rs411367	bycluster;byhapmap;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	32	9	43	1	0.28125	0.0232558	A|0.646;T|0.354	0.354	strong	KRTAP4-5,colon,carcinoma,0,3	KRTAP4-5	34	3	NM_033188	exon1	c.T235A	p.C79S	AGCAGCAGGGGCG	.	scavenged	Atlas-SNP
KIF2B	84643	hgsc.bcm.edu	37	17	51900705	51900705	+	Missense_Mutation	SNP	C	C	T	rs371085430		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	47	12	62	1	0.255319	0.016129	.	.	weak	KIF2B,NS,carcinoma,-1,2	KIF2B	254	2	NM_032559	exon1	c.C311T	p.S104L	CCTCTTCGGCCAT	.	scavenged	Atlas-SNP
PTPRD	5789	hgsc.bcm.edu	37	9	8504278	8504278	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	192	12	177	0	0.0625	0	.	.	none	.	PTPRD	1348	.	NM_130392	exon12	c.C1805T	p.A602V	GTTCTAGCTGATA	.	PASS	Atlas-SNP
IRF8	3394	hgsc.bcm.edu	37	16	85942775	85942775	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	75	27	79	0	0.36	0	.	.	none	.	IRF8	65	.	NM_002163	exon3	c.A354G	p.Q118Q	AGAGCAAAAATGT	.	PASS	Atlas-SNP
METTL21D	79609	hgsc.bcm.edu	37	14	50583173	50583173	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	40	14	59	0	0.35	0	.	.	none	.	METTL21D	11	.	NM_024558	exon1	c.A98G	p.Y33C	GAGCTATACTGCT	.	PASS	Atlas-SNP
CDAN1	146059	hgsc.bcm.edu	37	15	43022925	43022925	+	Missense_Mutation	SNP	C	C	T	rs201057681	bycluster;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	65	21	71	1	0.323077	0.0140845	C|1.000;T|0.000	0.000	strong	CDAN1,bladder,carcinoma,0,1	CDAN1	70	1	NM_138477	exon14	c.G2045A	p.R682Q	AGCCCTCGCTGCA	.	scavenged	Atlas-SNP
PGK2	5232	hgsc.bcm.edu	37	6	49754100	49754100	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	186	56	206	0	0.301075	0	.	.	none	.	PGK2	87	.	NM_138733	exon1	c.A801C	p.K267N	GATATCTTTAACG	.	PASS	Atlas-SNP
CALCA	796	hgsc.bcm.edu	37	11	14989251	14989251	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	52	10	69	0	0.192308	0	.	.	none	.	CALCA	30	.	NM_001033953	exon4	c.T377G	p.L126R	GCTTGAAGGTCCC	.	PASS	Atlas-SNP
PTPN2	5771	hgsc.bcm.edu	37	18	12884137	12884137	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	80	15	97	0	0.1875	0	.	.	none	.	PTPN2	37	.	NM_001207013	exon1	c.C4T	p.P2S	TGGTGGGCATGGC	.	PASS	Atlas-SNP
DTL	51514	hgsc.bcm.edu	37	1	212218054	212218054	+	Silent	SNP	A	A	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	584	66	724	0	0.113014	0	.	.	none	DTL,colon,carcinoma,+1,3	DTL	52	3	NM_016448	exon3	c.A231C	p.R77R	TGTTCGATTGTAT	.	PASS	Atlas-SNP
SPAG5	10615	hgsc.bcm.edu	37	17	26919738	26919738	+	Missense_Mutation	SNP	G	G	A	rs149403082	bycluster;byfrequency	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	103	37	161	0	0.359223	0	G|1.000;A|0.000	0.000	strong	.	SPAG5	92	.	NM_006461	exon3	c.C524T	p.A175V	CAGGGTGCCACCT	.	PASS	Atlas-SNP
ITPKB	3707	hgsc.bcm.edu	37	1	226924300	226924300	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	47	11	65	0	0.234043	0	.	.	none	.	ITPKB	158	.	NM_002221	exon2	c.G860A	p.S287N	AGGCAGCTCCGAG	.	PASS	Atlas-SNP
LRRTM1	347730	hgsc.bcm.edu	37	2	80529909	80529909	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	58	20	74	0	0.344828	0	.	.	none	.	LRRTM1	251	.	NM_178839	exon2	c.G1036T	p.E346X	CGTACTCCGGGCT	.	PASS	Atlas-SNP
MLLT3	4300	hgsc.bcm.edu	37	9	20414280	20414280	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	332	10	306	5	0.0301205	0.0163399	.	.	none	MLLT3,caecum,carcinoma,0,1	MLLT3	125	1	NM_004529	exon5	c.C564T	p.S188S	ACTACTGCTGCTG	.	scavenged	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	37	7	48312478	48312478	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	148	43	186	0	0.290541	0	.	.	none	.	ABCA13	1192	.	NM_152701	exon17	c.A3215T	p.D1072V	TAATTGATGAAGA	.	PASS	Atlas-SNP
DNAH2	146754	hgsc.bcm.edu	37	17	7662326	7662326	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	56	17	75	0	0.303571	0	.	.	none	.	DNAH2	498	.	NM_020877	exon14	c.G2332A	p.E778K	GAATTTGAAGAGG	.	PASS	Atlas-SNP
CASD1	64921	hgsc.bcm.edu	37	7	94173774	94173774	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	313	81	384	0	0.258786	0	.	.	none	.	CASD1	70	.	NM_022900	exon11	c.C1408T	p.Q470X	TTATTTCAGACAG	.	PASS	Atlas-SNP
AGFG1	3267	hgsc.bcm.edu	37	2	228401667	228401667	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	261	61	293	0	0.233716	0	.	.	none	.	AGFG1	80	.	NM_001135187	exon11	c.T1408G	p.S470A	GTGGCATCTTCTA	.	PASS	Atlas-SNP
PLEKHA7	144100	hgsc.bcm.edu	37	11	17035910	17035910	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	29	15	52	0	0.517241	0	.	.	none	.	PLEKHA7	120	.	NM_175058	exon1	c.G39A	p.E13E	CCAATGCTCAGGT	.	PASS	Atlas-SNP
EGR2	1959	hgsc.bcm.edu	37	10	64575715	64575715	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	63	18	73	2	0.285714	0.0273973	.	.	none	EGR2,NS,carcinoma,-1,1	EGR2	77	1	NM_000399	exon1	c.C75T	p.I25I	CGGGTAGATGTTG	.	scavenged	Atlas-SNP
STXBP3	6814	hgsc.bcm.edu	37	1	109289364	109289364	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	93	29	138	0	0.311828	0	.	.	none	.	STXBP3	44	.	NM_007269	exon1	c.C5T	p.A2V	AGATGGCGCCGCC	.	PASS	Atlas-SNP
MCM10	55388	hgsc.bcm.edu	37	10	13222489	13222489	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	106	15	138	0	0.141509	0	.	.	none	.	MCM10	76	.	NM_182751	exon7	c.G815A	p.R272Q	CCGGCCGAAAACT	.	PASS	Atlas-SNP
SLC30A4	7782	hgsc.bcm.edu	37	15	45814226	45814226	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	155	32	160	0	0.206452	0	.	.	none	.	SLC30A4	25	.	NM_013309	exon2	c.G327C	p.K109N	TTTCACCTTTCTC	.	PASS	Atlas-SNP
HOXD1	3231	hgsc.bcm.edu	37	2	177053759	177053759	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	23	7	29	0	0.304348	0	.	.	none	.	HOXD1	33	.	NM_024501	exon1	c.C230T	p.P77L	CGCCTCCGGCCGC	.	PASS	Atlas-SNP
XPO7	23039	hgsc.bcm.edu	37	8	21856273	21856273	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	74	24	115	0	0.324324	0	.	.	none	XPO7,NS,carcinoma,0,1	XPO7	79	1	NM_015024	exon22	c.C2353T	p.R785X	TCCCAGCGACTCC	.	PASS	Atlas-SNP
ARHGAP11A	9824	hgsc.bcm.edu	37	15	32929606	32929606	+	Missense_Mutation	SNP	G	G	A	rs144493501	bycluster;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	140	24	149	0	0.171429	0	G|1.000;A|0.000	0.000	strong	.	ARHGAP11A	84	.	NM_014783	exon12	c.G2632A	p.G878S	TGTGACGGTGCTC	.	PASS	Atlas-SNP
REV3L	5980	hgsc.bcm.edu	37	6	111656671	111656671	+	Splice_Site	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	84	20	88	0	0.238095	0	.	.	none	.	REV3L	386	.	NM_002912	exon23	c.7680+1G>A	.	TTCCCACCTGTGA	.	PASS	Atlas-SNP
PNPLA5	150379	hgsc.bcm.edu	37	22	44287689	44287689	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	83	21	111	0	0.253012	0	.	.	none	.	PNPLA5	46	.	NM_138814	exon1	c.C72T	p.H24H	GCCCACGTGGTGG	.	PASS	Atlas-SNP
ADAD2	161931	hgsc.bcm.edu	37	16	84228066	84228066	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	43	9	33	0	0.209302	0	.	.	none	.	ADAD2	46	.	NM_139174	exon3	c.C653T	p.S218L	CCTTCTCGGTGAG	.	PASS	Atlas-SNP
POPDC3	64208	hgsc.bcm.edu	37	6	105607586	105607586	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	166	43	219	0	0.259036	0	.	.	none	.	POPDC3	47	.	NM_022361	exon3	c.G594A	p.Q198Q	CCTTACCTGAAAA	.	PASS	Atlas-SNP
AFF2	2334	hgsc.bcm.edu	37	X	147743486	147743486	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	272	193	213	0	0.709559	0	.	.	none	.	AFF2	679	.	NM_002025	exon3	c.G238A	p.E80K	TATGATGAAATGA	.	PASS	Atlas-SNP
OR6B3	150681	hgsc.bcm.edu	37	2	240984801	240984801	+	Missense_Mutation	SNP	G	G	A	rs371957226		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	178	53	181	0	0.297753	0	.	.	weak	.	OR6B3	37	.	NM_173351	exon1	c.C689T	p.S230L	GTGGCCGAGGGGA	.	PASS	Atlas-SNP
LEMD3	23592	hgsc.bcm.edu	37	12	65564345	65564345	+	Silent	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	32	16	31	0	0.5	0	.	.	none	.	LEMD3	68	.	NM_001167614	exon1	c.G969T	p.A323A	GGCGGCGGCTGCC	.	PASS	Atlas-SNP
TYRP1	7306	hgsc.bcm.edu	37	9	12702305	12702305	+	Silent	SNP	T	T	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	199	36	184	0	0.180905	0	.	.	none	.	TYRP1	60	.	NM_000550	exon5	c.T948A	p.A316A	TCCAGCTGGAAAT	.	PASS	Atlas-SNP
FRMPD4	9758	hgsc.bcm.edu	37	X	12728588	12728588	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	67	47	59	0	0.701493	0	.	.	none	.	FRMPD4	214	.	NM_014728	exon14	c.T1541A	p.L514Q	ACCGGCTGCTTGT	.	PASS	Atlas-SNP
DCST1	149095	hgsc.bcm.edu	37	1	155013976	155013976	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	76	25	73	0	0.328947	0	.	.	none	.	DCST1	69	.	NM_152494	exon7	c.C635G	p.T212S	AGGATACCATGGA	.	PASS	Atlas-SNP
WDR16	146845	hgsc.bcm.edu	37	17	9515643	9515643	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	61	19	66	0	0.311475	0	.	.	none	.	WDR16	67	.	NM_145054	exon8	c.G872A	p.G291D	TACAAGGCGGCAT	.	PASS	Atlas-SNP
MTMR14	64419	hgsc.bcm.edu	37	3	9695364	9695364	+	Silent	SNP	G	G	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	132	22	151	0	0.166667	0	.	.	none	.	MTMR14	43	.	NM_022485	exon2	c.G219C	p.V73V	CAGCGTGATTCCA	.	PASS	Atlas-SNP
OR5M8	219484	hgsc.bcm.edu	37	11	56258097	56258097	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	82	39	110	0	0.47561	0	.	.	none	.	OR5M8	74	.	NM_001005282	exon1	c.C750A	p.F250L	TGCATAGAATATA	.	PASS	Atlas-SNP
TTC21B	79809	hgsc.bcm.edu	37	2	166770146	166770146	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	295	54	381	0	0.183051	0	.	.	none	.	TTC21B	130	.	NM_024753	exon16	c.G2149A	p.E717K	TTCTTTCAGCAAT	.	PASS	Atlas-SNP
SEC23B	10483	hgsc.bcm.edu	37	20	18492908	18492908	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	700	82	866	1	0.117143	0.00115473	.	.	none	.	SEC23B	70	.	NM_032985	exon3	c.C261T	p.F87F	TAATTTCTGTTTT	.	PASS	Atlas-SNP
FBRSL1	57666	hgsc.bcm.edu	37	12	133151086	133151086	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	72	11	80	0	0.152778	0	.	.	none	.	FBRSL1	47	.	NM_001142641	exon12	c.G1766A	p.G589E	AGCCGGGGAGGTG	.	PASS	Atlas-SNP
DTX3L	151636	hgsc.bcm.edu	37	3	122288257	122288257	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	158	46	211	0	0.291139	0	.	.	none	.	DTX3L	59	.	NM_138287	exon3	c.T1321A	p.F441I	GATGCCTTTCAAC	.	PASS	Atlas-SNP
LRRC39	127495	hgsc.bcm.edu	37	1	100623819	100623819	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	179	44	231	0	0.24581	0	.	.	none	LRRC39,caecum,carcinoma,+1,1	LRRC39	37	1	NM_144620	exon6	c.G481T	p.V161F	TGTTAACAGCCAG	.	PASS	Atlas-SNP
CTNND2	1501	hgsc.bcm.edu	37	5	11364898	11364898	+	Missense_Mutation	SNP	C	C	T	rs148824970	bycluster;byfrequency	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	77	26	98	0	0.337662	0	C|0.999;T|0.001	0.001	strong	CTNND2,NS,carcinoma,0,1	CTNND2	289	1	NM_001332	exon8	c.G1282A	p.V428I	GATAGACGCGGTC	.	PASS	Atlas-SNP
ZNF234	10780	hgsc.bcm.edu	37	19	44661732	44661732	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	95	22	101	0	0.231579	0	.	.	none	.	ZNF234	132	.	NM_006630	exon6	c.C1563T	p.F521F	GGTCTTCAGTCAG	.	PASS	Atlas-SNP
ZNF490	57474	hgsc.bcm.edu	37	19	12692409	12692409	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	288	74	340	0	0.256944	0	.	.	none	ZNF490,NS,carcinoma,0,1	ZNF490	42	1	NM_020714	exon5	c.G480A	p.V160V	CCCACACACACTG	.	PASS	Atlas-SNP
TGFBR3	7049	hgsc.bcm.edu	37	1	92161330	92161330	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	124	32	172	0	0.258065	0	.	.	none	.	TGFBR3	103	.	NM_003243	exon16	c.T2336A	p.F779Y	CCATGGAAAATTG	.	PASS	Atlas-SNP
SLC30A4	7782	hgsc.bcm.edu	37	15	45814162	45814162	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	142	43	146	0	0.302817	0	.	.	none	.	SLC30A4	25	.	NM_013309	exon2	c.G391C	p.G131R	ACTCACCTACAAG	.	PASS	Atlas-SNP
SLC30A4	7782	hgsc.bcm.edu	37	15	45814493	45814493	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	50	20	59	0	0.4	0	.	.	none	.	SLC30A4	25	.	NM_013309	exon2	c.G60A	p.P20P	AAACAGCGGCGCA	.	PASS	Atlas-SNP
IQGAP3	128239	hgsc.bcm.edu	37	1	156502774	156502774	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	88	25	94	0	0.284091	0	.	.	none	.	IQGAP3	146	.	NM_178229	exon32	c.G4101A	p.L1367L	CCACCTCAGAAGC	.	PASS	Atlas-SNP
ACTG1	71	hgsc.bcm.edu	37	17	79479257	79479257	+	Splice_Site	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	97	10	100	0	0.103093	0	.	.	none	.	ACTG1	55	.	NM_001199954	exon3	c.123+1G>A	.	CACTCACCTGGTG	.	PASS	Atlas-SNP
SON	6651	hgsc.bcm.edu	37	21	34924682	34924682	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	129	46	145	0	0.356589	0	.	.	none	.	SON	343	.	NM_032195	exon3	c.A3145C	p.M1049L	CGCTCTATGATGT	.	PASS	Atlas-SNP
OPRK1	4986	hgsc.bcm.edu	37	8	54147398	54147398	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	85	20	83	0	0.235294	0	.	.	none	.	OPRK1	90	.	NM_000912	exon3	c.C531T	p.I177I	ATTGATGATCTTT	.	PASS	Atlas-SNP
SIAH2	6478	hgsc.bcm.edu	37	3	150480589	150480589	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	88	30	118	0	0.340909	0	.	.	none	.	SIAH2	33	.	NM_005067	exon1	c.C48T	p.S16S	CTGCTTGCTGCAG	.	PASS	Atlas-SNP
MYBL1	4603	hgsc.bcm.edu	37	8	67479124	67479124	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	328	138	275	0	0.420732	0	.	.	none	.	MYBL1	73	.	NM_001080416	exon13	c.G1832A	p.S611N	TTGCAGCTTTTGT	.	PASS	Atlas-SNP
FREM1	158326	hgsc.bcm.edu	37	9	14750210	14750210	+	Silent	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	277	17	225	0	0.0613718	0	.	.	none	FREM1_ENST00000380894,NS,carcinoma,0,2	FREM1	261	2	NM_144966	exon31	c.C5472A	p.V1824V	TTCAAAGACCTCA	.	PASS	Atlas-SNP
SOCS1	8651	hgsc.bcm.edu	37	16	11348767	11348767	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	78	20	84	0	0.25641	0	.	.	none	.	SOCS1	84	.	NM_003745	exon2	c.A569G	p.N190S	GCCAGGTTCTCGC	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1272843	1272843	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	33	16	38	0	0.484848	0	.	.	none	.	MUC5B	473	.	NM_002458	exon31	c.C14733T	p.S4911S	CCCCAGCAGCCTG	.	PASS	Atlas-SNP
TACC2	10579	hgsc.bcm.edu	37	10	124009153	124009153	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	128	33	154	0	0.257812	0	.	.	none	.	TACC2	271	.	NM_206862	exon22	c.G8755A	p.A2919T	GTGGACGCCCTGG	.	PASS	Atlas-SNP
TSPAN31	6302	hgsc.bcm.edu	37	12	58139640	58139640	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	162	80	170	0	0.493827	0	.	.	none	.	TSPAN31	20	.	NM_005981	exon2	c.T176C	p.I59T	TCCTTATTGCAGT	.	PASS	Atlas-SNP
CASKIN1	57524	hgsc.bcm.edu	37	16	2239543	2239543	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	47	16	54	0	0.340426	0	.	.	none	.	CASKIN1	130	.	NM_020764	exon4	c.G267A	p.A89A	CCAGGCCGCATAG	.	PASS	Atlas-SNP
PRDM2	7799	hgsc.bcm.edu	37	1	14105995	14105995	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	74	12	95	0	0.162162	0	.	.	none	.	PRDM2	147	.	NM_015866	exon8	c.T1705C	p.Y569H	AATTACTATATTG	.	PASS	Atlas-SNP
UPF1	5976	hgsc.bcm.edu	37	19	18965440	18965440	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	82	23	103	0	0.280488	0	.	.	none	.	UPF1	88	.	NM_002911	exon9	c.G1187A	p.R396Q	AGCTGCGGAGCAG	.	PASS	Atlas-SNP
TMEM135	65084	hgsc.bcm.edu	37	11	86782566	86782566	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	227	107	229	0	0.471366	0	.	.	none	.	TMEM135	40	.	NM_022918	exon3	c.A271T	p.K91X	TTCAGGAAGATAC	.	PASS	Atlas-SNP
NPEPPS	9520	hgsc.bcm.edu	37	17	45699275	45699275	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	62	14	59	0	0.225806	0	.	.	none	.	NPEPPS	59	.	NM_006310	exon23	c.C2749G	p.P917A	TCACCACCCACAG	.	PASS	Atlas-SNP
FGFR2	2263	hgsc.bcm.edu	37	10	123325112	123325112	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	146	47	185	0	0.321918	0	.	.	none	.	FGFR2	758	.	NM_022970	exon3	c.G216C	p.W72C	CTTAGTCCAACTG	.	PASS	Atlas-SNP
CSRP2BP	57325	hgsc.bcm.edu	37	20	18131484	18131484	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	186	54	213	0	0.290323	0	.	.	none	.	CSRP2BP	80	.	NM_020536	exon3	c.A398T	p.Y133F	CAATGTACAACTT	.	PASS	Atlas-SNP
XIRP2	129446	hgsc.bcm.edu	37	2	168106466	168106466	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	352	114	340	2	0.323864	0.00588235	.	.	none	XIRP2,NS,carcinoma,0,1	XIRP2	914	1	NM_152381	exon9	c.A8564G	p.Q2855R	TCAAGCAAAAGGT	.	scavenged	Atlas-SNP
PAPD4	167153	hgsc.bcm.edu	37	5	78915498	78915498	+	Silent	SNP	C	C	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	413	169	354	0	0.409201	0	.	.	none	.	PAPD4	51	.	NM_173797	exon3	c.C27A	p.R9R	GGGTCGCCCACCC	.	PASS	Atlas-SNP
SVIL	6840	hgsc.bcm.edu	37	10	29751241	29751241	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	109	29	100	0	0.266055	0	.	.	none	.	SVIL	226	.	NM_021738	exon36	c.G6367C	p.E2123Q	TGTGCTCCCAGCT	.	PASS	Atlas-SNP
LEKR1	389170	hgsc.bcm.edu	37	3	156742690	156742690	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	283	40	274	0	0.141343	0	.	.	none	.	LEKR1	66	.	NM_001004316	exon11	c.G1345A	p.E449K	AAGAAAGAACAAG	.	PASS	Atlas-SNP
RBMXL3	139804	hgsc.bcm.edu	37	X	114426499	114426499	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	33	22	35	0	0.666667	0	.	.	none	.	RBMXL3	83	.	NM_001145346	exon1	c.G2495T	p.G832V	GCGGAGGCCACTC	.	PASS	Atlas-SNP
NCKAP1	10787	hgsc.bcm.edu	37	2	183822287	183822287	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	297	23	348	0	0.0774411	0	.	.	none	.	NCKAP1	105	.	NM_205842	exon20	c.C1937T	p.A646V	TTCACTGCTTGAC	.	PASS	Atlas-SNP
C5orf60	285679	hgsc.bcm.edu	37	5	179071893	179071893	+	Silent	SNP	A	A	G	rs4990388	bycluster;by2hit2allele;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	152	8	120	3	0.0526316	0.025	A|0.993;G|0.007	0.007	strong	C5orf60,NS,carcinoma,0,2	C5orf60	24	2	NM_001142306	exon1	c.T129C	p.F43F	CACAACAAAGAGG	.	scavenged	Atlas-SNP
TRIO	7204	hgsc.bcm.edu	37	5	14397228	14397228	+	Missense_Mutation	SNP	G	G	A	rs373502206		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	118	11	126	0	0.0932203	0	.	.	weak	.	TRIO	305	.	NM_007118	exon29	c.G4388A	p.R1463Q	CGAAGCGAGCCAA	.	PASS	Atlas-SNP
C9orf41	138199	hgsc.bcm.edu	37	9	77632226	77632226	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	157	45	161	0	0.286624	0	.	.	none	.	C9orf41	57	.	NM_152420	exon2	c.A369G	p.L123L	GGTCAGTAGTATT	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126240717	126240717	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	148	23	164	0	0.155405	0	.	.	none	FAT4_ENST00000394329,colon,carcinoma,0,2	FAT4	1752	2	NM_024582	exon1	c.C3151T	p.Q1051X	GATGGTCAATTGT	.	PASS	Atlas-SNP
SH3RF2	153769	hgsc.bcm.edu	37	5	145428733	145428733	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	101	23	101	0	0.227723	0	.	.	none	.	SH3RF2	58	.	NM_152550	exon7	c.G1247C	p.G416A	AGGACGGCTGGCT	.	PASS	Atlas-SNP
TBCC	6903	hgsc.bcm.edu	37	6	42713452	42713452	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	41	13	39	0	0.317073	0	.	.	none	.	TBCC	31	.	NM_003192	exon1	c.G360A	p.L120L	CGCCTGCAGCCGC	.	PASS	Atlas-SNP
UBE2J1	51465	hgsc.bcm.edu	37	6	90062277	90062277	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	48	16	52	0	0.333333	0	.	.	none	.	UBE2J1	28	.	NM_016021	exon1	c.C12T	p.R4R	GTTGTAGCGGGTC	.	PASS	Atlas-SNP
CD83	9308	hgsc.bcm.edu	37	6	14118269	14118269	+	Missense_Mutation	SNP	G	G	C	rs199841901	by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	25	7	36	0	0.28	0	G|1.000;C|0.000	0.000	strong	CD83,NS,lymphoid_neoplasm,0,1	CD83	23	1	NM_004233	exon2	c.G126C	p.Q42H	TCCGCAGGTTCCC	.	PASS	Atlas-SNP
ZFHX4	79776	hgsc.bcm.edu	37	8	77616687	77616687	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	99	42	106	0	0.424242	0	.	.	none	ZFHX4,colon,carcinoma,-1,1	ZFHX4	878	1	NM_024721	exon2	c.A364T	p.S122C	GAGGACAGTGACG	.	PASS	Atlas-SNP
FASN	2194	hgsc.bcm.edu	37	17	80046669	80046669	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	51	19	76	0	0.372549	0	.	.	none	.	FASN	154	.	NM_004104	exon15	c.C2388A	p.F796L	GGCCAGGAAGAAC	.	PASS	Atlas-SNP
CCNH	902	hgsc.bcm.edu	37	5	86708576	86708576	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	64	26	46	0	0.40625	0	.	.	none	.	CCNH	40	.	NM_001239	exon1	c.C36T	p.T12T	GGAGAAGGTCCAG	.	PASS	Atlas-SNP
SHANK1	50944	hgsc.bcm.edu	37	19	51169477	51169477	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	49	14	66	1	0.285714	0.0151515	.	.	none	SHANK1,caecum,carcinoma,0,1	SHANK1	210	1	NM_016148	exon22	c.G5740A	p.E1914K	TCCTCTCGGGGAC	.	scavenged	Atlas-SNP
VPS35	55737	hgsc.bcm.edu	37	16	46706252	46706252	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	165	15	169	0	0.0909091	0	.	.	none	VPS35,NS,carcinoma,-2,1	VPS35	49	1	NM_018206	exon11	c.G1293A	p.E431E	TCTGGACTCGTAG	.	PASS	Atlas-SNP
GALNT11	63917	hgsc.bcm.edu	37	7	151818708	151818708	+	Silent	SNP	C	C	T	rs368113531	bycluster	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	165	49	216	0	0.29697	0	.	.	weak	GALNT11,NS,carcinoma,0,1	GALNT11	59	1	NM_022087	exon12	c.C1773T	p.V591V	CTCTGTCGCCATG	.	PASS	Atlas-SNP
ST7L	54879	hgsc.bcm.edu	37	1	113126634	113126634	+	Missense_Mutation	SNP	C	C	A	rs200595897	alternate_allele	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	164	46	174	0	0.280488	0	C|0.999;T|0.001	.	alt	.	ST7L	31	.	NM_138729	exon7	c.G816T	p.Q272H	GCACTGCTGTGAC	.	PASS	Atlas-SNP
PCBD2	84105	hgsc.bcm.edu	37	5	134296332	134296332	+	Silent	SNP	G	G	A	rs144454290	bycluster;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	219	10	182	0	0.0456621	0	G|1.000;A|0.000	0.000	strong	.	PCBD2	3	.	NM_032151	exon4	c.G354A	p.K118K	TGTGAAGCTGGCC	.	PASS	Atlas-SNP
NUP188	23511	hgsc.bcm.edu	37	9	131768932	131768932	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	51	14	59	0	0.27451	0	.	.	none	.	NUP188	140	.	NM_015354	exon44	c.C5225T	p.A1742V	TGCAGGCGTTTGT	.	PASS	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	37	6	31602134	31602134	+	Nonsense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	64	27	123	0	0.421875	0	.	.	none	.	PRRC2A	152	.	NM_004638	exon19	c.T4841G	p.L1614X	ACCGTTTACATAC	.	PASS	Atlas-SNP
C12orf66	144577	hgsc.bcm.edu	37	12	64587914	64587914	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	110	14	118	0	0.127273	0	.	.	none	.	C12orf66	28	.	NM_152440	exon3	c.T1046A	p.V349E	GACACTACAGCTG	.	PASS	Atlas-SNP
EP400	57634	hgsc.bcm.edu	37	12	132498342	132498342	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	84	35	118	0	0.416667	0	.	.	none	.	EP400	370	.	NM_015409	exon19	c.G3807A	p.L1269L	TATTTTGAGGAGA	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	37	5	79028813	79028813	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	141	20	119	0	0.141844	0	.	.	none	CMYA5_ENST00000446378,colon,carcinoma,-1,2	CMYA5	643	2	NM_153610	exon2	c.G4225T	p.E1409X	GCAGATGAACATT	.	PASS	Atlas-SNP
KLHL1	57626	hgsc.bcm.edu	37	13	70681527	70681527	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	90	14	151	0	0.155556	0	.	.	none	.	KLHL1	164	.	NM_020866	exon1	c.G305C	p.R102T	TGCAGCCTCGTGG	.	PASS	Atlas-SNP
POTEH	23784	hgsc.bcm.edu	37	22	16287562	16287562	+	Missense_Mutation	SNP	G	G	C	rs202187764	bycluster;byfrequency	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	106	21	166	23	0.198113	0.138554	G|0.975;C|0.025	0.025	strong	POTEH,NS,carcinoma,0,1	POTEH	114	1	NM_001136213	exon1	c.C324G	p.C108W	CCTGCAGCAGGGG	.	scavenged	Atlas-SNP
PTGS2	5743	hgsc.bcm.edu	37	1	186648465	186648465	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	152	26	182	0	0.171053	0	.	.	none	.	PTGS2	144	.	NM_000963	exon2	c.A158T	p.N53I	GAGCAGTTTTCTC	.	PASS	Atlas-SNP
SFTPA1	653509	hgsc.bcm.edu	37	10	81373777	81373777	+	Missense_Mutation	SNP	C	C	T	rs4253527	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	328	45	420	0	0.137195	0	C|0.901;T|0.099	0.099	strong	.	SFTPA1	23	.	NM_001093770	exon6	c.C700T	p.R234W	GCAGGTCGGGGAA	.	PASS	Atlas-SNP
STX16	8675	hgsc.bcm.edu	37	20	57227077	57227077	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	42	10	68	0	0.238095	0	.	.	none	.	STX16	36	.	NM_001134772	exon1	c.T15C	p.R5R	CAGGCGTTTAACC	.	PASS	Atlas-SNP
DYRK1B	9149	hgsc.bcm.edu	37	19	40317311	40317311	+	Splice_Site	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	74	20	76	0	0.27027	0	.	.	none	.	DYRK1B	114	.	NM_006483	exon10	c.1291+1G>A	.	CACCCACCAGAAC	.	PASS	Atlas-SNP
BCL11B	64919	hgsc.bcm.edu	37	14	99641876	99641876	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	40	19	62	0	0.475	0	.	.	none	BCL11B,NS,carcinoma,+1,1	BCL11B	108	1	NM_138576	exon4	c.G1297A	p.G433S	TCTTGCCGCAGAA	.	PASS	Atlas-SNP
MME	4311	hgsc.bcm.edu	37	3	154860063	154860063	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	133	39	179	0	0.293233	0	.	.	none	.	MME	133	.	NM_007287	exon12	c.G1132A	p.D378N	ATAATGGATCTTG	.	PASS	Atlas-SNP
LY9	4063	hgsc.bcm.edu	37	1	160783595	160783595	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	58	11	59	0	0.189655	0	.	.	none	.	LY9	115	.	NM_001261457	exon3	c.C624T	p.T208T	TCTTACCGTCTCC	.	PASS	Atlas-SNP
ZNF615	284370	hgsc.bcm.edu	37	19	52497677	52497677	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	252	66	257	0	0.261905	0	.	.	none	.	ZNF615	111	.	NM_001199324	exon7	c.C685G	p.Q229E	TAAACTGAGACAA	.	PASS	Atlas-SNP
HOOK1	51361	hgsc.bcm.edu	37	1	60325900	60325900	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	169	42	258	0	0.248521	0	.	.	none	.	HOOK1	54	.	NM_015888	exon15	c.C1432T	p.R478C	ATGCTTCGCTTAC	.	PASS	Atlas-SNP
ITGA10	8515	hgsc.bcm.edu	37	1	145537774	145537774	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	80	18	81	0	0.225	0	.	.	none	.	ITGA10	131	.	NM_003637	exon21	c.C2612T	p.S871F	CCCCTTCTGCTCA	.	PASS	Atlas-SNP
TIGD1	200765	hgsc.bcm.edu	37	2	233413881	233413881	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	59	12	54	0	0.20339	0	.	.	none	.	TIGD1	17	.	NM_145702	exon1	c.A712T	p.I238F	GGTAAATAAGCAT	.	PASS	Atlas-SNP
ACADSB	36	hgsc.bcm.edu	37	10	124810591	124810591	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	75	27	98	0	0.36	0	.	.	none	.	ACADSB	45	.	NM_001609	exon9	c.G1017A	p.V339V	TCACGTGGCCACC	.	PASS	Atlas-SNP
MUC15	143662	hgsc.bcm.edu	37	11	26584710	26584710	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	91	53	132	0	0.582418	0	.	.	none	MUC15,NS,carcinoma,0,1	MUC15	88	1	NM_001135091	exon4	c.C878T	p.T293M	GAATCCGTTTTCC	.	PASS	Atlas-SNP
PPP1R27	116729	hgsc.bcm.edu	37	17	79791648	79791648	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	54	17	60	0	0.314815	0	.	.	none	.	.	.	.	NM_001007533	exon3	c.A422G	p.Y141C	TCCTTGTAGTCCG	.	PASS	Atlas-SNP
NCR1	9437	hgsc.bcm.edu	37	19	55423582	55423582	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	84	34	96	0	0.404762	0	.	.	none	.	NCR1	60	.	NM_004829	exon6	c.G729A	p.Q243Q	ACTCCAGAAAGGT	.	PASS	Atlas-SNP
CYP27C1	339761	hgsc.bcm.edu	37	2	127957076	127957076	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	92	30	66	0	0.326087	0	.	.	none	.	CYP27C1	52	.	NM_001001665	exon4	c.A428T	p.Y143F	ATTTGGTACTGTA	.	PASS	Atlas-SNP
TNFAIP3	7128	hgsc.bcm.edu	37	6	138202395	138202395	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	116	37	146	0	0.318966	0	.	.	none	.	TNFAIP3	340	.	NM_001270507	exon9	c.G2312A	p.G771D	ATTTTGGCAATGC	.	PASS	Atlas-SNP
VCPIP1	80124	hgsc.bcm.edu	37	8	67577531	67577531	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	158	76	152	0	0.481013	0	.	.	none	.	VCPIP1	110	.	NM_025054	exon1	c.A1663G	p.I555V	ACACAATAGACCC	.	PASS	Atlas-SNP
PALB2	79728	hgsc.bcm.edu	37	16	23614908	23614908	+	Missense_Mutation	SNP	C	C	T	rs180177137	alternate_allele	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	94	18	112	0	0.191489	0	.	.	alt	.	PALB2	108	.	NM_024675	exon13	c.G3433A	p.G1145S	ACTGACCGAGAAG	.	PASS	Atlas-SNP
FAM50A	9130	hgsc.bcm.edu	37	X	153674051	153674051	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	95	67	84	0	0.705263	0	.	.	none	.	FAM50A	32	.	NM_004699	exon2	c.A182G	p.K61R	AGCTCAAGTCCAG	.	PASS	Atlas-SNP
PLEKHS1	79949	hgsc.bcm.edu	37	10	115531832	115531832	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	99	29	136	0	0.292929	0	.	.	none	C10orf81_ENST00000369312,colon,carcinoma,0,2	PLEKHS1	19	2	NM_024889	exon8	c.G656A	p.R219Q	CTCCTCGAAGTGT	.	PASS	Atlas-SNP
ERBB4	2066	hgsc.bcm.edu	37	2	213403208	213403208	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	100	47	86	0	0.47	0	.	.	none	ERBB4,NS,carcinoma,0,1	ERBB4	480	1	NM_001042599	exon1	c.C47T	p.A16V	CCCGCCGCCACGA	.	PASS	Atlas-SNP
ATP12A	479	hgsc.bcm.edu	37	13	25285537	25285537	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	111	21	169	0	0.189189	0	.	.	none	.	ATP12A	172	.	NM_001185085	exon22	c.C3099T	p.L1033L	CAGGCTCTACCCT	.	PASS	Atlas-SNP
ZNF572	137209	hgsc.bcm.edu	37	8	125989683	125989683	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	115	56	77	0	0.486957	0	.	.	none	ZNF572,parotid,carcinoma,+2,1	ZNF572	82	1	NM_152412	exon3	c.G1173A	p.K391K	TGGGAAGAGTTTT	.	PASS	Atlas-SNP
SLC16A13	201232	hgsc.bcm.edu	37	17	6941796	6941796	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	97	41	156	0	0.42268	0	.	.	none	.	SLC16A13	28	.	NM_201566	exon3	c.C669T	p.L223L	TGCCCTCACCCTG	.	PASS	Atlas-SNP
STAT6	6778	hgsc.bcm.edu	37	12	57492825	57492825	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	71	18	97	0	0.253521	0	.	.	none	.	STAT6	69	.	NM_001178079	exon17	c.C1928T	p.P643L	GTAGCTGGGACAT	.	PASS	Atlas-SNP
FAM227A	646851	hgsc.bcm.edu	37	22	38995862	38995862	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	124	20	146	0	0.16129	0	.	.	none	.	.	.	.	NM_001013647	exon14	c.C1286T	p.P429L	ATCAGAGGGCTCT	.	PASS	Atlas-SNP
DOCK10	55619	hgsc.bcm.edu	37	2	225637895	225637895	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	94	10	95	0	0.106383	0	.	.	none	.	DOCK10	308	.	NM_014689	exon53	c.G6183A	p.L2061L	TCCTTGCAGTTTG	.	PASS	Atlas-SNP
AGPAT2	10555	hgsc.bcm.edu	37	9	139568309	139568309	+	Silent	SNP	G	G	A	rs200288462	bycluster	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	71	25	68	0	0.352113	0	G|0.997;A|0.003	0.003	weak	.	AGPAT2	17	.	NM_006412	exon6	c.C732T	p.L244L	GTCCACGAGCGCA	.	PASS	Atlas-SNP
PHF19	26147	hgsc.bcm.edu	37	9	123632173	123632173	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	57	9	69	0	0.157895	0	.	.	none	.	PHF19	47	.	NM_015651	exon5	c.C415T	p.L139L	TGAGCAGGGGCTG	.	PASS	Atlas-SNP
SOCS1	8651	hgsc.bcm.edu	37	16	11348920	11348920	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	64	20	57	0	0.3125	0	.	.	none	.	SOCS1	84	.	NM_003745	exon2	c.G416A	p.G139D	CGGCTGCCATCCA	.	PASS	Atlas-SNP
LINGO3	645191	hgsc.bcm.edu	37	19	2290848	2290848	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	128	39	155	0	0.304688	0	.	.	none	.	LINGO3	19	.	NM_001101391	exon2	c.G928A	p.E310K	GCGGCTCCACCAC	.	PASS	Atlas-SNP
HIST1H2BJ	8970	hgsc.bcm.edu	37	6	27100437	27100437	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	129	13	182	0	0.100775	0	.	.	none	.	HIST1H2BJ	21	.	NM_021058	exon1	c.G93A	p.K31K	GCTGCGCTTGCGC	.	PASS	Atlas-SNP
CNRIP1	25927	hgsc.bcm.edu	37	2	68521067	68521067	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	131	34	159	0	0.259542	0	.	.	none	.	CNRIP1	45	.	NM_015463	exon3	c.C422T	p.S141F	ATGACAGAGAAGG	.	PASS	Atlas-SNP
INPPL1	3636	hgsc.bcm.edu	37	11	71949157	71949157	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	95	51	121	1	0.536842	0.00826446	.	.	none	INPPL1,bladder,carcinoma,0,1	INPPL1	120	1	NM_001567	exon27	c.C3624T	p.I1208I	GGCCATCGGCTTG	.	scavenged	Atlas-SNP
BCL2A1	597	hgsc.bcm.edu	37	15	80263370	80263370	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	212	35	222	0	0.165094	0	.	.	none	.	BCL2A1	28	.	NM_001114735	exon1	c.G92A	p.S31N	GTTTTGCTTGGAC	.	PASS	Atlas-SNP
KCNAB3	9196	hgsc.bcm.edu	37	17	7832622	7832622	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	68	28	59	0	0.411765	0	.	.	none	.	KCNAB3	30	.	NM_004732	exon1	c.G132A	p.P44P	ACCCCCCGGAGGA	.	PASS	Atlas-SNP
TAC3	6866	hgsc.bcm.edu	37	12	57407443	57407443	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	38	19	38	0	0.5	0	.	.	none	.	TAC3	11	.	NM_013251	exon3	c.C127T	p.L43F	GGTAGAGATCTGG	.	PASS	Atlas-SNP
FAM104A	84923	hgsc.bcm.edu	37	17	71228291	71228291	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	93	29	98	0	0.311828	0	.	.	none	.	FAM104A	15	.	NM_032837	exon1	c.C155T	p.S52F	CGAAGAGAGGGAA	.	PASS	Atlas-SNP
PARD3B	117583	hgsc.bcm.edu	37	2	206041194	206041194	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	302	61	360	0	0.201987	0	.	.	none	.	PARD3B	314	.	NM_205863	exon13	c.C1817T	p.S606F	CATTTTCCAAGCC	.	PASS	Atlas-SNP
ZNF208	7757	hgsc.bcm.edu	37	19	22155873	22155873	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	120	29	152	0	0.241667	0	.	.	none	.	ZNF208	817	.	NM_007153	exon4	c.C1963A	p.H655N	CCTTATGTGTAGT	.	PASS	Atlas-SNP
MLLT3	4300	hgsc.bcm.edu	37	9	20414346	20414346	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	136	21	120	6	0.154412	0.05	.	.	none	MLLT3,NS,carcinoma,0,7	MLLT3	125	7	NM_004529	exon5	c.C498T	p.S166S	GCTACTGCTGCTG	.	scavenged	Atlas-SNP
TMEM30A	55754	hgsc.bcm.edu	37	6	75969173	75969173	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	262	59	348	0	0.225191	0	.	.	none	.	TMEM30A	40	.	NM_018247	exon5	c.C575G	p.S192C	GGATAAGAATCAT	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187542336	187542336	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	108	18	127	0	0.166667	0	.	.	none	.	FAT1	500	.	NM_005245	exon10	c.G5404C	p.D1802H	TTGAGTCTTTATC	.	PASS	Atlas-SNP
PXDN	7837	hgsc.bcm.edu	37	2	1653227	1653227	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	101	25	119	0	0.247525	0	.	.	none	.	PXDN	255	.	NM_012293	exon17	c.C2325T	p.F775F	GGTGTTGAAGCCA	.	PASS	Atlas-SNP
MCF2L	23263	hgsc.bcm.edu	37	13	113724398	113724398	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	31	12	54	0	0.387097	0	.	.	none	.	MCF2L	182	.	NM_001112732	exon9	c.G907A	p.E303K	GAAACCGAGGCTG	.	PASS	Atlas-SNP
ACTB	60	hgsc.bcm.edu	37	7	5569251	5569251	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	56	7	64	0	0.125	0	.	.	none	.	ACTB	45	.	NM_001101	exon2	c.G38C	p.G13A	CCGGAGCCGTTGT	.	PASS	Atlas-SNP
ERBB2IP	55914	hgsc.bcm.edu	37	5	65374285	65374285	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	376	162	341	1	0.430851	0.00293255	.	.	none	.	ERBB2IP	120	.	NM_001253699	exon26	c.G4187A	p.G1396E	AACATGGACAAGC	.	PASS	Atlas-SNP
CHD2	1106	hgsc.bcm.edu	37	15	93552523	93552523	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	47	17	55	0	0.361702	0	.	.	none	.	CHD2	280	.	NM_001271	exon35	c.C4562G	p.S1521X	CCTACTCAGATCA	.	PASS	Atlas-SNP
OR2M2	391194	hgsc.bcm.edu	37	1	248343746	248343746	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	258	71	376	0	0.275194	0	.	.	none	.	OR2M2	149	.	NM_001004688	exon1	c.T459C	p.S153S	GGGCTCTACAGAT	.	PASS	Atlas-SNP
PRDM16	63976	hgsc.bcm.edu	37	1	3321441	3321441	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	44	11	39	0	0.25	0	.	.	none	.	PRDM16	147	.	NM_022114	exon7	c.C1023G	p.N341K	TGAAAACTGCGTG	.	PASS	Atlas-SNP
SYNPO2	171024	hgsc.bcm.edu	37	4	119978995	119978995	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	119	14	148	0	0.117647	0	.	.	none	.	SYNPO2	353	.	NM_133477	exon5	c.C3692T	p.A1231V	ATTCTGCAATCAT	.	PASS	Atlas-SNP
UACA	55075	hgsc.bcm.edu	37	15	70961044	70961044	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	358	100	460	0	0.27933	0	.	.	none	.	UACA	235	.	NM_018003	exon16	c.C1979T	p.S660L	CTAAGTGATTTTT	.	PASS	Atlas-SNP
GPM6A	2823	hgsc.bcm.edu	37	4	176923581	176923581	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	104	15	134	0	0.144231	0	.	.	none	.	GPM6A	70	.	NM_001261447	exon1	c.C161T	p.A54V	AGCCTCGCCCCTC	.	PASS	Atlas-SNP
MITF	4286	hgsc.bcm.edu	37	3	69915452	69915452	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	90	9	128	0	0.1	0	.	.	none	.	MITF	156	.	NM_198177	exon1	c.T11C	p.L4P	AGGCGCTTAGAGT	.	PASS	Atlas-SNP
CCDC39	339829	hgsc.bcm.edu	37	3	180334082	180334082	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	118	31	208	0	0.262712	0	.	.	none	.	CCDC39	242	.	NM_181426	exon19	c.T2656C	p.S886P	ATAGTGAAGTATG	.	PASS	Atlas-SNP
CNTN5	53942	hgsc.bcm.edu	37	11	100211841	100211841	+	Silent	SNP	T	T	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	130	12	151	0	0.0923077	0	.	.	none	.	CNTN5	324	.	NM_001243270	exon22	c.T2934A	p.P978P	AGCACCTAGCAAC	.	PASS	Atlas-SNP
LRRN3	54674	hgsc.bcm.edu	37	7	110763595	110763595	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	148	38	207	0	0.256757	0	.	.	none	.	LRRN3	132	.	NM_018334	exon2	c.T767C	p.L256P	TTGCTCTTCAAAA	.	PASS	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	37	8	110535472	110535472	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	80	17	78	0	0.2125	0	.	.	none	.	PKHD1L1	522	.	NM_177531	exon76	c.T12341C	p.V4114A	ACTGTGTATCAGT	.	PASS	Atlas-SNP
FAM35A	54537	hgsc.bcm.edu	37	10	88939926	88939926	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	406	112	454	2	0.275862	0.00440529	.	.	none	FAM35A,NS,carcinoma,+1,1	FAM35A	48	1	NM_019054	exon7	c.T2058G	p.S686R	GAAGAGTATTTTT	.	scavenged	Atlas-SNP
HHIPL2	79802	hgsc.bcm.edu	37	1	222721252	222721252	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	69	22	90	0	0.318841	0	.	.	none	.	HHIPL2	122	.	NM_024746	exon1	c.C135T	p.C45C	ATCCAGGCACTGG	.	PASS	Atlas-SNP
IL12RB1	3594	hgsc.bcm.edu	37	19	18174694	18174694	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	43	12	43	0	0.27907	0	.	.	none	.	IL12RB1	92	.	NM_005535	exon13	c.T1610A	p.F537Y	ATGCTGAAGCGCT	.	PASS	Atlas-SNP
KCNE1L	23630	hgsc.bcm.edu	37	X	108867913	108867913	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	50	36	38	0	0.72	0	.	.	none	.	KCNE1L	8	.	NM_012282	exon1	c.G337A	p.A113T	CCTCGGCGTCGGC	.	PASS	Atlas-SNP
FRMPD1	22844	hgsc.bcm.edu	37	9	37745741	37745741	+	Missense_Mutation	SNP	G	G	C	rs62640014	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	91	18	69	0	0.197802	0	G|0.998;T|0.002	.	alt	FRMPD1,colon,carcinoma,-1,3	FRMPD1	237	3	NM_014907	exon16	c.G3712C	p.D1238H	GGGCAAGATATAG	.	PASS	Atlas-SNP
DYNC1H1	1778	hgsc.bcm.edu	37	14	102452967	102452967	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	120	38	148	0	0.316667	0	.	.	none	.	DYNC1H1	395	.	NM_001376	exon8	c.C2405T	p.S802F	CCATTTCCCTTTT	.	PASS	Atlas-SNP
DBI	1622	hgsc.bcm.edu	37	2	120124666	120124666	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	102	43	123	0	0.421569	0	.	.	none	.	DBI	10	.	NM_001178043	exon1	c.G39T	p.K13N	TGCGAAGGTGCAG	.	PASS	Atlas-SNP
PAK4	10298	hgsc.bcm.edu	37	19	39660292	39660292	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	73	18	88	0	0.246575	0	.	.	none	.	PAK4	40	.	NM_001014832	exon2	c.G99A	p.T33T	GTTCACGGGGCTG	.	PASS	Atlas-SNP
ENOX1	55068	hgsc.bcm.edu	37	13	43918835	43918835	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	128	42	210	0	0.328125	0	.	.	none	ENOX1_ENST00000261488,NS,malignant_melanoma,0,2	ENOX1	158	2	NM_017993	exon9	c.G875A	p.R292Q	TCCCCTCGTTCAA	.	PASS	Atlas-SNP
MYO9A	4649	hgsc.bcm.edu	37	15	72338093	72338093	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	62	25	109	0	0.403226	0	.	.	none	.	MYO9A	203	.	NM_006901	exon2	c.T812G	p.I271S	AGAATAATCTGTT	.	PASS	Atlas-SNP
HLA-A	3105	hgsc.bcm.edu	37	6	29911109	29911109	+	Silent	SNP	G	G	A	rs61760917	bycluster	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	67	32	165	0	0.477612	0	.	.	weak	HLA-A,colon,carcinoma,+2,1	HLA-A	89	1	NM_001242758	exon3	c.G408A	p.G136G	CCGCGGGTACCGG	.	PASS	Atlas-SNP
PHOX2B	8929	hgsc.bcm.edu	37	4	41747879	41747879	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	37	17	48	0	0.459459	0	.	.	none	.	PHOX2B	53	.	NM_003924	exon3	c.C890T	p.S297L	TGGAGCGAAGATA	.	PASS	Atlas-SNP
OR2AK2	391191	hgsc.bcm.edu	37	1	248129487	248129487	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	167	27	215	0	0.161677	0	.	.	none	.	OR2AK2	90	.	NM_001004491	exon1	c.G854A	p.R285Q	CTTCACGGGATAA	.	PASS	Atlas-SNP
COL5A2	1290	hgsc.bcm.edu	37	2	189916123	189916123	+	Missense_Mutation	SNP	G	G	A	rs199530997	bycluster;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	129	36	123	0	0.27907	0	G|0.999;A|0.001	0.001	strong	.	COL5A2	230	.	NM_000393	exon42	c.C2854T	p.R952C	CCACACGCCCATG	.	PASS	Atlas-SNP
FBXL20	84961	hgsc.bcm.edu	37	17	37557627	37557627	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	107	33	180	0	0.308411	0	.	.	none	.	FBXL20	36	.	NM_001184906	exon1	c.A29C	p.K10T	CTGCTCTTGGTCA	.	PASS	Atlas-SNP
ESPL1	9700	hgsc.bcm.edu	37	12	53683328	53683328	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	58	25	60	0	0.431034	0	.	.	none	.	ESPL1	158	.	NM_012291	exon22	c.C5063T	p.P1688L	ACTTCCCCCAGCC	.	PASS	Atlas-SNP
IFI27L2	83982	hgsc.bcm.edu	37	14	94594298	94594298	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	110	17	152	0	0.154545	0	.	.	none	IFI27L2,NS,carcinoma,-2,1	IFI27L2	14	1	NM_032036	exon4	c.C231T	p.I77I	CAGGAGGATGTTG	.	PASS	Atlas-SNP
CNTNAP3B	728577	hgsc.bcm.edu	37	9	43709680	43709680	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	723	137	609	0	0.189488	0	.	.	none	.	CNTNAP3B	37	.	NM_001201380	exon2	c.T116G	p.L39W	CTGCCTTGCCTAG	.	PASS	Atlas-SNP
ITGA2	3673	hgsc.bcm.edu	37	5	52347391	52347391	+	Splice_Site	SNP	T	T	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	154	18	165	0	0.116883	0	.	.	none	.	ITGA2	211	.	NM_002203	exon7	c.779+2T>A	.	GCAAGGTAAGTTT	.	PASS	Atlas-SNP
CPEB4	80315	hgsc.bcm.edu	37	5	173317237	173317237	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	153	36	129	1	0.235294	0.00775194	.	.	none	CPEB4,NS,carcinoma,+2,1	CPEB4	54	1	NM_030627	exon1	c.T501C	p.G167G	TACTGGTTTCAGT	.	scavenged	Atlas-SNP
ZBTB8OS	339487	hgsc.bcm.edu	37	1	33116071	33116071	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	123	46	121	0	0.373984	0	.	.	none	.	ZBTB8OS	9	.	NM_178547	exon1	c.C96T	p.I32I	GGCCTTGATCGCC	.	PASS	Atlas-SNP
STAT6	6778	hgsc.bcm.edu	37	12	57496658	57496658	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	84	11	94	0	0.130952	0	.	.	none	.	STAT6	69	.	NM_001178079	exon12	c.A1259G	p.N420S	GCATTGTTGTCTT	.	PASS	Atlas-SNP
ATPAF1	64756	hgsc.bcm.edu	37	1	47110904	47110904	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	54	19	64	0	0.351852	0	.	.	none	.	ATPAF1	19	.	NM_022745	exon7	c.G682A	p.E228K	AACCTTCCCTTCT	.	PASS	Atlas-SNP
BRD4	23476	hgsc.bcm.edu	37	19	15366921	15366921	+	Missense_Mutation	SNP	G	G	A	rs201937726		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	541	133	648	0	0.245841	0	.	.	weak	BRD4_ENST00000263377,NS,carcinoma,+2,2	BRD4	172	2	NM_058243	exon9	c.C1705T	p.P569S	TAGGAGGAGGTTC	.	PASS	Atlas-SNP
ACACB	32	hgsc.bcm.edu	37	12	109616950	109616950	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	72	9	57	0	0.125	0	.	.	none	.	ACACB	330	.	NM_001093	exon9	c.C1495T	p.R499C	CACGCCCGTCACC	.	PASS	Atlas-SNP
LRP1B	53353	hgsc.bcm.edu	37	2	141660530	141660530	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	158	43	172	0	0.272152	0	.	.	none	LRP1B,NS,carcinoma,-1,1	LRP1B	1315	1	NM_018557	exon23	c.G3725T	p.G1242V	TTCCAACCTTCAT	.	PASS	Atlas-SNP
HCN2	610	hgsc.bcm.edu	37	19	608077	608077	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	49	16	63	0	0.326531	0	.	.	none	HCN2,NS,carcinoma,+1,1	HCN2	36	1	NM_001194	exon4	c.C1332T	p.T444T	GCTGACCATGCTC	.	PASS	Atlas-SNP
CHST5	23563	hgsc.bcm.edu	37	16	75563924	75563924	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	78	32	83	0	0.410256	0	.	.	none	.	CHST5	47	.	NM_024533	exon3	c.C359T	p.S120F	AAGATAGAGCGCA	.	PASS	Atlas-SNP
OGFR	11054	hgsc.bcm.edu	37	20	61443664	61443664	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	73	22	112	0	0.30137	0	.	.	none	.	OGFR	63	.	NM_007346	exon7	c.G697A	p.V233I	CCGCTGGTCCGCT	.	PASS	Atlas-SNP
ZNF836	162962	hgsc.bcm.edu	37	19	52659320	52659320	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	164	55	215	0	0.335366	0	.	.	none	.	ZNF836	158	.	NM_001102657	exon5	c.C1616T	p.S539L	AGGCATGAATTTT	.	PASS	Atlas-SNP
TMEM2	23670	hgsc.bcm.edu	37	9	74361164	74361164	+	Missense_Mutation	SNP	C	C	T	rs200303233	bycluster	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	207	16	136	0	0.0772947	0	C|0.999;T|0.001	0.001	weak	.	TMEM2	112	.	NM_001135820	exon3	c.G425A	p.R142H	GTCAGACGGAGCA	.	PASS	Atlas-SNP
LRWD1	222229	hgsc.bcm.edu	37	7	102113388	102113388	+	Silent	SNP	C	C	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	66	20	41	0	0.30303	0	.	.	none	.	LRWD1	41	.	NM_152892	exon15	c.C1836A	p.G612G	CCTTGGCCAGGTG	.	PASS	Atlas-SNP
FGF16	8823	hgsc.bcm.edu	37	X	76709750	76709750	+	Missense_Mutation	SNP	C	C	T	rs376876932		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	130	81	95	0	0.623077	0	.	.	weak	.	FGF16	16	.	NM_003868	exon1	c.C104T	p.S35L	ATGGGTCGGTAAG	.	PASS	Atlas-SNP
HIST1H1E	3008	hgsc.bcm.edu	37	6	26156900	26156900	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	91	22	144	0	0.241758	0	.	.	none	HIST1H1E,NS,carcinoma,+2,1	HIST1H1E	69	1	NM_005321	exon1	c.G282A	p.V94V	CCTGGTGCAGACC	.	PASS	Atlas-SNP
NACA	4666	hgsc.bcm.edu	37	12	57118252	57118252	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	68	31	61	0	0.455882	0	.	.	none	NACA_ENST00000454682,NS,carcinoma,-1,2	NACA	131	2	NM_001113202	exon2	c.G54A	p.Q18Q	CTGGGGCTGCGGC	.	PASS	Atlas-SNP
SLC22A9	114571	hgsc.bcm.edu	37	11	63137598	63137598	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	223	112	259	0	0.502242	0	.	.	none	SLC22A9,NS,carcinoma,0,1	SLC22A9	77	1	NM_080866	exon1	c.C70A	p.L24I	GTTTTTCTCTCAA	.	PASS	Atlas-SNP
SPRY2	10253	hgsc.bcm.edu	37	13	80911241	80911241	+	Silent	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	65	12	88	0	0.184615	0	.	.	none	.	SPRY2	28	.	NM_005842	exon2	c.C600A	p.I200I	GTCGCAGATCCAG	.	PASS	Atlas-SNP
ZNF649	65251	hgsc.bcm.edu	37	19	52394595	52394595	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	273	76	316	0	0.278388	0	.	.	none	.	ZNF649	72	.	NM_023074	exon5	c.G794C	p.S265T	CATTCACTGCACC	.	PASS	Atlas-SNP
CDK12	51755	hgsc.bcm.edu	37	17	37627743	37627743	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	166	60	212	0	0.361446	0	.	.	none	.	CDK12	161	.	NM_016507	exon2	c.C1658T	p.P553L	TGCCACCTTTGCC	.	PASS	Atlas-SNP
SLC26A4	5172	hgsc.bcm.edu	37	7	107330631	107330631	+	Silent	SNP	C	C	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	244	22	258	0	0.0901639	0	.	.	none	.	SLC26A4	117	.	NM_000441	exon10	c.C1212A	p.T404T	GGCCACCACTGCT	.	PASS	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	37	1	22183832	22183832	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	60	18	86	0	0.3	0	.	.	none	.	HSPG2	311	.	NM_005529	exon43	c.C5340T	p.S1780S	GCTCTGGCTCCGC	.	PASS	Atlas-SNP
FAM86A	196483	hgsc.bcm.edu	37	16	5141837	5141837	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	156	54	201	0	0.346154	0	.	.	none	.	FAM86A	32	.	NM_201400	exon4	c.G300A	p.L100L	GGCCATCAGGGTC	.	PASS	Atlas-SNP
KRT23	25984	hgsc.bcm.edu	37	17	39092714	39092714	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	69	9	94	0	0.130435	0	.	.	none	.	KRT23	59	.	NM_015515	exon2	c.A142G	p.T48A	GCGTGGTGAAGGA	.	PASS	Atlas-SNP
STAT1	6772	hgsc.bcm.edu	37	2	191873810	191873810	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	118	22	118	0	0.186441	0	.	.	none	.	STAT1	93	.	NM_007315	exon4	c.C152T	p.S51L	GCAAATGAAACAT	.	PASS	Atlas-SNP
SCN9A	6335	hgsc.bcm.edu	37	2	167145040	167145040	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	199	44	242	0	0.221106	0	.	.	none	SCN9A,colon,carcinoma,-2,1	SCN9A	296	1	NM_002977	exon10	c.A1221C	p.E407D	GTTCTGTTCTTCA	.	PASS	Atlas-SNP
PAPPA	5069	hgsc.bcm.edu	37	9	119097230	119097230	+	Missense_Mutation	SNP	G	G	A	rs138956040	bycluster	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	90	11	78	0	0.122222	0	G|1.000;A|0.000	0.000	weak	.	PAPPA	243	.	NM_002581	exon13	c.G3488A	p.R1163H	CGGTACGTGTGAG	.	PASS	Atlas-SNP
HMHA1	23526	hgsc.bcm.edu	37	19	1081892	1081892	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	29	9	25	0	0.310345	0	.	.	none	.	HMHA1	78	.	NM_001258328	exon19	c.G2497A	p.E833K	GGCAAGGAGCTGG	.	PASS	Atlas-SNP
HDAC9	9734	hgsc.bcm.edu	37	7	18674253	18674253	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	116	33	172	0	0.284483	0	.	.	none	.	HDAC9	560	.	NM_178425	exon7	c.C800T	p.S267F	CAGAATCCTCAGT	.	PASS	Atlas-SNP
OR4N4	283694	hgsc.bcm.edu	37	15	22382649	22382649	+	Silent	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	409	59	447	0	0.144254	0	.	.	none	.	OR4N4	108	.	NM_001005241	exon1	c.C177G	p.L59L	CCCCCTCTATTTA	.	PASS	Atlas-SNP
RHBDD3	25807	hgsc.bcm.edu	37	22	29660104	29660104	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	73	27	87	0	0.369863	0	.	.	none	.	RHBDD3	17	.	NM_012265	exon4	c.G252A	p.L84L	CGTGCCCAGGTGG	.	PASS	Atlas-SNP
CNTNAP5	129684	hgsc.bcm.edu	37	2	125530582	125530582	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	230	49	250	0	0.213043	0	.	.	none	.	CNTNAP5	405	.	NM_130773	exon17	c.C2737A	p.Q913K	AACAGCCAGTTGT	.	PASS	Atlas-SNP
CSNK1G3	1456	hgsc.bcm.edu	37	5	122881389	122881389	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	184	30	159	0	0.163043	0	.	.	none	CSNK1G3,bladder,carcinoma,0,1	CSNK1G3	42	1	NM_001270572	exon1	c.C32G	p.S11X	ACAAATCAGATGA	.	PASS	Atlas-SNP
OR6S1	341799	hgsc.bcm.edu	37	14	21109391	21109391	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	53	15	67	0	0.283019	0	.	.	none	.	OR6S1	49	.	NM_001001968	exon1	c.G460A	p.G154R	CGAGTCCCCCCAC	.	PASS	Atlas-SNP
WDR24	84219	hgsc.bcm.edu	37	16	735417	735417	+	Nonsense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	48	9	69	0	0.1875	0	.	.	none	.	WDR24	111	.	NM_032259	exon7	c.C1859G	p.S620X	GCGTGTGAGACAG	.	PASS	Atlas-SNP
PPP1R36	145376	hgsc.bcm.edu	37	14	65016722	65016722	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	51	8	52	0	0.156863	0	.	.	none	C14orf50,NS,malignant_melanoma,0,1	.	.	1	NM_172365	exon1	c.C7T	p.R3W	ATGTACCGGGTGC	.	PASS	Atlas-SNP
ZNF425	155054	hgsc.bcm.edu	37	7	148801312	148801312	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	65	22	48	0	0.338462	0	.	.	none	.	ZNF425	99	.	NM_001001661	exon4	c.G1651A	p.E551K	GCTCCTCGCCACT	.	PASS	Atlas-SNP
SOCS1	8651	hgsc.bcm.edu	37	16	11348807	11348807	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	59	18	58	0	0.305085	0	.	.	none	.	SOCS1	84	.	NM_003745	exon2	c.C529T	p.L177L	GGCACAGCTCCTG	.	PASS	Atlas-SNP
OXR1	55074	hgsc.bcm.edu	37	8	107695483	107695483	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	186	41	185	0	0.22043	0	.	.	none	.	OXR1	190	.	NM_001198532	exon4	c.C363T	p.N121N	ACCTAACGAACTT	.	PASS	Atlas-SNP
STAC	6769	hgsc.bcm.edu	37	3	36422176	36422176	+	Missense_Mutation	SNP	G	G	A	rs143848363	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	42	9	57	0	0.214286	0	G|0.999;A|0.001	0.001	strong	.	STAC	78	.	NM_003149	exon1	c.G41A	p.G14E	TGGACGGGCTGCC	.	PASS	Atlas-SNP
FLT1	2321	hgsc.bcm.edu	37	13	28886173	28886173	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	65	15	96	0	0.230769	0	.	.	none	.	FLT1	393	.	NM_002019	exon26	c.T3449G	p.L1150R	TCCACAAGTTCTG	.	PASS	Atlas-SNP
HMCN1	83872	hgsc.bcm.edu	37	1	186077619	186077619	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	55	10	67	0	0.181818	0	.	.	none	.	HMCN1	797	.	NM_031935	exon71	c.G10879A	p.E3627K	ACTGATGAGCCCC	.	PASS	Atlas-SNP
POLR2B	5431	hgsc.bcm.edu	37	4	57871515	57871515	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	326	155	474	0	0.47546	0	.	.	none	POLR2B,NS,carcinoma,0,1	POLR2B	108	1	NM_000938	exon8	c.G1004T	p.R335I	AGAAAAGAATTAA	.	PASS	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29885567	29885567	+	Silent	SNP	A	A	C	rs75808076	bycluster	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	48	5	39	0	0.104167	0	.	.	weak	NEFH,rectum,carcinoma,0,1	NEFH	178	1	NM_021076	exon4	c.A1938C	p.A646A	GGAAGCAAAGTCC	.	scavenged	Atlas-SNP
HGS	9146	hgsc.bcm.edu	37	17	79663744	79663744	+	Silent	SNP	G	G	A	rs190451033	bycluster;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	40	14	39	0	0.35	0	G|1.000;A|0.000	0.000	strong	.	HGS	54	.	NM_004712	exon17	c.G1674A	p.A558A	GCGCGCGCAGATG	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	37	19	9006370	9006370	+	Silent	SNP	A	A	G	rs79341062	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	31	5	36	2	0.16129	0.0555556	A|0.500;G|0.500	0.500	strong	MUC16_ENST00000397910,NS,carcinoma,-2,2	MUC16	4315	2	NM_024690	exon45	c.T39648C	p.Y13216Y	GCCAGAATACAGA	.	scavenged	Atlas-SNP
FNDC7	163479	hgsc.bcm.edu	37	1	109265194	109265194	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	113	33	127	0	0.292035	0	.	.	none	.	FNDC7	113	.	NM_001144937	exon5	c.C836T	p.S279L	CATCTTCAGCAAT	.	PASS	Atlas-SNP
CNTNAP4	85445	hgsc.bcm.edu	37	16	76389398	76389398	+	Missense_Mutation	SNP	A	A	C	rs139740249	alternate_allele	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	83	24	98	0	0.289157	0	A|1.000;G|0.000	.	alt	.	CNTNAP4	600	.	NM_138994	exon3	c.A305C	p.D102A	AAGAGGACAGCAT	.	PASS	Atlas-SNP
HAO1	54363	hgsc.bcm.edu	37	20	7920952	7920952	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	87	14	109	0	0.16092	0	.	.	none	.	HAO1	71	.	NM_017545	exon1	c.A118C	p.N40H	CAATATTATCAGC	.	PASS	Atlas-SNP
NTHL1	4913	hgsc.bcm.edu	37	16	2094643	2094643	+	Silent	SNP	G	G	A	rs140211154		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	39	14	29	0	0.358974	0	G|1.000;A|0.000	0.000	weak	.	NTHL1	24	.	NM_002528	exon3	c.C537T	p.V179V	GAAACCGACGGGG	.	PASS	Atlas-SNP
OSTM1	28962	hgsc.bcm.edu	37	6	108370472	108370472	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	130	20	147	0	0.153846	0	.	.	none	.	OSTM1	22	.	NM_014028	exon5	c.C934T	p.R312C	GTTTGCGTTTCTT	.	PASS	Atlas-SNP
GOPC	57120	hgsc.bcm.edu	37	6	117894665	117894665	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	164	50	209	0	0.304878	0	.	.	none	.	GOPC	29	.	NM_020399	exon5	c.G781T	p.D261Y	TCAAGTCATTACG	.	PASS	Atlas-SNP
ACTB	60	hgsc.bcm.edu	37	7	5569295	5569295	+	Splice_Site	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	49	11	63	0	0.22449	0	.	.	none	.	ACTB	45	.	.	.	.	.	GGTGAGCTGCGAG	.	PASS	Atlas-SNP
OR13C9	286362	hgsc.bcm.edu	37	9	107380179	107380179	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	361	168	319	0	0.465374	0	.	.	none	.	OR13C9	42	.	NM_001001956	exon1	c.C307T	p.L103F	AGCCAAGGAACAT	.	PASS	Atlas-SNP
SETD1A	9739	hgsc.bcm.edu	37	16	30976634	30976634	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	64	27	68	0	0.421875	0	.	.	none	.	SETD1A	143	.	NM_014712	exon7	c.G1571C	p.R524T	GGGCCAGAGATAC	.	PASS	Atlas-SNP
PRB2	653247	hgsc.bcm.edu	37	12	11546314	11546314	+	Missense_Mutation	SNP	T	T	C	rs34305575	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	935	22	921	10	0.0235294	0.0108578	T|0.891;C|0.109	0.109	strong	PRB2_ENST00000389362,NS,carcinoma,0,2	PRB2	168	2	NM_006248	exon3	c.A698G	p.Q233R	GCACTTTGGGACT	.	scavenged	Atlas-SNP
STRIP2	57464	hgsc.bcm.edu	37	7	129104487	129104487	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	93	27	81	0	0.290323	0	.	.	none	.	.	.	.	NM_020704	exon16	c.G1684A	p.D562N	GGCATCGATGTGA	.	PASS	Atlas-SNP
ATP6V0A1	535	hgsc.bcm.edu	37	17	40666448	40666448	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	80	11	170	0	0.1375	0	.	.	none	.	ATP6V0A1	67	.	NM_001130020	exon20	c.C2393T	p.S798L	GCCTCTCGGCCTT	.	PASS	Atlas-SNP
FAM108B1	51104	hgsc.bcm.edu	37	9	74489813	74489813	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	222	45	175	0	0.202703	0	.	.	none	.	FAM108B1	24	.	NM_016014	exon2	c.G184C	p.E62Q	CTTTTTCTCTAGA	.	PASS	Atlas-SNP
RAB22A	57403	hgsc.bcm.edu	37	20	56929269	56929269	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	73	14	79	0	0.191781	0	.	.	none	.	RAB22A	15	.	NM_020673	exon6	c.A435G	p.V145V	TTTTGTAGAGACC	.	PASS	Atlas-SNP
GH1	2688	hgsc.bcm.edu	37	17	61995272	61995272	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	75	20	76	0	0.266667	0	.	.	none	.	GH1	39	.	NM_000515	exon4	c.C304T	p.L102F	TGCGGAGCAGCTC	.	PASS	Atlas-SNP
DVL1	1855	hgsc.bcm.edu	37	1	1273785	1273785	+	Silent	SNP	G	G	A	rs151161721		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	64	21	72	0	0.328125	0	G|1.000;A|0.000	0.000	weak	.	DVL1	36	.	NM_004421	exon13	c.C1296T	p.H432H	CTCCACGTGTGTG	.	PASS	Atlas-SNP
BACH2	60468	hgsc.bcm.edu	37	6	90660815	90660815	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	77	21	65	0	0.272727	0	.	.	none	.	BACH2	224	.	NM_001170794	exon5	c.C1010T	p.S337L	GAGGGCGAGGCCA	.	PASS	Atlas-SNP
RPS6KA5	9252	hgsc.bcm.edu	37	14	91367011	91367011	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	42	13	92	0	0.309524	0	.	.	none	.	RPS6KA5	135	.	NM_182398	exon10	c.C1189T	p.H397Y	CCATGTGAAACTG	.	PASS	Atlas-SNP
CORO1A	11151	hgsc.bcm.edu	37	16	30199792	30199792	+	Silent	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	80	32	90	0	0.4	0	.	.	none	.	CORO1A	36	.	NM_007074	exon10	c.C1176G	p.L392L	CTCCCTCAAGGAT	.	PASS	Atlas-SNP
SEMA7A	8482	hgsc.bcm.edu	37	15	74708989	74708989	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	163	44	176	0	0.269939	0	.	.	none	.	SEMA7A	58	.	NM_003612	exon7	c.T728A	p.F243Y	CGGAAGAAGTAGT	.	PASS	Atlas-SNP
LRP2	4036	hgsc.bcm.edu	37	2	170101220	170101220	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	137	44	136	0	0.321168	0	.	.	none	.	LRP2	751	.	NM_004525	exon22	c.C3413T	p.S1138F	TCATCAGATCCAT	.	PASS	Atlas-SNP
PTPRO	5800	hgsc.bcm.edu	37	12	15677869	15677869	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	83	32	98	0	0.385542	0	.	.	none	.	PTPRO	148	.	NM_002848	exon11	c.T2013C	p.V671V	GGTGGTTGCAGAA	.	PASS	Atlas-SNP
MAP7D2	256714	hgsc.bcm.edu	37	X	20074801	20074801	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	44	30	34	0	0.681818	0	.	.	none	.	MAP7D2	165	.	NM_001168466	exon4	c.G481A	p.D161N	CACCATCATGTCC	.	PASS	Atlas-SNP
SNTG1	54212	hgsc.bcm.edu	37	8	51705325	51705325	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	366	6	306	1	0.0163934	0.00326797	.	.	none	SNTG1_ENST00000518864,NS,carcinoma,-1,2	SNTG1	304	2	NM_018967	exon19	c.A1490T	p.N497I	TAGGCAATCAAGC	.	scavenged	Atlas-SNP
ADAMTS9	56999	hgsc.bcm.edu	37	3	64606792	64606792	+	Silent	SNP	C	C	T	rs373590492		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	68	10	133	0	0.147059	0	.	.	weak	.	ADAMTS9	206	.	NM_182920	exon19	c.G2811A	p.L937L	CCACCTCAGGTCA	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140186916	140186916	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	117	41	104	0	0.350427	0	.	.	none	.	PCDHA4	419	.	NM_031500	exon1	c.C144T	p.I48I	CCGCATCGCGCAG	.	PASS	Atlas-SNP
LRRC30	339291	hgsc.bcm.edu	37	18	7231257	7231257	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	39	10	51	0	0.25641	0	.	.	none	.	LRRC30	68	.	NM_001105581	exon1	c.C121T	p.R41W	GACCCGCGGTCCC	.	PASS	Atlas-SNP
AGFG1	3267	hgsc.bcm.edu	37	2	228401669	228401669	+	Silent	SNP	T	T	C	rs144069697	alternate_allele	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	257	60	286	0	0.233463	0	T|1.000;G|0.000	.	alt	.	AGFG1	80	.	NM_001135187	exon11	c.T1410C	p.S470S	GGCATCTTCTACA	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	37	17	11608409	11608409	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	172	45	246	0	0.261628	0	.	.	none	.	DNAH9	695	.	NM_001372	exon26	c.A5459C	p.H1820P	TCAAACACTGCTT	.	PASS	Atlas-SNP
GGPS1	9453	hgsc.bcm.edu	37	1	235505867	235505867	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	106	34	121	0	0.320755	0	.	.	none	.	GGPS1	23	.	NM_001037277	exon4	c.C683G	p.T228S	AAAGCACCCAGGT	.	PASS	Atlas-SNP
AIM1	202	hgsc.bcm.edu	37	6	106968516	106968516	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	81	17	84	0	0.209877	0	.	.	none	.	AIM1	161	.	NM_001624	exon2	c.G2209A	p.E737K	ATTCACGAAGACC	.	PASS	Atlas-SNP
ATRIP	84126	hgsc.bcm.edu	37	3	48501189	48501189	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	67	24	69	0	0.358209	0	.	.	none	ATRIP,upper_leg,malignant_melanoma,0,1	ATRIP	41	1	NM_130384	exon7	c.C929T	p.S310F	CAGGTTCCATTTT	.	PASS	Atlas-SNP
CCDC41	51134	hgsc.bcm.edu	37	12	94702622	94702622	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	370	49	349	0	0.132432	0	.	.	none	CCDC41,NS,carcinoma,0,1	CCDC41	59	1	NM_016122	exon17	c.A2073G	p.K691K	TAGTTGTTTTCTT	.	PASS	Atlas-SNP
C6orf62	81688	hgsc.bcm.edu	37	6	24718818	24718818	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	165	17	169	0	0.10303	0	.	.	none	.	C6orf62	18	.	NM_030939	exon1	c.G79A	p.A27T	GGTCAGCTAGAGA	.	PASS	Atlas-SNP
CCDC129	223075	hgsc.bcm.edu	37	7	31614238	31614238	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	120	38	131	0	0.316667	0	.	.	none	.	CCDC129	127	.	NM_001257968	exon7	c.C558T	p.I186I	AGACATCTGCATG	.	PASS	Atlas-SNP
ZNF454	285676	hgsc.bcm.edu	37	5	178373943	178373943	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	136	58	144	0	0.426471	0	.	.	none	.	ZNF454	99	.	NM_001178089	exon4	c.G206A	p.R69K	AAAAAAGGGAAGT	.	PASS	Atlas-SNP
ARID5B	84159	hgsc.bcm.edu	37	10	63662068	63662068	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	117	18	123	0	0.153846	0	.	.	none	.	ARID5B	125	.	NM_032199	exon2	c.C172T	p.Q58X	GAGCTCCAGCTGT	.	PASS	Atlas-SNP
KCNJ8	3764	hgsc.bcm.edu	37	12	21926491	21926491	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	73	15	72	0	0.205479	0	.	.	none	.	KCNJ8	59	.	NM_004982	exon2	c.G60C	p.E20D	CAGGTTCTCTGCG	.	PASS	Atlas-SNP
SLC30A4	7782	hgsc.bcm.edu	37	15	45814228	45814228	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	153	32	163	0	0.20915	0	.	.	none	.	SLC30A4	25	.	NM_013309	exon2	c.A325G	p.K109E	TCACCTTTCTCTG	.	PASS	Atlas-SNP
C9orf24	84688	hgsc.bcm.edu	37	9	34379662	34379662	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	128	30	96	0	0.234375	0	.	.	none	.	C9orf24	15	.	NM_001252195	exon4	c.A371T	p.Y124F	TATGGGTAGTATG	.	PASS	Atlas-SNP
MESDC2	23184	hgsc.bcm.edu	37	15	81271791	81271791	+	Silent	SNP	G	G	A	rs372944817		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	42	12	63	0	0.285714	0	.	.	weak	.	MESDC2	23	.	NM_015154	exon3	c.C474T	p.I158I	CATGAAGATAGCA	.	PASS	Atlas-SNP
HPSE2	60495	hgsc.bcm.edu	37	10	100249925	100249925	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	85	26	98	0	0.305882	0	.	.	none	.	HPSE2	203	.	NM_001166246	exon10	c.G1349A	p.R450H	ATCAGGCGCTTGT	.	PASS	Atlas-SNP
TGIF2	60436	hgsc.bcm.edu	37	20	35219312	35219312	+	Splice_Site	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	84	19	100	0	0.22619	0	.	.	none	.	TGIF2	26	.	NM_001199513	exon3	c.193-1G>T	.	ATTCCAGATATGT	.	PASS	Atlas-SNP
BRD2	6046	hgsc.bcm.edu	37	6	32948431	32948431	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	56	17	80	0	0.303571	0	.	.	none	.	BRD2	70	.	NM_001199455	exon13	c.C2447G	p.S816X	CCAGCTCAGATTC	.	PASS	Atlas-SNP
ARHGEF17	9828	hgsc.bcm.edu	37	11	73073580	73073580	+	Silent	SNP	C	C	T	rs76764824	bycluster;byfrequency;by1000genomes	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	47	27	52	0	0.574468	0	C|0.953;T|0.047	0.047	strong	ARHGEF17,bladder,carcinoma,+2,1	ARHGEF17	117	1	NM_014786	exon14	c.C4797T	p.L1599L	GACGCTCGCGGAG	.	PASS	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	37	8	144942991	144942991	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	37	20	29	0	0.540541	0	.	.	none	.	EPPK1	199	.	NM_031308	exon1	c.C4431T	p.Y1477Y	GCCAACGTATTCG	.	PASS	Atlas-SNP
RIN2	54453	hgsc.bcm.edu	37	20	19977369	19977369	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	118	34	155	0	0.288136	0	.	.	none	.	RIN2	126	.	NM_001242581	exon11	c.G2394T	p.K798N	GATAAAGAATTTC	.	PASS	Atlas-SNP
C19orf26	255057	hgsc.bcm.edu	37	19	1235089	1235089	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	91	21	94	0	0.230769	0	.	.	none	.	C19orf26	31	.	NM_152769	exon5	c.C366A	p.F122L	GGACAGGAAGCGT	.	PASS	Atlas-SNP
SLC37A3	84255	hgsc.bcm.edu	37	7	140045717	140045717	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	106	29	90	0	0.273585	0	.	.	none	.	SLC37A3	80	.	NM_207113	exon11	c.C1078T	p.L360F	GGGCAAGAACCGG	.	PASS	Atlas-SNP
ZNF708	7562	hgsc.bcm.edu	37	19	21477477	21477477	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	182	42	215	0	0.230769	0	.	.	none	.	ZNF708	66	.	NM_021269	exon4	c.A291C	p.Q97H	TATCACTTGTTGG	.	PASS	Atlas-SNP
ASH2L	9070	hgsc.bcm.edu	37	8	37963905	37963905	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	130	16	213	0	0.123077	0	.	.	none	.	ASH2L	62	.	NM_004674	exon2	c.C198G	p.N66K	GGCAAACTTGGTC	.	PASS	Atlas-SNP
TRANK1	9881	hgsc.bcm.edu	37	3	36896835	36896835	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	111	43	164	0	0.387387	0	.	.	none	.	TRANK1	398	.	NM_014831	exon12	c.A4246T	p.M1416L	GGAACATAGAGTT	.	PASS	Atlas-SNP
ZNF234	10780	hgsc.bcm.edu	37	19	44661323	44661323	+	Missense_Mutation	SNP	C	C	T	rs191045580	bycluster;by1000genomes;alternate_allele	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	119	27	105	0	0.226891	0	C|0.999;A|0.001	.	alt	.	ZNF234	132	.	NM_006630	exon6	c.C1154T	p.S385L	ACAGTTCAAGTTT	.	PASS	Atlas-SNP
SI	6476	hgsc.bcm.edu	37	3	164733862	164733862	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	95	26	152	0	0.273684	0	.	.	none	SI,NS,carcinoma,0,1	SI	500	1	NM_001041	exon32	c.C3766A	p.Q1256K	TGTACTGAACATC	.	PASS	Atlas-SNP
PRR23A	729627	hgsc.bcm.edu	37	3	138724565	138724565	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	130	17	128	0	0.130769	0	.	.	none	.	PRR23A	35	.	NM_001134659	exon1	c.C546T	p.S182S	TCTGGCGGAGGAG	.	PASS	Atlas-SNP
LRRTM1	347730	hgsc.bcm.edu	37	2	80529910	80529910	+	Silent	SNP	C	C	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	60	21	75	0	0.35	0	.	.	none	.	LRRTM1	251	.	NM_178839	exon2	c.G1035T	p.P345P	GTACTCCGGGCTG	.	PASS	Atlas-SNP
SHMT1	6470	hgsc.bcm.edu	37	17	18259246	18259246	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	70	10	91	0	0.142857	0	.	.	none	.	SHMT1	36	.	NM_148918	exon2	c.C50T	p.S17L	TCATGTGAGGACC	.	PASS	Atlas-SNP
IRF8	3394	hgsc.bcm.edu	37	16	85942692	85942692	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	90	33	113	0	0.366667	0	.	.	none	.	IRF8	65	.	NM_002163	exon3	c.G271A	p.D91N	AGCCCAGATTTTG	.	PASS	Atlas-SNP
C16orf58	64755	hgsc.bcm.edu	37	16	31502228	31502228	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	55	15	64	1	0.272727	0.015625	.	.	none	C16orf58,NS,carcinoma,0,1	C16orf58	28	1	NM_022744	exon13	c.G1335T	p.G445G	CTTCTCGGTCTTC	.	scavenged	Atlas-SNP
HERC4	26091	hgsc.bcm.edu	37	10	69695935	69695935	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	188	49	267	0	0.260638	0	.	.	none	.	HERC4	78	.	NM_022079	exon23	c.G2653C	p.D885H	CTGTGTCTGCACC	.	PASS	Atlas-SNP
SMARCA4	6597	hgsc.bcm.edu	37	19	11134230	11134230	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	50	10	45	0	0.2	0	.	.	none	SMARCA4_ENST00000358026,caecum,carcinoma,-1,7	SMARCA4	502	7	NM_003072	exon20	c.C2896T	p.R966W	ATCATCCGGCGTC	.	PASS	Atlas-SNP
NCAM2	4685	hgsc.bcm.edu	37	21	22710786	22710786	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	156	39	163	0	0.25	0	.	.	none	.	NCAM2	220	.	NM_004540	exon8	c.G976A	p.G326R	GCGGAAGGGGAGC	.	PASS	Atlas-SNP
TPO	7173	hgsc.bcm.edu	37	2	1440080	1440080	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	107	34	150	0	0.317757	0	.	.	none	.	TPO	224	.	NM_175719	exon5	c.T406C	p.Y136H	CTCCCTTACATGC	.	PASS	Atlas-SNP
NFATC2	4773	hgsc.bcm.edu	37	20	50048903	50048903	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	65	22	112	0	0.338462	0	.	.	none	NFATC2,NS,carcinoma,0,2	NFATC2	112	2	NM_012340	exon9	c.C2423T	p.S808L	ACAGGCGAGGCCT	.	PASS	Atlas-SNP
MIB2	142678	hgsc.bcm.edu	37	1	1565043	1565043	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	139	16	148	0	0.115108	0	.	.	none	MIB2,NS,carcinoma,-1,1	MIB2	62	1	NM_080875	exon19	c.G2933A	p.C978Y	AGAAGTGCATCAG	.	PASS	Atlas-SNP
ASCC3	10973	hgsc.bcm.edu	37	6	101037846	101037846	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	171	31	255	0	0.181287	0	.	.	none	.	ASCC3	205	.	NM_006828	exon35	c.C5393T	p.S1798F	CAGTAGGAAAGTT	.	PASS	Atlas-SNP
ALPPL2	251	hgsc.bcm.edu	37	2	233272600	233272600	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	87	24	85	0	0.275862	0	.	.	none	.	ALPPL2	36	.	NM_031313	exon5	c.C521T	p.S174L	ATGCCTCGCCAGC	.	PASS	Atlas-SNP
TNFAIP3	7128	hgsc.bcm.edu	37	6	138200319	138200319	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	40	11	53	0	0.275	0	.	.	none	.	TNFAIP3	340	.	NM_001270507	exon7	c.C1737A	p.C579X	TTCTTGCCACAGA	.	PASS	Atlas-SNP
CNOT2	4848	hgsc.bcm.edu	37	12	70724111	70724111	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	163	64	168	0	0.392638	0	.	.	none	CNOT2,colon,carcinoma,-1,1	CNOT2	53	1	NM_001199302	exon7	c.A431G	p.Q144R	ACTCCCAGGTTGG	.	PASS	Atlas-SNP
FSIP2	401024	hgsc.bcm.edu	37	2	186671505	186671505	+	Silent	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	201	57	249	0	0.283582	0	.	.	none	FSIP2_ENST00000343098,NS,carcinoma,+2,2	FSIP2	251	2	NM_173651	exon17	c.C17739G	p.L5913L	CAAACTCTATGAC	.	PASS	Atlas-SNP
NCKAP1	10787	hgsc.bcm.edu	37	2	183866768	183866768	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	237	51	238	0	0.21519	0	.	.	none	.	NCKAP1	105	.	NM_205842	exon7	c.C534T	p.D178D	TTCTCTGTCACTT	.	PASS	Atlas-SNP
TBC1D9	23158	hgsc.bcm.edu	37	4	141560570	141560570	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	114	45	116	0	0.394737	0	.	.	none	.	TBC1D9	198	.	NM_015130	exon14	c.A2350C	p.I784L	CCCGGATAGTTCC	.	PASS	Atlas-SNP
SOCS1	8651	hgsc.bcm.edu	37	16	11348889	11348889	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	67	20	62	0	0.298507	0	.	.	none	.	SOCS1	84	.	NM_003745	exon2	c.G447C	p.E149D	CAGCAGCTCGAAG	.	PASS	Atlas-SNP
BRCA1	672	hgsc.bcm.edu	37	17	41245531	41245531	+	Missense_Mutation	SNP	C	C	T	rs80357391	alternate_allele	TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	223	40	323	0	0.179372	0	.	.	alt	BRCA1,NS,carcinoma,0,1	BRCA1	304	1	NM_007300	exon10	c.G2017A	p.E673K	CAGGTTCTTTACC	.	PASS	Atlas-SNP
PCDH15	65217	hgsc.bcm.edu	37	10	55943228	55943228	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	128	32	144	0	0.25	0	.	.	none	.	PCDH15	1715	.	NM_001142763	exon14	c.G1581A	p.M527I	AGGTCTCATGTCT	.	PASS	Atlas-SNP
ATR	545	hgsc.bcm.edu	37	3	142286975	142286975	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	452	49	639	0	0.108407	0	.	.	none	ATR,NS,carcinoma,-1,1	ATR	285	1	NM_001184	exon2	c.T81A	p.N27K	AACTGTATTATAT	.	PASS	Atlas-SNP
C1QTNF1	114897	hgsc.bcm.edu	37	17	77043849	77043849	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	60	24	80	0	0.4	0	.	.	none	.	C1QTNF1	62	.	NM_030968	exon4	c.C525T	p.Y175Y	CCTCTACGACCAC	.	PASS	Atlas-SNP
NPR2	4882	hgsc.bcm.edu	37	9	35792654	35792654	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	134	36	86	0	0.268657	0	.	.	none	.	NPR2	162	.	NM_003995	exon1	c.C249A	p.S83R	GCTGAGCGCTGTG	.	PASS	Atlas-SNP
ZKSCAN7	55888	hgsc.bcm.edu	37	3	44612048	44612048	+	Silent	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	88	23	108	0	0.261364	0	.	.	none	.	.	.	.	NM_018651	exon6	c.C1446G	p.L482L	CCGACTCACTGAC	.	PASS	Atlas-SNP
BCL9L	283149	hgsc.bcm.edu	37	11	118780644	118780644	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	63	29	46	0	0.460317	0	.	.	none	.	BCL9L	254	.	NM_182557	exon1	c.G5A	p.R2K	AGGATCCTCATGG	.	PASS	Atlas-SNP
PDHA1	5160	hgsc.bcm.edu	37	X	19369482	19369482	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	273	181	245	0	0.663004	0	.	.	none	.	PDHA1	85	.	NM_001173454	exon5	c.C489T	p.F163F	TACTTTCACCCGG	.	PASS	Atlas-SNP
HIST1H2AK	8330	hgsc.bcm.edu	37	6	27805994	27805994	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	120	38	114	0	0.316667	0	.	.	none	HIST1H2AK,bladder,carcinoma,0,1	HIST1H2AK	28	1	NM_003510	exon1	c.G124T	p.E42X	CCCGCTCAGCGTA	.	PASS	Atlas-SNP
CHRM3	1131	hgsc.bcm.edu	37	1	240071401	240071401	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	160	22	208	0	0.1375	0	.	.	none	CHRM3,NS,malignant_melanoma,0,2	CHRM3	118	2	NM_000740	exon5	c.C650A	p.P217H	CTGTGCCTCCGGG	.	PASS	Atlas-SNP
NSDHL	50814	hgsc.bcm.edu	37	X	152034408	152034408	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	43	27	25	0	0.627907	0	.	.	none	.	NSDHL	33	.	NM_015922	exon6	c.G589A	p.A197T	ACCACAGCCATCC	.	PASS	Atlas-SNP
CCDC88B	283234	hgsc.bcm.edu	37	11	64121559	64121559	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	73	38	79	0	0.520548	0	.	.	none	.	CCDC88B	89	.	NM_032251	exon24	c.G4016A	p.G1339E	GCCTGGGGGCCGA	.	PASS	Atlas-SNP
PHLPP2	23035	hgsc.bcm.edu	37	16	71683436	71683436	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	64	15	72	0	0.234375	0	.	.	none	.	PHLPP2	96	.	NM_015020	exon18	c.T3329A	p.L1110X	GGAAGCAAGGCAG	.	PASS	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	37	4	187524408	187524408	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	151	66	176	0	0.437086	0	.	.	none	.	FAT1	500	.	NM_005245	exon19	c.G11272A	p.V3758M	ACATCACACTTTC	.	PASS	Atlas-SNP
CSRP2BP	57325	hgsc.bcm.edu	37	20	18131517	18131517	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	186	55	209	0	0.295699	0	.	.	none	.	CSRP2BP	80	.	NM_020536	exon3	c.G431C	p.G144A	GTCAAGGTTATTT	.	PASS	Atlas-SNP
EBNA1BP2	10969	hgsc.bcm.edu	37	1	43637173	43637173	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	125	37	145	0	0.296	0	.	.	none	.	EBNA1BP2	37	.	NM_001159936	exon4	c.C465T	p.D155D	GAAGTCGTCTTCT	.	PASS	Atlas-SNP
TBC1D10C	374403	hgsc.bcm.edu	37	11	67176563	67176563	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	149	68	172	0	0.456376	0	.	.	none	.	TBC1D10C	42	.	NM_198517	exon9	c.A952G	p.I318V	CGAGCCATCCCCC	.	PASS	Atlas-SNP
ZIM3	114026	hgsc.bcm.edu	37	19	57646662	57646662	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	285	79	322	0	0.277193	0	.	.	none	.	ZIM3	107	.	NM_052882	exon5	c.C1043G	p.S348C	ACATTGGATTTCT	.	PASS	Atlas-SNP
PLCL1	5334	hgsc.bcm.edu	37	2	198950643	198950643	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	306	78	301	0	0.254902	0	.	.	none	.	PLCL1	358	.	NM_006226	exon2	c.A2402T	p.D801V	TGGATGATGACTA	.	PASS	Atlas-SNP
CD79A	973	hgsc.bcm.edu	37	19	42381447	42381447	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	87	19	93	0	0.218391	0	.	.	none	.	CD79A	25	.	NM_021601	exon1	c.T73A	p.Y25N	GCTGTCTACCTGG	.	PASS	Atlas-SNP
ZNF189	7743	hgsc.bcm.edu	37	9	104170419	104170419	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	165	12	178	0	0.0727273	0	.	.	none	.	ZNF189	79	.	NM_003452	exon3	c.G369A	p.L123L	ATCTTTGACCCAG	.	PASS	Atlas-SNP
SORCS1	114815	hgsc.bcm.edu	37	10	108389123	108389123	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	63	18	63	0	0.285714	0	.	.	none	.	SORCS1	534	.	NM_001206572	exon19	c.C2499T	p.I833I	CACTTGGATGAGT	.	PASS	Atlas-SNP
NEURL1B	54492	hgsc.bcm.edu	37	5	172113904	172113904	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	80	29	75	0	0.3625	0	.	.	none	.	NEURL1B	22	.	NM_001142651	exon5	c.C1644T	p.D548D	CAAGGACGTCATT	.	PASS	Atlas-SNP
OXCT1	5019	hgsc.bcm.edu	37	5	41870421	41870421	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	85	21	73	0	0.247059	0	.	.	none	.	OXCT1	54	.	NM_000436	exon1	c.T40C	p.C14R	AGGCGCAGAGCCG	.	PASS	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	37	10	16967409	16967409	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	193	26	245	1	0.134715	0.00408163	.	.	none	CUBN,NS,carcinoma,0,1	CUBN	515	1	NM_001081	exon43	c.T6477C	p.P2159P	GATATCAGGACCA	.	scavenged	Atlas-SNP
SLC25A13	10165	hgsc.bcm.edu	37	7	95864216	95864216	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	52	15	55	0	0.288462	0	.	.	none	.	SLC25A13	131	.	NM_001160210	exon4	c.C226T	p.Q76X	ATTCTTGAAAAGA	.	PASS	Atlas-SNP
CHST6	4166	hgsc.bcm.edu	37	16	75512714	75512714	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	72	25	85	0	0.347222	0	.	.	none	.	CHST6	57	.	NM_021615	exon3	c.C1013T	p.P338L	GCAAAGGGCAGCG	.	PASS	Atlas-SNP
YLPM1	56252	hgsc.bcm.edu	37	14	75248627	75248627	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	144	24	191	0	0.166667	0	.	.	none	.	YLPM1	298	.	NM_019589	exon4	c.T1881C	p.A627A	TTCAGCTACACCT	.	PASS	Atlas-SNP
EIF3F	8665	hgsc.bcm.edu	37	11	8016899	8016899	+	Silent	SNP	C	C	G	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	81	45	100	0	0.555556	0	.	.	none	.	EIF3F	23	.	NM_003754	exon7	c.C981G	p.L327L	CATGCTCAACAGC	.	PASS	Atlas-SNP
DDX3X	1654	hgsc.bcm.edu	37	X	41206603	41206603	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TZ-01A-11D-A38X-10	TCGA-GS-A9TZ-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	93217755-b79d-4e32-8e97-76bcd262bae8	96fefcbd-9bc5-4473-be47-0f4c19aa6e57	126	83	101	0	0.65873	0	.	.	none	.	DDX3X	138	.	NM_001356	exon16	c.G1808A	p.R603Q	ACTACCGACAAAG	.	PASS	Atlas-SNP
