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
BCOR	54880	hgsc.bcm.edu	37	X	39911471	39911471	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	163	84	216	.	0.515	.	.	.	none	.	BCOR	351	.	NM_001123385	exon15	c.5160delT	p.S1720fs	.	.	PASS	Pindel,Atlas-Indel
MAB21L1	4081	hgsc.bcm.edu	37	13	36050453	36050454	+	RNA	INS	-	-	GCTGCTGCTGCT	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	113	10	118	0	0.0884956	0	.	.	none	.	MAB21L1	52	.	.	.	.	.	.	.	PASS	Atlas-Indel
TAS2R19	259294	hgsc.bcm.edu	37	12	11174305	11174306	+	Frame_Shift_Del	DEL	GT	GT	-	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	81	35	116	.	0.432	.	.	.	none	.	TAS2R19	30	.	NM_176888	exon1	c.866_867del	p.289_289del	.	.	PASS	Pindel,Atlas-Indel
RBMXL3	139804	hgsc.bcm.edu	37	X	114425181	114425182	+	In_Frame_Ins	INS	-	-	GAGGCCGCTCGCCCAACGCCCACAGCG	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	37	14	27	0	0.378378	0	.	.	none	.	RBMXL3	83	.	NM_001145346	exon1	c.1177_1178insGAGGCCGCTCGCCCAACGCCCACAGCG	p.R393delinsRGRSPNAHSG	.	.	PASS	Atlas-Indel
NEFH	4744	hgsc.bcm.edu	37	22	29885581	29885604	+	In_Frame_Del	DEL	AGGCCAAGTCCCCAGAGAAGGAAG	AGGCCAAGTCCCCAGAGAAGGAAG	-	rs200984527		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	AGGCCAAGTCCCCAGAGAAGGAAG	AGGCCAAGTCCCCAGAGAAGGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	63	16	51	0	0.253968	0	.	.	weak	.	NEFH	178	.	NM_021076	exon4	c.1951_1974del	p.651_658del	.	.	PASS	Atlas-Indel
ZMYM2	7750	hgsc.bcm.edu	37	13	20638677	20638677	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	63	20	78	.	0.317	.	.	.	none	.	ZMYM2	191	.	NM_001190964	exon20	c.3123delT	p.S1041fs	.	.	PASS	Pindel,Atlas-Indel
CIITA	4261	hgsc.bcm.edu	37	16	11000690	11000691	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	73	24	67	.	0.329	.	.	.	none	.	CIITA	92	.	NM_000246	exon11	c.1340_1341del	p.447_447del	.	.	PASS	Pindel,Atlas-Indel
ARHGAP21	57584	hgsc.bcm.edu	37	10	24909678	24909679	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	141	55	160	0	0.390071	0	.	.	none	.	ARHGAP21	185	.	NM_020824	exon9	c.1146_1147insC	p.Q382fs	.	.	PASS	Atlas-Indel
SEH1L	81929	hgsc.bcm.edu	37	18	12986927	12986929	+	In_Frame_Del	DEL	TCC	TCC	-	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	TCC	TCC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	123	11	84	0	0.0894309	0	.	.	none	.	SEH1L	33	.	NM_001013437	exon9	c.1136_1138del	p.379_380del	.	.	PASS	Atlas-Indel
CCDC109B	55013	hgsc.bcm.edu	37	4	110605694	110605699	+	In_Frame_Del	DEL	CTGGCT	CTGGCT	-	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	CTGGCT	CTGGCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	203	43	228	.	0.212	.	.	.	none	.	CCDC109B	47	.	NM_017918	exon6	c.707_712del	p.236_238del	.	.	PASS	Pindel,Atlas-Indel
OSBPL3	26031	hgsc.bcm.edu	37	7	24843988	24843991	+	Frame_Shift_Del	DEL	TCTC	TCTC	-	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	TCTC	TCTC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	187	62	266	.	0.332	.	.	.	none	.	OSBPL3	100	.	NM_015550	exon22	c.2511_2514del	p.837_838del	.	.	PASS	Pindel,Atlas-Indel
SETD1B	23067	hgsc.bcm.edu	37	12	122242657	122242658	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	74	21	41	.	0.284	.	.	.	none	.	SETD1B	105	.	NM_015048	exon1	c.14_15insC	p.H5fs	.	.	PASS	Pindel,Atlas-Indel
MYO9B	4650	hgsc.bcm.edu	37	19	17308611	17308612	+	Frame_Shift_Ins	INS	-	-	CG	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	50	13	58	.	0.260	.	.	.	none	.	MYO9B	264	.	NM_001130065	exon23	c.4057_4058insCG	p.T1353fs	.	.	PASS	Pindel,Atlas-Indel
KRTAP9-1	728318	hgsc.bcm.edu	37	17	39346593	39346595	+	In_Frame_Del	DEL	CCT	CCT	-	rs377187211	bycluster	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	CCT	CCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	64	24	64	0	0.375	0	.	.	weak	KRTAP9-1_ENST00000398470,colon,carcinoma,0,2	KRTAP9-1	34	2	NM_001190460	exon1	c.454_456del	p.152_152del	.	.	PASS	Atlas-Indel
C10orf71	118461	hgsc.bcm.edu	37	10	50533936	50533937	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	34	11	73	0	0.323529	0	.	.	none	.	C10orf71	179	.	NM_001135196	exon3	c.3346_3347insC	p.A1116fs	.	.	PASS	Atlas-Indel
IGLL5	100423062	hgsc.bcm.edu	37	22	23230309	23230310	+	In_Frame_Ins	INS	-	-	TTT	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	116	22	100	.	0.190	.	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.76_77insTTT	p.L26delinsLL	.	.	PASS	Pindel,Atlas-Indel
ARHGAP21	57584	hgsc.bcm.edu	37	10	24909679	24909679	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	139	29	160	.	0.209	.	.	.	none	.	ARHGAP21	185	.	NM_020824	exon9	c.1146delG	p.Q382fs	.	.	PASS	Pindel
FGFBP1	9982	hgsc.bcm.edu	37	4	15938178	15938178	+	Frame_Shift_Del	DEL	T	T	-	rs144178676		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	213	49	256	.	0.230	.	.	.	weak	.	FGFBP1	26	.	NM_005130	exon3	c.79delG	p.V27X	.	.	PASS	Pindel
PIM1	5292	hgsc.bcm.edu	37	6	37138592	37138592	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	54	24	60	0	0.444444	0	.	.	none	.	PIM1	71	.	NM_001243186	exon2	c.G399A	p.P133P	GGGCCCGCTACTG	.	PASS	Atlas-SNP
KRTAP9-1	728318	hgsc.bcm.edu	37	17	39346622	39346622	+	Missense_Mutation	SNP	T	T	A	rs79470847	bycluster	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	68	12	59	1	0.176471	0.0169492	T|0.500;A|0.500	0.500	weak	KRTAP9-1_ENST00000398470,caecum,carcinoma,0,2	KRTAP9-1	34	2	NM_001190460	exon1	c.T484A	p.C162S	CAGCCTTGCTGCC	.	scavenged	Atlas-SNP
PRDM9	56979	hgsc.bcm.edu	37	5	23527377	23527377	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	127	41	178	0	0.322835	0	.	.	none	PRDM9,colon,carcinoma,+1,1	PRDM9	344	1	NM_020227	exon11	c.G2180A	p.R727Q	GTGGGCGGGGCTT	.	PASS	Atlas-SNP
TRIM48	79097	hgsc.bcm.edu	37	11	55032663	55032663	+	Missense_Mutation	SNP	T	T	C	rs200778682	byfrequency	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	497	12	674	10	0.0241449	0.0148368	T|0.996;C|0.004	0.004	strong	TRIM48_ENST00000417545,NS,carcinoma,0,4	TRIM48	149	4	NM_024114	exon2	c.T332C	p.I111T	GTGGCATTCACAG	.	scavenged	Atlas-SNP
KLHL21	9903	hgsc.bcm.edu	37	1	6662386	6662386	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	16	8	41	0	0.5	0	.	.	none	.	KLHL21	27	.	NM_014851	exon1	c.C492A	p.H164Q	GCCCACGTGGCGC	.	PASS	Atlas-SNP
ZNF608	57507	hgsc.bcm.edu	37	5	124079845	124079845	+	Missense_Mutation	SNP	T	T	A	rs371493737	alternate_allele	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	142	61	171	0	0.429577	0	.	.	alt	.	ZNF608	117	.	NM_020747	exon1	c.A838T	p.M280L	CCAACATAGAGTT	.	PASS	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	37	11	92577432	92577432	+	Silent	SNP	G	G	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	69	30	89	0	0.434783	0	.	.	none	.	FAT3	1822	.	NM_001008781	exon18	c.G10899C	p.V3633V	TGATGTGGTCGTG	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37139104	37139104	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	95	46	110	0	0.484211	0	.	.	none	.	PIM1	71	.	NM_001243186	exon4	c.C717T	p.F239F	CTTCTTCTGGCAG	.	PASS	Atlas-SNP
PTPRZ1	5803	hgsc.bcm.edu	37	7	121652288	121652288	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	109	55	146	0	0.504587	0	.	.	none	.	PTPRZ1	605	.	NM_002851	exon12	c.T3188G	p.V1063G	AGATGGTTTACCC	.	PASS	Atlas-SNP
ESRRG	2104	hgsc.bcm.edu	37	1	216680418	216680418	+	Missense_Mutation	SNP	C	C	G	rs200999094	alternate_allele	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	150	69	205	0	0.46	0	C|0.999;T|0.001	.	alt	.	ESRRG	111	.	NM_001243518	exon8	c.G1276C	p.A426P	TGCCAGCTCGACG	.	PASS	Atlas-SNP
KLHL21	9903	hgsc.bcm.edu	37	1	6662376	6662376	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	14	8	37	0	0.571429	0	.	.	none	.	KLHL21	27	.	NM_014851	exon1	c.C502T	p.L168L	CGCCCAGCTCGCC	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385799	58385799	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	324	53	215	0	0.16358	0	.	.	none	ZNF814,brain,primitive_neuroectodermal_tumour-medulloblastoma,+1,2	ZNF814	93	2	NM_001144989	exon3	c.G959A	p.G320E	CTTTTCCCAGTGT	.	PASS	Atlas-SNP
NUAK1	9891	hgsc.bcm.edu	37	12	106460866	106460866	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	99	25	110	1	0.252525	0.00909091	.	.	none	NUAK1_ENST00000261402,NS,malignant_melanoma,-1,2	NUAK1	196	2	NM_014840	exon7	c.G1700A	p.R567H	GAAGGGCGGCTGT	.	scavenged	Atlas-SNP
GPR32	2854	hgsc.bcm.edu	37	19	51274851	51274851	+	Missense_Mutation	SNP	A	A	C	rs78840344	bycluster	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	148	17	75	4	0.114865	0.0533333	.	.	weak	GPR32,NS,carcinoma,0,5	GPR32	68	5	NM_001506	exon1	c.A994C	p.T332P	TCTTTGACTTCTG	.	scavenged	Atlas-SNP
OR9A4	130075	hgsc.bcm.edu	37	7	141618791	141618791	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	195	91	225	0	0.466667	0	.	.	none	.	OR9A4	58	.	NM_001001656	exon1	c.T116C	p.M39T	CATTAATGGGAAA	.	PASS	Atlas-SNP
PDE3A	5139	hgsc.bcm.edu	37	12	20787920	20787920	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	51	20	74	0	0.392157	0	.	.	none	.	PDE3A	184	.	NM_000921	exon8	c.A1931G	p.E644G	AAACAGAGTGCCT	.	PASS	Atlas-SNP
SEMA4A	64218	hgsc.bcm.edu	37	1	156146494	156146494	+	Silent	SNP	G	G	A	rs185601992	bycluster;by1000genomes	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	119	65	73	0	0.546219	0	G|0.999;A|0.001	0.001	strong	.	SEMA4A	75	.	NM_001193300	exon15	c.G1992A	p.P664P	GGTCCCGTTGACC	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385793	58385793	+	Missense_Mutation	SNP	C	C	T	rs113623532	bycluster	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	348	54	229	0	0.155172	0	C|0.500;T|0.500	0.500	weak	.	ZNF814	93	.	NM_001144989	exon3	c.G965A	p.R322K	TAAGGTCTTTTCC	.	PASS	Atlas-SNP
KIF17	57576	hgsc.bcm.edu	37	1	21031118	21031118	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	133	57	196	0	0.428571	0	.	.	none	KIF17,NS,carcinoma,-2,1	KIF17	130	1	NM_001122819	exon5	c.G945A	p.A315A	GTTGTCCGCAGGC	.	PASS	Atlas-SNP
C10orf71	118461	hgsc.bcm.edu	37	10	50533942	50533942	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	37	16	72	0	0.432432	0	.	.	none	.	C10orf71	179	.	NM_001135196	exon3	c.G3352C	p.V1118L	GCCCTCGTGTGGG	.	PASS	Atlas-SNP
SLC12A1	6557	hgsc.bcm.edu	37	15	48500287	48500287	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	46	40	47	0	0.869565	0	.	.	none	SLC12A1,NS,carcinoma,0,1	SLC12A1	243	1	NM_001184832	exon2	c.C371A	p.P124H	GTGGGCCCAAGGT	.	PASS	Atlas-SNP
CALHM2	51063	hgsc.bcm.edu	37	10	105209154	105209154	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	41	14	25	0	0.341463	0	.	.	none	.	CALHM2	30	.	NM_015916	exon3	c.A545T	p.Y182F	GACTCATACCTGA	.	PASS	Atlas-SNP
IRF2BP2	359948	hgsc.bcm.edu	37	1	234744253	234744253	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	61	29	58	0	0.47541	0	.	.	none	.	IRF2BP2	37	.	NM_182972	exon1	c.G988A	p.A330T	TCAGGGCCGGCTC	.	PASS	Atlas-SNP
MYH2	4620	hgsc.bcm.edu	37	17	10430004	10430004	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	179	76	215	0	0.424581	0	.	.	none	.	MYH2	390	.	NM_017534	exon30	c.C4099T	p.L1367L	TGGACAGTGCTCT	.	PASS	Atlas-SNP
STX16	8675	hgsc.bcm.edu	37	20	57227165	57227165	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	32	18	44	0	0.5625	0	.	.	none	.	STX16	36	.	NM_001134772	exon1	c.A103G	p.S35G	ACCTCCAGCCCTC	.	PASS	Atlas-SNP
GPR125	166647	hgsc.bcm.edu	37	4	22389666	22389666	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	196	88	271	0	0.44898	0	.	.	none	.	GPR125	118	.	NM_145290	exon19	c.C3628T	p.R1210W	CCAGCCGGCTTTT	.	PASS	Atlas-SNP
HMHA1	23526	hgsc.bcm.edu	37	19	1080926	1080926	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	92	41	81	0	0.445652	0	.	.	none	.	HMHA1	78	.	NM_001258328	exon17	c.G2101T	p.A701S	CCGGTGGCCGTGC	.	PASS	Atlas-SNP
LHX5	64211	hgsc.bcm.edu	37	12	113901352	113901352	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	44	29	35	0	0.659091	0	.	.	none	.	LHX5	39	.	NM_022363	exon5	c.C852T	p.G284G	GTAGTCGCCTTGG	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230403	23230403	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	102	45	112	0	0.441176	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.G170A	p.G57E	CAGTTGGAAGCAG	.	PASS	Atlas-SNP
KRTAP9-1	728318	hgsc.bcm.edu	37	17	39346591	39346591	+	Silent	SNP	C	C	T	rs76923645		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	62	24	63	0	0.387097	0	C|0.500;T|0.500	0.500	weak	KRTAP9-1_ENST00000398470,caecum,carcinoma,0,2	KRTAP9-1	34	2	NM_001190460	exon1	c.C453T	p.P151P	CCAGCCCACCTGC	.	scavenged	Atlas-SNP
ALG8	79053	hgsc.bcm.edu	37	11	77815052	77815052	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	228	117	217	0	0.513158	0	.	.	none	.	ALG8	54	.	NM_024079	exon12	c.T1323C	p.S441S	CGAAATACTATAT	.	PASS	Atlas-SNP
OSBPL10	114884	hgsc.bcm.edu	37	3	32022420	32022420	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	78	33	89	0	0.423077	0	.	.	none	.	OSBPL10	160	.	NM_017784	exon1	c.C252A	p.Y84X	GTTGGTGTATTTG	.	PASS	Atlas-SNP
OTX2	5015	hgsc.bcm.edu	37	14	57268664	57268664	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	154	77	161	0	0.5	0	.	.	none	.	OTX2	47	.	NM_001270525	exon3	c.G683C	p.S228T	ATGGGACTGAGTG	.	PASS	Atlas-SNP
TBL1XR1	79718	hgsc.bcm.edu	37	3	176756174	176756174	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	104	99	128	0	0.951923	0	.	.	none	TBL1XR1,NS,carcinoma,0,1	TBL1XR1	87	1	NM_024665	exon11	c.G974T	p.C325F	GTACTACAAGAAG	.	PASS	Atlas-SNP
ENTPD4	9583	hgsc.bcm.edu	37	8	23290451	23290451	+	Silent	SNP	C	C	T	rs17089244	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	34	14	28	0	0.411765	0	C|0.877;T|0.123	0.123	strong	.	ENTPD4	56	.	NM_004901	exon13	c.G1839A	p.P613P	GGTCCCCGGGGCA	.	PASS	Atlas-SNP
OSBPL10	114884	hgsc.bcm.edu	37	3	32022391	32022391	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	70	34	77	0	0.485714	0	.	.	none	.	OSBPL10	160	.	NM_017784	exon1	c.G281A	p.R94K	CGTTACCTGTTCT	.	PASS	Atlas-SNP
ZNF493	284443	hgsc.bcm.edu	37	19	21607740	21607740	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	143	65	178	0	0.454545	0	.	.	none	.	ZNF493	178	.	NM_001076678	exon4	c.A2279C	p.K760T	GACATAAGATAAT	.	PASS	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	37	11	1016849	1016849	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	564	20	694	25	0.035461	0.0360231	.	.	none	MUC6_ENST00000421673,NS,carcinoma,0,2	MUC6	408	2	NM_005961	exon31	c.G5952C	p.M1984I	TGCAGTCATAGGA	.	scavenged	Atlas-SNP
CUL1	8454	hgsc.bcm.edu	37	7	148454103	148454103	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	131	48	104	0	0.366412	0	.	.	none	.	CUL1	80	.	NM_003592	exon4	c.T344C	p.V115A	AGAGTGTACTGAA	.	PASS	Atlas-SNP
VMP1	81671	hgsc.bcm.edu	37	17	57915672	57915672	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	231	114	211	1	0.493506	0.00473934	.	.	none	.	VMP1	49	.	NM_030938	exon11	c.G991A	p.G331S	GGCATAGGTCCAT	.	PASS	Atlas-SNP
ITIH2	3698	hgsc.bcm.edu	37	10	7780636	7780636	+	Silent	SNP	C	C	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	76	31	95	0	0.407895	0	.	.	none	ITIH2,NS,neuroblastoma,0,1	ITIH2	144	1	NM_002216	exon16	c.C2010A	p.A670A	TTGGGCCAATCCT	.	PASS	Atlas-SNP
PCDH1	5097	hgsc.bcm.edu	37	5	141244191	141244191	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	64	41	63	0	0.640625	0	.	.	none	.	PCDH1	119	.	NM_032420	exon3	c.T1705A	p.S569T	CCAGAGATGTCTT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195507051	195507051	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	132	9	128	3	0.0681818	0.0234375	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.A11400G	p.S3800S	GGATGCTGAGGAA	.	scavenged	Atlas-SNP
LMF1	64788	hgsc.bcm.edu	37	16	919924	919924	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	67	37	82	0	0.552239	0	.	.	none	.	LMF1	42	.	NM_022773	exon9	c.C1375T	p.H459Y	GGTAGTGGTACGG	.	PASS	Atlas-SNP
ADCK4	79934	hgsc.bcm.edu	37	19	41216028	41216028	+	Silent	SNP	G	G	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	117	75	74	0	0.641026	0	.	.	none	.	ADCK4	92	.	NM_001142555	exon5	c.C303A	p.G101G	CCCCAAGCCCACA	.	PASS	Atlas-SNP
BCR	613	hgsc.bcm.edu	37	22	23523322	23523322	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	78	31	69	0	0.397436	0	.	.	none	.	BCR	74	.	NM_021574	exon1	c.C175T	p.L59L	ATCTACCTGCAGA	.	PASS	Atlas-SNP
OSBPL10	114884	hgsc.bcm.edu	37	3	32022613	32022613	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	113	48	85	0	0.424779	0	.	.	none	.	OSBPL10	160	.	NM_017784	exon1	c.G59A	p.S20N	CTGCTGCTGCGGC	.	PASS	Atlas-SNP
ITPKB	3707	hgsc.bcm.edu	37	1	226924565	226924565	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	46	22	26	0	0.478261	0	.	.	none	.	ITPKB	158	.	NM_002221	exon2	c.G595T	p.E199X	TCCGTTCCTCGCT	.	PASS	Atlas-SNP
DSC3	1825	hgsc.bcm.edu	37	18	28587034	28587034	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	220	57	226	0	0.259091	0	.	.	none	.	DSC3	225	.	NM_024423	exon12	c.A1727T	p.E576V	AGTATTTCTGGTG	.	PASS	Atlas-SNP
FNDC3B	64778	hgsc.bcm.edu	37	3	172025174	172025174	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	82	42	103	0	0.512195	0	.	.	none	.	FNDC3B	118	.	NM_001135095	exon10	c.C1083T	p.S361S	CAATTCCGTAAAG	.	PASS	Atlas-SNP
PHF2	5253	hgsc.bcm.edu	37	9	96416812	96416812	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	42	15	64	0	0.357143	0	.	.	none	.	PHF2	113	.	NM_005392	exon7	c.T907A	p.Y303N	AAATGCTACAAGT	.	PASS	Atlas-SNP
LIN28B	389421	hgsc.bcm.edu	37	6	105526426	105526426	+	Missense_Mutation	SNP	C	C	T	rs201716597	by1000genomes	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	34	30	58	0	0.882353	0	C|1.000;T|0.000	0.000	strong	.	LIN28B	17	.	NM_001004317	exon4	c.C521T	p.A174V	CACCCGCGAGTTC	.	PASS	Atlas-SNP
FAM5B	57795	hgsc.bcm.edu	37	1	177250054	177250054	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	89	45	104	0	0.505618	0	.	.	none	.	FAM5B	191	.	NM_021165	exon8	c.C1742A	p.T581N	ACAGCACCCTGGA	.	PASS	Atlas-SNP
ABHD3	171586	hgsc.bcm.edu	37	18	19283631	19283631	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	105	34	91	0	0.32381	0	.	.	none	.	ABHD3	32	.	NM_138340	exon2	c.C240T	p.Y80Y	CGGGTAGTACGTT	.	PASS	Atlas-SNP
LAMA3	3909	hgsc.bcm.edu	37	18	21330979	21330979	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	267	86	210	0	0.322097	0	.	.	none	.	LAMA3	397	.	NM_001127717	exon5	c.G782A	p.R261H	GCTTGCGTTTTCT	.	PASS	Atlas-SNP
RBBP7	5931	hgsc.bcm.edu	37	X	16881137	16881137	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	193	177	191	0	0.917098	0	.	.	none	.	RBBP7	58	.	NM_001198719	exon3	c.T380G	p.V127G	ATATGTACTCGAG	.	PASS	Atlas-SNP
POLR1A	25885	hgsc.bcm.edu	37	2	86302316	86302316	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	109	42	144	1	0.385321	0.00694444	.	.	none	POLR1A,NS,carcinoma,0,1	POLR1A	137	1	NM_015425	exon12	c.C1448T	p.A483V	ATGACCGCTTGCC	.	scavenged	Atlas-SNP
SPATA9	83890	hgsc.bcm.edu	37	5	94994492	94994492	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	207	91	190	0	0.439614	0	.	.	none	.	SPATA9	17	.	NM_031952	exon5	c.G600A	p.E200E	CATAGGCTCCGAA	.	PASS	Atlas-SNP
PKP1	5317	hgsc.bcm.edu	37	1	201252908	201252908	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	85	35	81	0	0.411765	0	.	.	none	.	PKP1	127	.	NM_001005337	exon1	c.G78A	p.P26P	TTTGCCGTCGGAC	.	PASS	Atlas-SNP
LRRTM4	80059	hgsc.bcm.edu	37	2	77746080	77746080	+	Silent	SNP	G	G	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	96	43	134	0	0.447917	0	.	.	none	.	LRRTM4	334	.	NM_024993	exon3	c.C915A	p.S305S	TGTGATGGATATT	.	PASS	Atlas-SNP
COL21A1	81578	hgsc.bcm.edu	37	6	55924958	55924958	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	216	102	235	0	0.472222	0	.	.	none	.	COL21A1	201	.	NM_030820	exon28	c.C2466T	p.S822S	ATGTTGGGACAGG	.	PASS	Atlas-SNP
AGTR2	186	hgsc.bcm.edu	37	X	115303934	115303934	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	249	228	345	0	0.915663	0	.	.	none	.	AGTR2	62	.	NM_000686	exon3	c.T401G	p.F134C	TTTTTTTTATCAC	.	PASS	Atlas-SNP
ROS1	6098	hgsc.bcm.edu	37	6	117686814	117686814	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	83	64	175	1	0.771084	0.00571429	.	.	none	.	ROS1	728	.	NM_002944	exon19	c.T2903C	p.L968P	TTCCACAGGATTT	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230360	23230360	+	Nonsense_Mutation	SNP	G	G	A	rs6003368	byhapmap	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	101	47	104	0	0.465347	0	G|1.000;|0.000	.	weak	.	IGLL5	26	.	NM_001256296	exon1	c.G21A	p.W7X	CCAATGGTTGCAC	.	PASS	Atlas-SNP
C20orf194	25943	hgsc.bcm.edu	37	20	3302910	3302910	+	Splice_Site	SNP	C	C	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	44	17	59	0	0.386364	0	.	.	none	.	C20orf194	83	.	NM_001009984	exon17	c.1311-1G>T	.	ACAATTCTAGGAG	.	PASS	Atlas-SNP
RFX1	5989	hgsc.bcm.edu	37	19	14076565	14076565	+	Silent	SNP	C	C	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	50	27	66	0	0.54	0	.	.	none	.	RFX1	63	.	NM_002918	exon15	c.G1986C	p.L662L	TTTGGGCAGTCGC	.	PASS	Atlas-SNP
PNLIPRP3	119548	hgsc.bcm.edu	37	10	118220524	118220524	+	Silent	SNP	C	C	A	rs199970109	alternate_allele	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	187	57	172	0	0.304813	0	C|0.999;T|0.001	.	alt	PNLIPRP3,NS,carcinoma,0,1	PNLIPRP3	101	1	NM_001011709	exon6	c.C612A	p.V204V	GGAAGTCAGGCTA	.	PASS	Atlas-SNP
MBOAT2	129642	hgsc.bcm.edu	37	2	9028160	9028160	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	456	218	531	1	0.47807	0.00188324	.	.	none	MBOAT2,caecum,carcinoma,0,2	MBOAT2	36	2	NM_138799	exon5	c.G439A	p.E147K	GAATTTCGCAAGC	.	PASS	Atlas-SNP
NUF2	83540	hgsc.bcm.edu	37	1	163318812	163318812	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	276	124	369	0	0.449275	0	.	.	none	.	NUF2	138	.	NM_145697	exon13	c.T1202C	p.I401T	AAAAAATTAAACT	.	PASS	Atlas-SNP
TIAM1	7074	hgsc.bcm.edu	37	21	32617950	32617950	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	99	51	90	0	0.515152	0	.	.	none	.	TIAM1	522	.	NM_003253	exon7	c.G1438A	p.D480N	TGCCGTCGCTCTC	.	PASS	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	37	8	2964161	2964161	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	49	20	70	0	0.408163	0	.	.	none	.	CSMD1	1469	.	NM_033225	exon46	c.G6838T	p.D2280Y	CAAAATCTCCTAG	.	PASS	Atlas-SNP
CCDC89	220388	hgsc.bcm.edu	37	11	85396761	85396761	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	92	44	109	0	0.478261	0	.	.	none	.	CCDC89	45	.	NM_152723	exon1	c.G413A	p.R138H	TTGAAGCGGAGCA	.	PASS	Atlas-SNP
BBX	56987	hgsc.bcm.edu	37	3	107524323	107524323	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	119	66	143	0	0.554622	0	.	.	none	.	BBX	156	.	NM_001276286	exon17	c.A1836C	p.K612N	TTGTAAAACATTG	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37139045	37139045	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	76	30	97	0	0.394737	0	.	.	none	.	PIM1	71	.	NM_001243186	exon4	c.C658G	p.L220V	CAAGATCTCTTCG	.	PASS	Atlas-SNP
DUOX1	53905	hgsc.bcm.edu	37	15	45439820	45439820	+	Nonsense_Mutation	SNP	C	C	T	rs143543011		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	98	14	92	0	0.142857	0	C|1.000;T|0.000	0.000	weak	.	DUOX1	125	.	NM_017434	exon20	c.C2512T	p.R838X	TCCTTCCGAGAGT	.	PASS	Atlas-SNP
NIPA2	81614	hgsc.bcm.edu	37	15	23006258	23006258	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	75	28	78	0	0.373333	0	.	.	none	.	NIPA2	49	.	NM_001184889	exon10	c.A1046G	p.N349S	GAGACATTTTCAC	.	PASS	Atlas-SNP
ROPN1L	83853	hgsc.bcm.edu	37	5	10465050	10465050	+	Silent	SNP	A	A	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	296	132	382	0	0.445946	0	.	.	none	.	ROPN1L	33	.	NM_031916	exon5	c.A684C	p.V228V	AGATGTAGGCCAT	.	PASS	Atlas-SNP
NISCH	11188	hgsc.bcm.edu	37	3	52521970	52521970	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	25	17	54	0	0.68	0	.	.	none	.	NISCH	97	.	NM_007184	exon16	c.G2462T	p.S821I	TGTGTAGCCCCAT	.	PASS	Atlas-SNP
FOXB2	442425	hgsc.bcm.edu	37	9	79635701	79635701	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	54	27	37	0	0.5	0	.	.	none	.	FOXB2	71	.	NM_001013735	exon1	c.G1131A	p.A377A	GTCCGCGCTGCAG	.	PASS	Atlas-SNP
NCAM2	4685	hgsc.bcm.edu	37	21	22656515	22656515	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	81	43	109	0	0.530864	0	.	.	none	.	NCAM2	220	.	NM_004540	exon3	c.G132A	p.A44A	TGCAGCGATTGGT	.	PASS	Atlas-SNP
PRRT3	285368	hgsc.bcm.edu	37	3	9991706	9991706	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	72	37	72	0	0.513889	0	.	.	none	.	PRRT3	35	.	NM_207351	exon2	c.A94G	p.R32G	GTGGCCTGGGAAA	.	PASS	Atlas-SNP
PTPN18	26469	hgsc.bcm.edu	37	2	131130741	131130741	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	56	23	87	0	0.410714	0	.	.	none	PTPN18,colon,carcinoma,0,1	PTPN18	42	1	NM_014369	exon15	c.C1327T	p.R443C	AACCTGCGCATTG	.	PASS	Atlas-SNP
OR1M1	125963	hgsc.bcm.edu	37	19	9204160	9204160	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	147	71	160	0	0.482993	0	.	.	none	.	OR1M1	52	.	NM_001004456	exon1	c.G240T	p.K80N	CCCTAAGATGCTG	.	PASS	Atlas-SNP
PCDHA11	56138	hgsc.bcm.edu	37	5	140249903	140249903	+	Silent	SNP	G	G	A	rs372041974		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	140	60	178	0	0.428571	0	.	.	weak	.	PCDHA11	209	.	NM_018902	exon1	c.G1215A	p.S405S	CTACTCGTTGGTG	.	PASS	Atlas-SNP
HIST1H2BJ	8970	hgsc.bcm.edu	37	6	27100220	27100220	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	55	28	81	0	0.509091	0	.	.	none	.	HIST1H2BJ	21	.	NM_021058	exon1	c.C310A	p.P104T	CCCCAGGCAGCAG	.	PASS	Atlas-SNP
ZCCHC8	55596	hgsc.bcm.edu	37	12	122958280	122958280	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	267	161	159	0	0.602996	0	.	.	none	.	ZCCHC8	56	.	NM_017612	exon14	c.G1888A	p.V630I	TTGGTACGACACT	.	PASS	Atlas-SNP
OR5L1	219437	hgsc.bcm.edu	37	11	55579714	55579714	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	90	45	98	0	0.5	0	.	.	none	.	OR5L1	145	.	NM_001004738	exon1	c.A772G	p.I258V	CTTTCCATTTATT	.	PASS	Atlas-SNP
NECAB3	63941	hgsc.bcm.edu	37	20	32246320	32246320	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	69	39	91	0	0.565217	0	.	.	none	.	NECAB3	27	.	NM_031232	exon10	c.C1033A	p.L345M	CATACAGGGTGAA	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37139128	37139128	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	98	48	109	0	0.489796	0	.	.	none	.	PIM1	71	.	NM_001243186	exon4	c.G741A	p.R247R	CGTGCGGCACTGC	.	PASS	Atlas-SNP
OSBPL10	114884	hgsc.bcm.edu	37	3	32022431	32022431	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	76	37	89	0	0.486842	0	.	.	none	.	OSBPL10	160	.	NM_017784	exon1	c.C241T	p.L81F	TGCTGAGCACGCC	.	PASS	Atlas-SNP
OR5M10	390167	hgsc.bcm.edu	37	11	56345145	56345145	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	153	63	228	0	0.411765	0	.	.	none	.	OR5M10	56	.	NM_001004741	exon1	c.C53G	p.T18R	TCGTCTGTCAGTC	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	37	4	126241904	126241904	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	96	45	155	0	0.46875	0	.	.	none	.	FAT4	1752	.	NM_024582	exon1	c.C4338G	p.D1446E	ACATGACCCTGAT	.	PASS	Atlas-SNP
OSBPL10	114884	hgsc.bcm.edu	37	3	32022574	32022574	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	70	35	72	0	0.5	0	.	.	none	.	OSBPL10	160	.	NM_017784	exon1	c.G98A	p.C33Y	AGAGAGCAGGAGG	.	PASS	Atlas-SNP
LIMD1	8994	hgsc.bcm.edu	37	3	45636456	45636456	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	43	37	95	0	0.860465	0	.	.	none	.	LIMD1	34	.	NM_014240	exon1	c.T85C	p.F29L	GGGCTCTTCCGAG	.	PASS	Atlas-SNP
SEL1L2	80343	hgsc.bcm.edu	37	20	13866955	13866955	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	197	89	233	0	0.451777	0	.	.	none	.	SEL1L2	103	.	NM_001271539	exon9	c.A879T	p.E293D	TCCTCTTTCTGCC	.	PASS	Atlas-SNP
CYB5R3	1727	hgsc.bcm.edu	37	22	43024249	43024249	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	53	13	53	0	0.245283	0	.	.	none	.	CYB5R3	31	.	NM_001171660	exon5	c.A471G	p.G157G	CTTCCCTCCAGCG	.	PASS	Atlas-SNP
HSPA1L	3305	hgsc.bcm.edu	37	6	31778920	31778920	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	133	61	110	0	0.458647	0	.	.	none	.	HSPA1L	185	.	NM_005527	exon2	c.C830T	p.S277L	CTGGACGACAGGG	.	PASS	Atlas-SNP
ACTG1	71	hgsc.bcm.edu	37	17	79479013	79479013	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	101	56	85	0	0.554455	0	.	.	none	.	ACTG1	55	.	NM_001614	exon3	c.G279C	p.E93D	GCGCAGCTCGTTG	.	PASS	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	37	22	38153834	38153834	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	56	21	51	0	0.375	0	.	.	none	.	TRIOBP	262	.	NM_001039141	exon16	c.C5902T	p.R1968C	CCTGACCGCCTGG	.	PASS	Atlas-SNP
MYO5B	4645	hgsc.bcm.edu	37	18	47518736	47518736	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	168	39	177	0	0.232143	0	.	.	none	.	MYO5B	178	.	NM_001080467	exon6	c.T678G	p.I226M	AAAGCCAATCTGG	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37139097	37139097	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	93	44	117	1	0.473118	0.00854701	.	.	none	PIM1,NS,carcinoma,+1,3	PIM1	71	3	NM_001243186	exon4	c.G710A	p.S237N	CCCGCAGCTTCTT	.	scavenged	Atlas-SNP
PPP5C	5536	hgsc.bcm.edu	37	19	46878959	46878959	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	109	67	91	0	0.614679	0	.	.	none	PPP5C,NS,carcinoma,0,1	PPP5C	44	1	NM_006247	exon3	c.C462T	p.G154G	CGCGGGCGACGAG	.	PASS	Atlas-SNP
ARHGAP21	57584	hgsc.bcm.edu	37	10	24909679	24909679	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	140	56	160	0	0.4	0	.	.	none	.	ARHGAP21	185	.	NM_020824	exon9	c.A1145C	p.Q382P	ATGTGCTGATGGG	.	PASS	Atlas-SNP
KRT1	3848	hgsc.bcm.edu	37	12	53069235	53069235	+	Silent	SNP	G	G	A	rs11170232	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	29	15	11	0	0.517241	0	G|0.500;A|0.500	0.500	strong	.	KRT1	110	.	NM_006121	exon9	c.C1677T	p.Y559Y	GGAGCCGTAGCTG	.	PASS	Atlas-SNP
ARHGEF3	50650	hgsc.bcm.edu	37	3	56763546	56763546	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	260	122	292	2	0.469231	0.00684932	.	.	none	ARHGEF3_ENST00000413728,NS,carcinoma,0,4	ARHGEF3	128	4	NM_001128615	exon13	c.C1429T	p.R477C	CTTGACGAATACA	.	scavenged	Atlas-SNP
UTRN	7402	hgsc.bcm.edu	37	6	145148756	145148756	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	59	45	146	0	0.762712	0	.	.	none	.	UTRN	327	.	NM_007124	exon67	c.A9543G	p.Q3181Q	CTCACAATCTCCT	.	PASS	Atlas-SNP
KRT1	3848	hgsc.bcm.edu	37	12	53069243	53069243	+	Missense_Mutation	SNP	T	T	C	rs77846840	bycluster	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	26	12	11	0	0.461538	0	T|0.500;C|0.500	0.500	weak	.	KRT1	110	.	NM_006121	exon9	c.A1669G	p.S557G	AGCTGCTACCTCC	.	PASS	Atlas-SNP
KCNA3	3738	hgsc.bcm.edu	37	1	111216563	111216563	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	56	25	58	0	0.446429	0	.	.	none	.	KCNA3	91	.	NM_002232	exon1	c.G869A	p.S290N	GAGAAGCTGGAGG	.	PASS	Atlas-SNP
OSBPL10	114884	hgsc.bcm.edu	37	3	32022619	32022619	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	114	60	89	0	0.526316	0	.	.	none	.	OSBPL10	160	.	NM_017784	exon1	c.G53A	p.S18N	CTGCGGCTGCTGC	.	PASS	Atlas-SNP
POU2F2	5452	hgsc.bcm.edu	37	19	42600043	42600043	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	116	28	60	0	0.241379	0	.	.	none	.	POU2F2	106	.	NM_001207025	exon9	c.C702T	p.N234N	GAAGTCGTTGCCG	.	PASS	Atlas-SNP
SPHKAP	80309	hgsc.bcm.edu	37	2	228882550	228882550	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	131	59	149	1	0.450382	0.00671141	.	.	none	SPHKAP_ENST00000392056,NS,carcinoma,0,4	SPHKAP	750	4	NM_030623	exon7	c.C3020T	p.T1007M	TCGTCCGTCTTCC	.	scavenged	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138332	37138332	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	38	18	63	0	0.473684	0	.	.	none	.	PIM1	71	.	NM_001243186	exon1	c.C254G	p.A85G	CCTGCGCCGACAT	.	PASS	Atlas-SNP
C10orf71	118461	hgsc.bcm.edu	37	10	50533940	50533940	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	36	13	73	0	0.361111	0	.	.	none	.	C10orf71	179	.	NM_001135196	exon3	c.T3350C	p.L1117P	ACGCCCTCGTGTG	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385762	58385762	+	Silent	SNP	C	C	G	rs199732634	bycluster	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	512	138	298	3	0.269531	0.0100671	.	.	weak	ZNF814,NS,carcinoma,0,15	ZNF814	93	15	NM_001144989	exon3	c.G996C	p.S332S	GCTAAACGATTTC	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195512623	195512623	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	242	35	277	0	0.144628	0	.	.	none	.	MUC4	1505	.	NM_018406	exon2	c.C5828G	p.S1943C	GCTGAGGAAGGGC	.	PASS	Atlas-SNP
JAM3	83700	hgsc.bcm.edu	37	11	134019043	134019043	+	Silent	SNP	C	C	T	rs200279211	by1000genomes	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	145	66	155	0	0.455172	0	C|1.000;T|0.000	0.000	strong	.	JAM3	41	.	NM_032801	exon9	c.C900T	p.G300G	GCAGGGCGACTTC	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138591	37138591	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	53	23	59	0	0.433962	0	.	.	none	.	PIM1	71	.	NM_001243186	exon2	c.C398T	p.P133L	TGGGCCCGCTACT	.	PASS	Atlas-SNP
DNAH7	56171	hgsc.bcm.edu	37	2	196852948	196852948	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	202	79	273	0	0.391089	0	.	.	none	.	DNAH7	512	.	NM_018897	exon13	c.T1359C	p.S453S	AGACTTACTTTCC	.	PASS	Atlas-SNP
CXorf22	170063	hgsc.bcm.edu	37	X	35969413	35969413	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	208	189	230	0	0.908654	0	.	.	none	.	CXorf22	272	.	NM_152632	exon5	c.T822C	p.N274N	ATACAATAATAGC	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	37	5	150922299	150922299	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	98	52	112	0	0.530612	0	.	.	none	.	FAT2	465	.	NM_001447	exon9	c.T8389C	p.F2797L	CCTCAAATACAGG	.	PASS	Atlas-SNP
ENPEP	2028	hgsc.bcm.edu	37	4	111398089	111398089	+	Silent	SNP	G	G	A	rs373421438	alternate_allele	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	58	26	73	0	0.448276	0	.	.	alt	.	ENPEP	149	.	NM_001977	exon1	c.G519A	p.A173A	CGAGGCGGAGGAA	.	PASS	Atlas-SNP
COL12A1	1303	hgsc.bcm.edu	37	6	75890902	75890902	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	100	44	117	0	0.44	0	.	.	none	.	COL12A1	385	.	NM_004370	exon11	c.T1917G	p.S639R	TGAAAAACTAAGA	.	PASS	Atlas-SNP
AMOTL1	154810	hgsc.bcm.edu	37	11	94583365	94583365	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	58	37	70	0	0.637931	0	.	.	none	.	AMOTL1	95	.	NM_130847	exon7	c.G1735A	p.E579K	CACATCGAGATCC	.	PASS	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	37	14	64593362	64593362	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	98	54	74	0	0.55102	0	.	.	none	.	SYNE2	577	.	NM_182914	exon73	c.A13754G	p.K4585R	GTGACAAGAAGGG	.	PASS	Atlas-SNP
FGF21	26291	hgsc.bcm.edu	37	19	49261218	49261218	+	Missense_Mutation	SNP	G	G	A	rs142980324	bycluster	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	151	94	96	0	0.622517	0	G|1.000;A|0.000	0.000	weak	.	FGF21	21	.	NM_019113	exon3	c.G371A	p.R124Q	GCTTCCGGGAGCT	.	PASS	Atlas-SNP
TEKT1	83659	hgsc.bcm.edu	37	17	6719262	6719262	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	32	16	69	0	0.5	0	.	.	none	.	TEKT1	49	.	NM_053285	exon4	c.G376T	p.D126Y	CCAGGTCAATGCC	.	PASS	Atlas-SNP
ESR2	2100	hgsc.bcm.edu	37	14	64749642	64749642	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	145	74	145	0	0.510345	0	.	.	none	.	ESR2	82	.	NM_001214902	exon1	c.C62T	p.S21F	AAGATGGATTGAC	.	PASS	Atlas-SNP
TAOK2	9344	hgsc.bcm.edu	37	16	29996996	29996996	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	27	14	43	0	0.518519	0	.	.	none	TAOK2_ENST00000308893,NS,carcinoma,+2,2	TAOK2	142	2	NM_004783	exon15	c.C1806T	p.P602P	GAACCCCAGCACT	.	PASS	Atlas-SNP
VAT1	10493	hgsc.bcm.edu	37	17	41174312	41174312	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	23	15	27	0	0.652174	0	.	.	none	.	VAT1	19	.	NM_006373	exon1	c.G28A	p.A10T	TCGCTGCCTCGGC	.	PASS	Atlas-SNP
ARHGEF40	55701	hgsc.bcm.edu	37	14	21550212	21550212	+	Missense_Mutation	SNP	G	G	T	rs114591848	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	20	16	41	0	0.8	0	G|0.997;A|0.003	.	alt	.	ARHGEF40	84	.	NM_018071	exon14	c.G3185T	p.R1062L	TGGGCCGGGCTAG	.	PASS	Atlas-SNP
OSBPL10	114884	hgsc.bcm.edu	37	3	32022573	32022573	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	71	33	71	0	0.464789	0	.	.	none	.	OSBPL10	160	.	NM_017784	exon1	c.C99T	p.C33C	CAGAGAGCAGGAG	.	PASS	Atlas-SNP
LILRA2	11027	hgsc.bcm.edu	37	19	55086869	55086869	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	135	47	123	0	0.348148	0	.	.	none	.	LILRA2	99	.	NM_001130917	exon5	c.G802T	p.G268C	CGCCCTGGTTGGC	.	PASS	Atlas-SNP
C17orf104	284071	hgsc.bcm.edu	37	17	42751550	42751550	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	72	31	75	0	0.430556	0	.	.	none	.	C17orf104	75	.	NM_001145080	exon8	c.A2845G	p.T949A	GGTGAAACAAACA	.	PASS	Atlas-SNP
SEMA5A	9037	hgsc.bcm.edu	37	5	9119196	9119196	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	90	34	100	0	0.377778	0	.	.	none	.	SEMA5A	236	.	NM_003966	exon15	c.C1839T	p.I613I	GAAGCCGATCCCA	.	PASS	Atlas-SNP
ZNF700	90592	hgsc.bcm.edu	37	19	12059331	12059331	+	Nonsense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	128	65	137	0	0.507812	0	.	.	none	.	ZNF700	81	.	NM_001271848	exon4	c.T501G	p.Y167X	GCCATATAAGTGT	.	PASS	Atlas-SNP
BCR	613	hgsc.bcm.edu	37	22	23523331	23523331	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	78	41	73	0	0.525641	0	.	.	none	.	BCR	74	.	NM_021574	exon1	c.T184C	p.L62L	CAGACGTTGCTGG	.	PASS	Atlas-SNP
ASB11	140456	hgsc.bcm.edu	37	X	15301725	15301725	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	67	65	56	0	0.970149	0	.	.	none	.	ASB11	79	.	NM_080873	exon7	c.C874T	p.R292C	ACAGGCGGCAGAG	.	PASS	Atlas-SNP
OR8B3	390271	hgsc.bcm.edu	37	11	124266927	124266927	+	Silent	SNP	A	A	G	rs142812088		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	245	24	335	18	0.0979592	0.0537313	A|1.000;G|0.000	0.000	weak	OR8B3,NS,carcinoma,0,1	OR8B3	36	1	NM_001005467	exon1	c.T321C	p.F107F	GATGACAAAAAAG	.	scavenged	Atlas-SNP
PLCG2	5336	hgsc.bcm.edu	37	16	81819709	81819709	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	59	29	61	0	0.491525	0	.	.	none	.	PLCG2	276	.	NM_002661	exon2	c.G115A	p.E39K	ACCCCCGAGCGGA	.	PASS	Atlas-SNP
BTG2	7832	hgsc.bcm.edu	37	1	203274876	203274876	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	65	30	70	0	0.461538	0	.	.	none	.	BTG2	16	.	NM_006763	exon1	c.G142T	p.E48X	CTCACAGGTGAGC	.	PASS	Atlas-SNP
NELL1	4745	hgsc.bcm.edu	37	11	20948897	20948897	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	65	30	83	0	0.461538	0	.	.	none	.	NELL1	179	.	NM_006157	exon8	c.A803G	p.H268R	ACTGTCATTGTGA	.	PASS	Atlas-SNP
ZNF43	7594	hgsc.bcm.edu	37	19	21991819	21991819	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	74	28	114	0	0.378378	0	.	.	none	.	ZNF43	152	.	NM_001256653	exon4	c.A1047C	p.K349N	GTAGGGTTTCTCT	.	PASS	Atlas-SNP
FANCD2	2177	hgsc.bcm.edu	37	3	10080992	10080992	+	Missense_Mutation	SNP	G	G	A	rs41291203	bycluster;by1000genomes	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	129	58	193	0	0.449612	0	G|1.000;A|0.000	0.000	strong	.	FANCD2	253	.	NM_001018115	exon8	c.G521A	p.R174Q	TACCTCGACTCAT	.	PASS	Atlas-SNP
KANK4	163782	hgsc.bcm.edu	37	1	62739545	62739545	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	131	56	170	0	0.427481	0	.	.	none	KANK4,right_upper_lobe,carcinoma,+2,1	KANK4	135	1	NM_181712	exon3	c.G1231C	p.D411H	TCACGTCCGTCTG	.	PASS	Atlas-SNP
HNRNPA1	3178	hgsc.bcm.edu	37	12	54676988	54676988	+	Nonsense_Mutation	SNP	G	G	T	rs367836050	alternate_allele	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	101	36	72	0	0.356436	0	.	.	alt	.	HNRNPA1	72	.	NM_031157	exon8	c.G877T	p.G293X	AACAACGGAGGCG	.	PASS	Atlas-SNP
F11	2160	hgsc.bcm.edu	37	4	187194287	187194287	+	Missense_Mutation	SNP	C	C	T	rs367856671		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	221	84	334	1	0.380091	0.00299401	.	.	weak	.	F11	65	.	NM_000128	exon4	c.C281T	p.A94V	CAGCAGCGATTTC	.	PASS	Atlas-SNP
COL11A1	1301	hgsc.bcm.edu	37	1	103463891	103463891	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	401	166	567	1	0.413965	0.00176367	.	.	none	.	COL11A1	972	.	NM_080629	exon25	c.G2207T	p.G736V	GGAAGTCCAGCAA	.	PASS	Atlas-SNP
KDM2B	84678	hgsc.bcm.edu	37	12	121881588	121881588	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	14	13	14	0	0.928571	0	.	.	none	KDM2B_ENST00000377071,rectum,carcinoma,-1,2	KDM2B	218	2	NM_032590	exon17	c.G2460A	p.S820S	TTGAAGCGATGAG	.	PASS	Atlas-SNP
AMOTL1	154810	hgsc.bcm.edu	37	11	94554798	94554798	+	Silent	SNP	G	G	A	rs370986721		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	71	33	58	0	0.464789	0	.	.	weak	.	AMOTL1	95	.	NM_130847	exon4	c.G1224A	p.P408P	CCTGCCGCTTCCA	.	PASS	Atlas-SNP
RAB11FIP1	80223	hgsc.bcm.edu	37	8	37732263	37732263	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	137	60	133	0	0.437956	0	.	.	none	.	RAB11FIP1	105	.	NM_025151	exon3	c.A1392G	p.E464E	CATGCCTTCCTTC	.	PASS	Atlas-SNP
MAGI2	9863	hgsc.bcm.edu	37	7	79082451	79082451	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	45	20	81	0	0.444444	0	.	.	none	MAGI2,caecum,carcinoma,0,1	MAGI2	246	1	NM_012301	exon1	c.G186A	p.S62S	CTCCTCCGACACC	.	PASS	Atlas-SNP
KLHL1	57626	hgsc.bcm.edu	37	13	70370951	70370951	+	Silent	SNP	A	A	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	152	69	209	0	0.453947	0	.	.	none	.	KLHL1	164	.	NM_020866	exon7	c.T1558C	p.L520L	TGTTCAATGTCTT	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138951	37138951	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	48	24	53	0	0.5	0	.	.	none	PIM1,NS,lymphoid_neoplasm,+1,5	PIM1	71	5	NM_001243186	exon4	c.C564T	p.S188S	GGTGAGCTCGGGT	.	PASS	Atlas-SNP
RNF113B	140432	hgsc.bcm.edu	37	13	98829048	98829048	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	59	26	49	0	0.440678	0	.	.	none	RNF113B,mouth,carcinoma,0,1	RNF113B	41	1	NM_178861	exon1	c.G443A	p.R148Q	ATTCCCCGGTAGA	.	PASS	Atlas-SNP
OSBPL10	114884	hgsc.bcm.edu	37	3	32022569	32022569	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	72	35	67	0	0.486111	0	.	.	none	.	OSBPL10	160	.	NM_017784	exon1	c.C103T	p.L35L	CCGCCAGAGAGCA	.	PASS	Atlas-SNP
IDO1	3620	hgsc.bcm.edu	37	8	39782769	39782769	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	165	66	158	0	0.4	0	.	.	none	.	IDO1	43	.	NM_002164	exon9	c.C735T	p.D245D	ATCAGACGGTCTG	.	PASS	Atlas-SNP
DGCR8	54487	hgsc.bcm.edu	37	22	20079074	20079074	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	56	28	69	0	0.5	0	.	.	none	.	DGCR8	53	.	NM_001190326	exon6	c.C1423T	p.Q475X	CGGAAGCAGGCGG	.	PASS	Atlas-SNP
BTBD11	121551	hgsc.bcm.edu	37	12	108011111	108011111	+	Missense_Mutation	SNP	G	G	A	rs190270378	bycluster;by1000genomes	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	210	121	193	2	0.57619	0.0103627	G|0.999;A|0.001	0.001	strong	BTBD11,colon,carcinoma,+1,1	BTBD11	122	1	NM_001018072	exon9	c.G2129A	p.R710H	TGGAGCGTGGTGC	.	scavenged	Atlas-SNP
ANKRD11	29123	hgsc.bcm.edu	37	16	89348402	89348402	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	156	58	132	0	0.371795	0	.	.	none	.	ANKRD11	195	.	NM_001256183	exon9	c.C4548T	p.D1516D	GGACTTGTCTTTG	.	PASS	Atlas-SNP
GATA3	2625	hgsc.bcm.edu	37	10	8100507	8100507	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	42	16	51	0	0.380952	0	.	.	none	.	GATA3	182	.	NM_002051	exon3	c.G481A	p.V161I	AAGGACGTCTCCC	.	PASS	Atlas-SNP
SIRT7	51547	hgsc.bcm.edu	37	17	79872227	79872227	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	67	27	54	0	0.402985	0	.	.	none	.	SIRT7	37	.	NM_016538	exon7	c.G759A	p.A253A	GGTCGCCGCTTCC	.	PASS	Atlas-SNP
ATN1	1822	hgsc.bcm.edu	37	12	7045891	7045891	+	Silent	SNP	A	A	G	rs150855426	bycluster;byfrequency	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	45	14	45	6	0.311111	0.133333	A|0.990;G|0.010	0.010	strong	ATN1,NS,carcinoma,0,3	ATN1	95	3	NM_001007026	exon5	c.A1461G	p.Q487Q	ACAGCAACAGCAG	.	scavenged	Atlas-SNP
PTPRF	5792	hgsc.bcm.edu	37	1	44084821	44084821	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	41	21	45	0	0.512195	0	.	.	none	.	PTPRF	172	.	NM_002840	exon27	c.C4594T	p.R1532W	CTACGACGGGTCA	.	PASS	Atlas-SNP
CILP2	148113	hgsc.bcm.edu	37	19	19656250	19656250	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	40	19	35	0	0.475	0	.	.	none	.	CILP2	84	.	NM_153221	exon8	c.C2896T	p.R966C	CGCACCCGCGGCC	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138804	37138804	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	68	33	73	0	0.485294	0	.	.	none	PIM1,NS,lymphoid_neoplasm,0,4	PIM1	71	4	NM_001243186	exon3	c.G510C	p.E170D	GGGAGAGCTGGTG	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138563	37138563	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	41	19	48	0	0.463415	0	.	.	none	.	PIM1	71	.	NM_001243186	exon2	c.C370T	p.P124S	AAGGAGCCCCTGG	.	PASS	Atlas-SNP
PRICKLE2	166336	hgsc.bcm.edu	37	3	64085223	64085223	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	53	25	55	0	0.471698	0	.	.	none	PRICKLE2,colon,carcinoma,-1,1	PRICKLE2	88	1	NM_198859	exon8	c.G2039A	p.R680H	AAACGGCGGTTGT	.	PASS	Atlas-SNP
KBTBD13	390594	hgsc.bcm.edu	37	15	65370255	65370255	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	90	30	62	0	0.333333	0	.	.	none	.	KBTBD13	9	.	NM_001101362	exon1	c.G1102A	p.A368T	CACTGCGCCATCG	.	PASS	Atlas-SNP
IGLL5	100423062	hgsc.bcm.edu	37	22	23230323	23230323	+	Silent	SNP	T	T	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	97	37	89	0	0.381443	0	.	.	none	.	IGLL5	26	.	NM_001178126	exon1	c.T90C	p.G30G	GCTGGGTCTGGCC	.	PASS	Atlas-SNP
HIST1H2AM	8336	hgsc.bcm.edu	37	6	27860549	27860549	+	Missense_Mutation	SNP	C	C	G	rs191325870	by1000genomes;alternate_allele	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	194	92	227	0	0.474227	0	C|1.000;T|0.000	.	alt	.	HIST1H2AM	27	.	NM_003514	exon1	c.G379C	p.A127P	CCTTAGCTTTGTG	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385798	58385798	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	327	55	218	1	0.168196	0.00458716	.	.	none	ZNF814,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,2	ZNF814	93	2	NM_001144989	exon3	c.G960A	p.G320G	TCTTTTCCCAGTG	.	scavenged	Atlas-SNP
EIF2S2	8894	hgsc.bcm.edu	37	20	32677684	32677684	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	78	33	107	0	0.423077	0	.	.	none	EIF2S2,NS,carcinoma,-1,3	EIF2S2	32	3	NM_003908	exon9	c.G854A	p.R285Q	GGTGATCGGCATG	.	PASS	Atlas-SNP
TOM1L1	10040	hgsc.bcm.edu	37	17	53007452	53007452	+	Silent	SNP	C	C	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	103	41	103	1	0.398058	0.00970874	.	.	none	TOM1L1,caecum,carcinoma,-1,1	TOM1L1	33	1	NM_005486	exon8	c.C739A	p.R247R	ACAGGTCGGGAGA	.	scavenged	Atlas-SNP
FOXS1	2307	hgsc.bcm.edu	37	20	30433068	30433068	+	Missense_Mutation	SNP	G	G	A	rs140637242		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	44	18	47	0	0.409091	0	G|1.000;A|0.000	0.000	weak	.	FOXS1	29	.	NM_004118	exon1	c.C278T	p.T93M	TCCAGCGTCCAGT	.	PASS	Atlas-SNP
CYLC1	1538	hgsc.bcm.edu	37	X	83127996	83127996	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	157	143	214	0	0.910828	0	.	.	none	.	CYLC1	272	.	NM_021118	exon4	c.G280T	p.A94S	ACAGCTGCCAGGG	.	PASS	Atlas-SNP
MMP16	4325	hgsc.bcm.edu	37	8	89128762	89128762	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	139	65	216	0	0.467626	0	.	.	none	MMP16,NS,carcinoma,+1,1	MMP16	176	1	NM_005941	exon6	c.C1057A	p.L353I	GACGAAGAATAGC	.	PASS	Atlas-SNP
NUP153	9972	hgsc.bcm.edu	37	6	17629629	17629629	+	Missense_Mutation	SNP	A	A	C	rs141169660	bycluster;by1000genomes;alternate_allele	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	125	55	145	0	0.44	0	A|0.999;G|0.001	.	alt	.	NUP153	116	.	NM_005124	exon18	c.T2801G	p.I934R	ACACCTATTTTGA	.	PASS	Atlas-SNP
FAM198B	51313	hgsc.bcm.edu	37	4	159092159	159092159	+	Silent	SNP	G	G	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	63	23	62	0	0.365079	0	.	.	none	.	FAM198B	134	.	NM_016613	exon2	c.C369A	p.G123G	CACGGTGCCACGG	.	PASS	Atlas-SNP
CDKN2A	1029	hgsc.bcm.edu	37	9	21994305	21994305	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	24	21	53	0	0.875	0	.	.	none	.	CDKN2A	4810	.	NM_058195	exon1	c.T26C	p.L9P	ATCCGGAGGGTCA	.	PASS	Atlas-SNP
LEUTX	342900	hgsc.bcm.edu	37	19	40276412	40276412	+	Silent	SNP	G	G	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	133	50	95	0	0.37594	0	.	.	none	.	LEUTX	7	.	NM_001143832	exon3	c.G144T	p.G48G	ACTAGGGCCAGCA	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	37	20	62195768	62195768	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	21	12	26	0	0.571429	0	.	.	none	.	.	.	.	NM_001037335	exon9	c.G4407A	p.P1469P	GGCACCCGGGTGC	.	PASS	Atlas-SNP
PIM2	11040	hgsc.bcm.edu	37	X	48775918	48775918	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	75	65	83	0	0.866667	0	.	.	none	.	PIM2	31	.	NM_006875	exon2	c.C66T	p.G22G	ATCCTTGCCTCCT	.	PASS	Atlas-SNP
SCN2A	6326	hgsc.bcm.edu	37	2	166201313	166201313	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	263	134	341	1	0.509506	0.00293255	.	.	none	.	SCN2A	589	.	NM_001040143	exon15	c.C2811T	p.R937R	GTTCCGCGTGCTG	.	PASS	Atlas-SNP
TMEM52B	120939	hgsc.bcm.edu	37	12	10339160	10339160	+	Silent	SNP	C	C	T	rs145013082	bycluster;byfrequency	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	67	26	84	0	0.38806	0	C|1.000;T|0.000	0.000	strong	.	.	.	.	NM_153022	exon3	c.C219T	p.H73H	CGATCACGACAGC	.	PASS	Atlas-SNP
MYD88	4615	hgsc.bcm.edu	37	3	38182641	38182641	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	55	27	65	0	0.490909	0	.	.	none	MYD88,NS,lymphoid_neoplasm,0,828	MYD88	900	828	NM_001172569	exon4	c.T613C	p.X205R	AGCGACTGATCCC	.	PASS	Atlas-SNP
BCR	613	hgsc.bcm.edu	37	22	23523318	23523318	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	78	32	71	0	0.410256	0	.	.	none	.	BCR	74	.	NM_021574	exon1	c.C171T	p.I57I	CATGATCTACCTG	.	PASS	Atlas-SNP
FZD7	8324	hgsc.bcm.edu	37	2	202899479	202899479	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	56	28	46	0	0.5	0	.	.	none	.	FZD7	70	.	NM_003507	exon1	c.G109A	p.G37R	TACCACGGAGAGA	.	PASS	Atlas-SNP
PIK3AP1	118788	hgsc.bcm.edu	37	10	98405403	98405403	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	125	44	118	0	0.352	0	.	.	none	.	PIK3AP1	111	.	NM_152309	exon8	c.T1202G	p.L401R	CTCTTGAGCATGT	.	PASS	Atlas-SNP
HDAC8	55869	hgsc.bcm.edu	37	X	71571612	71571612	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	71	61	76	0	0.859155	0	.	.	none	.	HDAC8	18	.	NM_018486	exon10	c.G1082A	p.R361Q	TGGATTCGGTGGG	.	PASS	Atlas-SNP
RNF180	285671	hgsc.bcm.edu	37	5	63626166	63626166	+	Silent	SNP	C	C	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	258	105	327	0	0.406977	0	.	.	none	.	RNF180	94	.	NM_001113561	exon7	c.C1512T	p.S504S	ACAAAGCTTTCAG	.	PASS	Atlas-SNP
FOXA3	3171	hgsc.bcm.edu	37	19	46375993	46375993	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	36	23	25	0	0.638889	0	.	.	none	.	FOXA3	19	.	NM_004497	exon2	c.G730A	p.A244T	ACCCCCGCGGCCA	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385869	58385869	+	Nonsense_Mutation	SNP	C	C	A	rs199684163		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	142	19	277	0	0.133803	0	.	.	weak	ZNF814,NS,carcinoma,0,1	ZNF814	93	1	NM_001144989	exon3	c.G889T	p.E297X	CACATTCATGTTT	.	scavenged	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37138577	37138577	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	41	18	52	0	0.439024	0	.	.	none	PIM1,NS,lymphoid_neoplasm,0,2	PIM1	71	2	NM_001243186	exon2	c.G384T	p.Q128H	GTCGCAGTACCAG	.	PASS	Atlas-SNP
PIM1	5292	hgsc.bcm.edu	37	6	37139209	37139209	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	64	26	70	0	0.40625	0	.	.	none	.	PIM1	71	.	NM_001243186	exon4	c.G822C	p.K274N	GCTCAAGCTCATC	.	PASS	Atlas-SNP
APOL2	23780	hgsc.bcm.edu	37	22	36623579	36623579	+	Silent	SNP	T	T	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	163	79	140	0	0.484663	0	.	.	none	.	APOL2	20	.	NM_030882	exon5	c.A885T	p.S295S	GTGCTTTGACTCA	.	PASS	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	37	19	58385790	58385790	+	Missense_Mutation	SNP	G	G	T	rs111727691	bycluster	TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	363	57	238	0	0.157025	0	G|0.500;T|0.500	0.500	weak	.	ZNF814	93	.	NM_001144989	exon3	c.C968A	p.P323H	TCATAAGGTCTTT	.	PASS	Atlas-SNP
HIST1H2BD	3017	hgsc.bcm.edu	37	6	26158724	26158724	+	Silent	SNP	G	G	A	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	110	48	127	0	0.436364	0	.	.	none	.	HIST1H2BD	45	.	NM_021063	exon1	c.G327A	p.K109K	GGCCAAGCACGCC	.	PASS	Atlas-SNP
FRG1	2483	hgsc.bcm.edu	37	4	190878569	190878569	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GS-A9TT-01A-11D-A382-10	TCGA-GS-A9TT-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	e6b849d0-569e-4f4a-aba6-25227d709267	ddddacd6-a277-4d16-bc20-4201b0fe2008	209	11	317	5	0.0526316	0.0157729	.	.	none	FRG1,NS,carcinoma,0,2	FRG1	76	2	NM_004477	exon6	c.T449C	p.L150S	CTTTGTTGGCCTC	.	scavenged	Atlas-SNP
