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
NEFH	4744	hgsc.bcm.edu	37	22	29885581	29885604	+	In_Frame_Del	DEL	AGGCCAAGTCCCCAGAGAAGGAAG	AGGCCAAGTCCCCAGAGAAGGAAG	-	rs200984527		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	AGGCCAAGTCCCCAGAGAAGGAAG	AGGCCAAGTCCCCAGAGAAGGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	198	43	262	0	0.217172	0	.	.	weak	.	NEFH	178	.	NM_021076	exon4	c.1951_1974del	p.651_658del	.	.	PASS	Atlas-Indel
MUC6	4588	hgsc.bcm.edu	37	11	1017440	1017632	+	Frame_Shift_Del	DEL	CGACGTGGTGTGGGCCACAGGGGTTCTGGTGCCTGTACTGGTGTGGTTGGGGGTGATGCTGGTGGTAGAAGTTGAGGTGACTTCAGGATGGTGTGTGGAGGAAGTGTGTGAATGTAGGGATGTAGAGGTTTTGGCCGTGCTAAATGAGCTTCGGGATTGGCTGGTCCCACTGGTGGTCACTGTCATTGGTGGG	CGACGTGGTGTGGGCCACAGGGGTTCTGGTGCCTGTACTGGTGTGGTTGGGGGTGATGCTGGTGGTAGAAGTTGAGGTGACTTCAGGATGGTGTGTGGAGGAAGTGTGTGAATGTAGGGATGTAGAGGTTTTGGCCGTGCTAAATGAGCTTCGGGATTGGCTGGTCCCACTGGTGGTCACTGTCATTGGTGGG	-	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	CGACGTGGTGTGGGCCACAGGGGTTCTGGTGCCTGTACTGGTGTGGTTGGGGGTGATGCTGGTGGTAGAAGTTGAGGTGACTTCAGGATGGTGTGTGGAGGAAGTGTGTGAATGTAGGGATGTAGAGGTTTTGGCCGTGCTAAATGAGCTTCGGGATTGGCTGGTCCCACTGGTGGTCACTGTCATTGGTGGG	CGACGTGGTGTGGGCCACAGGGGTTCTGGTGCCTGTACTGGTGTGGTTGGGGGTGATGCTGGTGGTAGAAGTTGAGGTGACTTCAGGATGGTGTGTGGAGGAAGTGTGTGAATGTAGGGATGTAGAGGTTTTGGCCGTGCTAAATGAGCTTCGGGATTGGCTGGTCCCACTGGTGGTCACTGTCATTGGTGGG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	11	11	0	.	1.000	.	.	.	none	MUC6_ENST00000421673,NS,carcinoma,0,2	MUC6	408	2	NM_005961	exon31	c.5170_5362del	p.1724_1788del	.	.	PASS	Pindel
AKR1C4	1109	hgsc.bcm.edu	37	10	5248268	5248268	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	143	11	181	0	0.0769231	0	.	.	none	.	AKR1C4	57	.	NM_001818	exon5	c.G478A	p.A160T	GGATTGGCCAAGT	.	PASS	Atlas-SNP
SPATA31A3	727830	hgsc.bcm.edu	37	9	40702760	40702760	+	Missense_Mutation	SNP	T	T	G	rs192661010	bycluster;byfrequency	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	296	5	437	1	0.0168919	0.00228833	T|0.744;G|0.256	0.256	strong	FAM75A3_ENST00000356699,NS,carcinoma,+2,2	.	.	2	NM_001083124	exon4	c.T417G	p.H139Q	CTCTCATGAGCCT	.	scavenged	Atlas-SNP
IGSF3	3321	hgsc.bcm.edu	37	1	117142613	117142613	+	Missense_Mutation	SNP	C	C	T	rs76151115	bycluster;byfrequency	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	46	10	39	0	0.217391	0	C|0.967;T|0.033	0.033	strong	.	IGSF3	294	.	NM_001542	exon8	c.G2039A	p.R680Q	GCCAGTCGCGTCC	.	PASS	Atlas-SNP
CHD5	26038	hgsc.bcm.edu	37	1	6196687	6196687	+	Silent	SNP	G	G	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	72	7	85	0	0.0972222	0	.	.	none	.	CHD5	267	.	NM_015557	exon17	c.C2586A	p.V862V	GTTTAAGACCCTA	.	PASS	Atlas-SNP
WDR87	83889	hgsc.bcm.edu	37	19	38384696	38384696	+	Silent	SNP	C	C	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	114	8	109	0	0.0701754	0	.	.	none	.	WDR87	191	.	NM_031951	exon4	c.G1530A	p.R510R	GAGAGGCCGCAGT	.	PASS	Atlas-SNP
CD7	924	hgsc.bcm.edu	37	17	80274183	80274183	+	Missense_Mutation	SNP	G	G	C	rs199986856	by1000genomes;alternate_allele	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	50	13	87	1	0.26	0.0114943	G|0.999;A|0.001	.	alt	CD7,rectum,carcinoma,0,2	CD7	25	2	NM_006137	exon3	c.C500G	p.A167G	GCAGAGGCTGTCT	.	scavenged	Atlas-SNP
EFHC1	114327	hgsc.bcm.edu	37	6	52344014	52344014	+	Silent	SNP	C	C	G	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	60	5	81	0	0.0833333	0	.	.	none	.	EFHC1	68	.	NM_018100	exon8	c.C1458G	p.G486G	CTATGGCCCCAGT	.	PASS	Atlas-SNP
SMARCA2	6595	hgsc.bcm.edu	37	9	2081900	2081900	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	92	11	94	0	0.119565	0	.	.	none	SMARCA2_ENST00000349721,NS,carcinoma,+2,2	SMARCA2	313	2	NM_139045	exon15	c.G2253A	p.M751I	TGAAATGGGGCTT	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505836	195505836	+	Silent	SNP	G	G	A	rs78985720	alternate_allele	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	71	8	63	1	0.112676	0.015873	A|1.000;|0.000	1.000	alt	MUC4_ENST00000463781,NS,carcinoma,0,19	MUC4	1505	19	NM_018406	exon2	c.C12615T	p.H4205H	GGTGGCGTGACCT	.	scavenged	Atlas-SNP
CDH23	64072	hgsc.bcm.edu	37	10	73537483	73537483	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	69	6	83	0	0.0869565	0	.	.	none	.	CDH23	365	.	NM_022124	exon37	c.C4892T	p.A1631V	ATAACGCGCCCAT	.	PASS	Atlas-SNP
TBC1D29	26083	hgsc.bcm.edu	37	17	28890361	28890361	+	Missense_Mutation	SNP	G	G	A	rs372824382	alternate_allele	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	153	2	193	0	0.0130719	0	.	.	alt	TBC1D29,NS,carcinoma,0,3	TBC1D29	19	3	NM_015594	exon5	c.G371A	p.R124Q	TGAGCCGGGGAGA	.	scavenged	Atlas-SNP
SIGLEC5	8778	hgsc.bcm.edu	37	19	52132668	52132668	+	Missense_Mutation	SNP	T	T	C	rs34553740	bycluster	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	343	9	388	3	0.0262391	0.00773196	.	.	weak	SIGLEC5,NS,carcinoma,0,1	SIGLEC5	67	1	NM_003830	exon3	c.A643G	p.M215V	GTTTCATCTGACA	.	scavenged	Atlas-SNP
TNFAIP3	7128	hgsc.bcm.edu	37	6	138200148	138200148	+	Silent	SNP	A	A	G	rs202233466		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	61	4	82	0	0.0655738	0	A|0.999;G|0.001	0.001	weak	.	TNFAIP3	340	.	NM_001270507	exon7	c.A1566G	p.Q522Q	GTGCCAAGCCTGC	.	PASS	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505822	195505822	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	69	9	69	2	0.130435	0.0289855	.	.	none	MUC4_ENST00000463781,NS,carcinoma,0,1	MUC4	1505	1	NM_018406	exon2	c.C12629A	p.P4210H	GTGACAGGAAGAG	.	scavenged	Atlas-SNP
ALPK2	115701	hgsc.bcm.edu	37	18	56171335	56171335	+	Silent	SNP	C	C	T	rs199833082	by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	88	7	121	0	0.0795455	0	C|1.000;T|0.000	0.000	strong	ALPK2_ENST00000361673,NS,carcinoma,0,2	ALPK2	487	2	NM_052947	exon11	c.G6075A	p.P2025P	AGCATACGGGATA	.	PASS	Atlas-SNP
NOTCH2	4853	hgsc.bcm.edu	37	1	120539668	120539668	+	Missense_Mutation	SNP	T	T	A	rs200464440	bycluster	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	228	6	276	5	0.0263158	0.0181159	.	.	weak	NOTCH2_ENST00000369342,NS,carcinoma,0,2	NOTCH2	348	2	NM_001200001	exon4	c.A703T	p.T235S	GACAGGTGCCTCC	.	scavenged	Atlas-SNP
SDHC	6391	hgsc.bcm.edu	37	1	161326591	161326591	+	Silent	SNP	C	C	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	83	6	102	0	0.0722892	0	.	.	none	.	SDHC	19	.	NM_003001	exon5	c.C366T	p.F122F	TGTCTTCCCTCTC	.	PASS	Atlas-SNP
SLX4	84464	hgsc.bcm.edu	37	16	3633415	3633415	+	Missense_Mutation	SNP	G	G	T	rs140844106	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	99	4	108	0	0.040404	0	G|1.000;A|0.000	.	alt	.	SLX4	173	.	NM_032444	exon14	c.C4836A	p.D1612E	GCTCTCGTCCTCG	.	PASS	Atlas-SNP
DLX6	1750	hgsc.bcm.edu	37	7	96635385	96635385	+	Silent	SNP	G	G	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	18	4	22	0	0.222222	0	.	.	none	DLX6,right_lower_lobe,carcinoma,0,1	DLX6	37	1	NM_005222	exon1	c.G96A	p.Q32Q	GCAGCAGCAACAG	.	PASS	Atlas-SNP
CCDC144A	9720	hgsc.bcm.edu	37	17	16610846	16610846	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	447	5	685	0	0.0111857	0	.	.	none	CCDC144B,NS,carcinoma,0,2	CCDC144A	53	2	NM_014695	exon4	c.A728G	p.K243R	AAAATAAGCAGCC	.	scavenged	Atlas-SNP
FAM186A	121006	hgsc.bcm.edu	37	12	50746158	50746158	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	219	6	259	1	0.0273973	0.003861	.	.	none	FAM186A_ENST00000327337,extremity,malignant_melanoma,0,2	FAM186A	181	2	NM_001145475	exon4	c.C4457A	p.P1486Q	GCCTGCGGAGGGA	.	scavenged	Atlas-SNP
MSH3	4437	hgsc.bcm.edu	37	5	79950715	79950715	+	Missense_Mutation	SNP	G	G	C	rs144776112	bycluster;by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	47	17	15	0	0.361702	0	G|0.835;C|0.165	0.165	strong	MSH3_ENST00000265081,NS,carcinoma,0,1	MSH3	129	1	NM_002439	exon1	c.G169C	p.A57P	GCAGCGGCCGCAG	.	PASS	Atlas-SNP
PIK3C2G	5288	hgsc.bcm.edu	37	12	18443868	18443868	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	187	23	270	0	0.122995	0	.	.	none	.	PIK3C2G	315	.	NM_004570	exon4	c.C841G	p.Q281E	CCGTATCAGCTCT	.	PASS	Atlas-SNP
SMPD1	6609	hgsc.bcm.edu	37	11	6412880	6412880	+	Silent	SNP	C	C	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	36	13	33	0	0.361111	0	.	.	none	.	SMPD1	108	.	NM_000543	exon2	c.C585T	p.A195A	CCCAGCCCCAGGT	.	PASS	Atlas-SNP
MST1L	11223	hgsc.bcm.edu	37	1	17085872	17085872	+	Missense_Mutation	SNP	A	A	G	rs1806514	by2hit2allele	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	95	8	79	4	0.0842105	0.0506329	A|0.750;G|0.250	0.250	weak	Q13209_HUMAN,right_upper_lobe,carcinoma,0,9	.	.	9	NM_001271733	exon8	c.T949C	p.W317R	GGTTCCAGCAGAA	.	scavenged	Atlas-SNP
CPZ	8532	hgsc.bcm.edu	37	4	8608504	8608504	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	157	15	208	0	0.0955414	0	.	.	none	CPZ,rectum,carcinoma,+1,1	CPZ	95	1	NM_001014447	exon6	c.C947T	p.A316V	AGAACGCGCAGAA	.	PASS	Atlas-SNP
MAML3	55534	hgsc.bcm.edu	37	4	140811125	140811125	+	Missense_Mutation	SNP	G	G	T	rs62344940		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	35	3	57	5	0.0857143	0.0877193	.	.	weak	MAML3_ENST00000509479,colon,carcinoma,+2,2	MAML3	192	2	NM_018717	exon2	c.C1465A	p.Q489K	GCTGTTGCTGTTG	.	scavenged	Atlas-SNP
MSN	4478	hgsc.bcm.edu	37	X	64951012	64951012	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	270	24	330	0	0.0888889	0	.	.	none	.	MSN	89	.	NM_002444	exon5	c.C511T	p.R171W	GAGGAGCGGATCC	.	PASS	Atlas-SNP
KIAA1109	84162	hgsc.bcm.edu	37	4	123192383	123192383	+	Silent	SNP	T	T	C	rs45574236	bycluster;byfrequency;by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	146	2	161	0	0.0136986	0	T|0.716;C|0.284	0.284	strong	KIAA1109,NS,carcinoma,0,1	KIAA1109	424	1	NM_015312	exon45	c.T7704C	p.D2568D	TGTAGATATGGCT	.	scavenged	Atlas-SNP
PPM1E	22843	hgsc.bcm.edu	37	17	56833491	56833491	+	Missense_Mutation	SNP	T	T	C	rs58091258	bycluster;byfrequency	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	203	31	227	3	0.152709	0.0132159	T|0.667;C|0.333	0.333	strong	PPM1E,rectum,carcinoma,0,2	PPM1E	97	2	NM_014906	exon1	c.T133C	p.S45P	CCCGAGTCCGAGC	.	scavenged	Atlas-SNP
BCAR3	8412	hgsc.bcm.edu	37	1	94032925	94032925	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	97	4	116	0	0.0412371	0	.	.	none	.	BCAR3	62	.	NM_001261409	exon11	c.G2210C	p.C737S	ATTTCACAGCTCT	.	PASS	Atlas-SNP
FAM108A1	81926	hgsc.bcm.edu	37	19	1881395	1881395	+	Silent	SNP	T	T	C	rs199929215	byfrequency	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	53	8	46	2	0.150943	0.0434783	T|0.991;C|0.010	0.010	strong	FAM108A1,NS,carcinoma,0,3	FAM108A1	29	3	NM_031213	exon2	c.A171G	p.R57R	GGAGGCTCTCAGG	.	scavenged	Atlas-SNP
PALM2	114299	hgsc.bcm.edu	37	9	112642863	112642863	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	75	4	68	0	0.0533333	0	.	.	none	.	PALM2	51	.	NM_001037293	exon4	c.G165T	p.Q55H	GCTGCAGGGCATA	.	PASS	Atlas-SNP
PEX5	5830	hgsc.bcm.edu	37	12	7343151	7343151	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	43	9	37	2	0.209302	0.0540541	.	.	none	PEX5_ENST00000434354,colon,carcinoma,-2,3	PEX5	63	3	NM_001131023	exon2	c.G178C	p.A60P	CCAGGTGCAGCCT	.	scavenged	Atlas-SNP
NOTCH2	4853	hgsc.bcm.edu	37	1	120612006	120612006	+	Silent	SNP	G	G	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	10	7	5	1	0.7	0.2	.	.	none	NOTCH2,NS,carcinoma,0,1	NOTCH2	348	1	NM_001200001	exon1	c.C15T	p.R5R	AGCGGGGCGCAGG	.	scavenged	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	37	1	248525427	248525427	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	267	3	402	3	0.011236	0.00746269	.	.	none	OR2T4,rectum,carcinoma,-1,2	OR2T4	126	2	NM_001004696	exon1	c.T545C	p.F182S	GCTGGTTCCTGGG	.	scavenged	Atlas-SNP
OR9Q2	219957	hgsc.bcm.edu	37	11	57958226	57958226	+	Silent	SNP	C	C	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	52	12	58	1	0.230769	0.0172414	.	.	none	OR9Q2,NS,carcinoma,+2,1	OR9Q2	78	1	NM_001005283	exon1	c.C264T	p.H88H	GGAGCACGGCACA	.	scavenged	Atlas-SNP
EXOG	9941	hgsc.bcm.edu	37	3	38565705	38565705	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	93	2	139	0	0.0215054	0	.	.	none	EXOG,bladder,carcinoma,+1,2	EXOG	29	2	NM_005107	exon6	c.G959T	p.R320L	GAGCCCGATCAGT	.	scavenged	Atlas-SNP
CSGALNACT2	55454	hgsc.bcm.edu	37	10	43659372	43659372	+	Nonsense_Mutation	SNP	C	C	T	rs76607193	bycluster;byfrequency	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	146	5	140	0	0.0342466	0	C|0.997;T|0.003	0.003	strong	CSGALNACT2,trunk,malignant_melanoma,0,1	CSGALNACT2	67	1	NM_018590	exon5	c.C1039T	p.R347X	CGTGGACGAGGAC	.	scavenged	Atlas-SNP
FAM108A1	81926	hgsc.bcm.edu	37	19	1881397	1881397	+	Silent	SNP	T	T	G	rs200867680	byfrequency	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	54	9	45	1	0.166667	0.0222222	T|0.983;G|0.016	0.016	strong	FAM108A1,NS,carcinoma,+2,3	FAM108A1	29	3	NM_031213	exon2	c.A169C	p.R57R	AGGCTCTCAGGGT	.	scavenged	Atlas-SNP
DAO	1610	hgsc.bcm.edu	37	12	109278847	109278847	+	Missense_Mutation	SNP	G	G	A	rs200257378	bycluster;by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	56	8	79	0	0.142857	0	G|1.000;A|0.000	0.000	strong	DAO,colon,carcinoma,0,1	DAO	58	1	NM_001917	exon2	c.G65A	p.R22H	ATGAGCGCTACCA	.	PASS	Atlas-SNP
TRPM3	80036	hgsc.bcm.edu	37	9	73461394	73461394	+	Silent	SNP	G	G	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	128	14	156	0	0.109375	0	.	.	none	.	TRPM3	700	.	NM_001007471	exon4	c.C576T	p.N192N	TTCAAAGTTCTGC	.	PASS	Atlas-SNP
MST1	4485	hgsc.bcm.edu	37	3	49721622	49721622	+	Missense_Mutation	SNP	C	C	T	rs200268600		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	270	17	380	7	0.062963	0.0184211	C|0.999;T|0.001	0.001	weak	MST1,NS,carcinoma,0,2	MST1	84	2	NM_020998	exon18	c.G2017A	p.G673S	AGTCACCCTGGCA	.	scavenged	Atlas-SNP
CDC42BPA	8476	hgsc.bcm.edu	37	1	227279603	227279603	+	Missense_Mutation	SNP	G	G	A	rs56119119	bycluster	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	83	5	120	0	0.060241	0	G|1.000;A|0.000	0.000	weak	CDC42BPA_ENST00000366769,NS,carcinoma,0,3	CDC42BPA	528	3	NM_003607	exon16	c.C2339T	p.T780M	TCACTCGTCAGCT	.	PASS	Atlas-SNP
FOLH1	2346	hgsc.bcm.edu	37	11	49175427	49175427	+	Silent	SNP	A	A	G	rs199517010	bycluster	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	404	10	465	11	0.0247525	0.0236559	A|0.999;G|0.001	0.001	weak	FOLH1,mouth,carcinoma,0,1	FOLH1	141	1	NM_004476	exon17	c.T1941C	p.S647S	TCTCTCACTGAAC	.	scavenged	Atlas-SNP
PRR21	643905	hgsc.bcm.edu	37	2	240982129	240982129	+	Missense_Mutation	SNP	G	G	C	rs112308001	bycluster;byfrequency	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	58	8	73	10	0.137931	0.136986	G|0.996;C|0.004	0.004	strong	PRR21,NS,carcinoma,0,2	PRR21	53	2	NM_001080835	exon1	c.C271G	p.P91A	GAAGAGGCATGGA	.	scavenged	Atlas-SNP
AMOT	154796	hgsc.bcm.edu	37	X	112035109	112035109	+	Missense_Mutation	SNP	C	C	T	rs150900068		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	83	8	88	0	0.0963855	0	C|1.000;T|0.000	0.000	weak	.	AMOT	204	.	NM_001113490	exon6	c.G1877A	p.R626H	CGGAGACGGTGCT	.	PASS	Atlas-SNP
KRT4	3851	hgsc.bcm.edu	37	12	53207603	53207603	+	Silent	SNP	A	A	G	rs7135148	bycluster;by2hit2allele;byhapmap	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	74	8	80	0	0.108108	0	A|1.000;|0.000	.	weak	KRT4,rectum,carcinoma,0,1	KRT4	110	1	NM_002272	exon1	c.T240C	p.F80F	AGTGCCAAAGCCT	.	PASS	Atlas-SNP
PPP1R36	145376	hgsc.bcm.edu	37	14	65054033	65054033	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	95	4	105	0	0.0421053	0	.	.	none	.	.	.	.	NM_172365	exon10	c.G833T	p.R278M	GCAGGAGGCGTGA	.	PASS	Atlas-SNP
POLR2E	5434	hgsc.bcm.edu	37	19	1089905	1089905	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	185	21	185	0	0.113514	0	.	.	none	.	POLR2E	22	.	NM_002695	exon6	c.A545G	p.Y182C	CCAAAGTAGCGCG	.	PASS	Atlas-SNP
MEF2A	4205	hgsc.bcm.edu	37	15	100211761	100211761	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	90	6	106	2	0.0666667	0.0188679	.	.	none	MEF2A_ENST00000354410,NS,carcinoma,0,3	MEF2A	138	3	NM_005587	exon5	c.C295T	p.P99S	GACAGCCCAGACC	.	scavenged	Atlas-SNP
KRT4	3851	hgsc.bcm.edu	37	12	53207606	53207606	+	Silent	SNP	G	G	A	rs79164931	bycluster;by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	73	7	80	0	0.0958904	0	.	.	strong	KRT4,rectum,carcinoma,0,3	KRT4	110	3	NM_002272	exon1	c.C237T	p.G79G	GCCAAAGCCTCCA	.	scavenged	Atlas-SNP
PHLDB1	23187	hgsc.bcm.edu	37	11	118526582	118526582	+	Missense_Mutation	SNP	C	C	T	rs149980232	bycluster;by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	38	10	42	0	0.263158	0	C|1.000;T|0.000	0.000	strong	.	PHLDB1	103	.	NM_001144758	exon22	c.C3973T	p.R1325C	TTTTTCCGCTTCA	.	PASS	Atlas-SNP
PHF10	55274	hgsc.bcm.edu	37	6	170115902	170115902	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	146	4	230	2	0.0273973	0.00869565	.	.	none	PHF10_ENST00000339209,NS,carcinoma,0,3	PHF10	76	3	NM_018288	exon6	c.T595G	p.Y199D	TAATATACTCAGG	.	scavenged	Atlas-SNP
YTHDC2	64848	hgsc.bcm.edu	37	5	112889370	112889370	+	Missense_Mutation	SNP	G	G	C	rs75714066	bycluster;byfrequency;by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	80	4	131	0	0.05	0	G|0.944;C|0.056	0.056	strong	.	YTHDC2	118	.	NM_022828	exon14	c.G1951C	p.D651H	TTTGCTGACAGTA	.	PASS	Atlas-SNP
CKB	1152	hgsc.bcm.edu	37	14	103988180	103988180	+	Silent	SNP	G	G	T	rs1136165	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	7	4	1	0	0.571429	0	G|0.327;T|0.673	0.673	strong	.	CKB	9	.	NM_001823	exon4	c.C456A	p.R152R	GATGGCGCGGCGC	.	PASS	Atlas-SNP
DGKZ	8525	hgsc.bcm.edu	37	11	46387868	46387868	+	Missense_Mutation	SNP	A	A	G	rs1317826	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	17	7	0	0	0.411765	.	A|0.609;G|0.391	0.391	strong	.	DGKZ	199	.	NM_001105540	exon2	c.A62G	p.Q21R	GGCAGCAGCGGCC	.	PASS	Atlas-SNP
ZNF578	147660	hgsc.bcm.edu	37	19	53014878	53014878	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	49	5	97	0	0.102041	0	.	.	none	.	.	.	.	NM_001099694	exon6	c.C1244T	p.S415L	ACCTTTCACGTCA	.	PASS	Atlas-SNP
CD7	924	hgsc.bcm.edu	37	17	80274179	80274179	+	Silent	SNP	A	A	G	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	48	13	85	1	0.270833	0.0117647	.	.	none	CD7,rectum,carcinoma,0,1	CD7	25	1	NM_006137	exon3	c.T504C	p.S168S	GAGGGCAGAGGCT	.	scavenged	Atlas-SNP
HLA-DMB	3109	hgsc.bcm.edu	37	6	32905038	32905038	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	166	11	187	0	0.0662651	0	.	.	none	.	HLA-DMB	38	.	NM_002118	exon3	c.C533T	p.S178F	AAATGGGAGAGGG	.	PASS	Atlas-SNP
OR2T33	391195	hgsc.bcm.edu	37	1	248436840	248436840	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	496	8	616	5	0.016129	0.00811688	.	.	none	OR2T33,bladder,carcinoma,0,1	OR2T33	133	1	NM_001004695	exon1	c.G277A	p.A93T	AGCCAGCGCGGGA	.	scavenged	Atlas-SNP
SERPINB13	5275	hgsc.bcm.edu	37	18	61255917	61255917	+	Missense_Mutation	SNP	G	G	A	rs191405968	bycluster;by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	88	6	105	0	0.0681818	0	G|1.000;A|0.000	0.000	strong	.	SERPINB13	51	.	NM_012397	exon2	c.G16A	p.A6T	CTTGGCGCCGTCA	.	PASS	Atlas-SNP
PLIN4	729359	hgsc.bcm.edu	37	19	4512840	4512840	+	Missense_Mutation	SNP	C	C	T	rs183706868	bycluster;by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	96	3	157	1	0.03125	0.00636943	C|1.000;T|0.000	0.000	strong	PLIN4_ENST00000301286,colon,carcinoma,0,4	PLIN4	191	4	NM_001080400	exon3	c.G1090A	p.V364M	AGTTCACGGCACC	.	scavenged	Atlas-SNP
TIGD2	166815	hgsc.bcm.edu	37	4	90034738	90034738	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	97	7	145	0	0.0721649	0	.	.	none	.	TIGD2	36	.	NM_145715	exon1	c.A613G	p.S205G	AGGTCAAGCAGAG	.	PASS	Atlas-SNP
KRT38	8687	hgsc.bcm.edu	37	17	39595539	39595539	+	Silent	SNP	A	A	G	rs117668654		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	59	3	50	3	0.0508475	0.06	A|0.999;G|0.001	0.001	weak	KRT38,rectum,carcinoma,0,1	KRT38	63	1	NM_006771	exon3	c.T648C	p.D216D	GGTCGCATCATCC	.	scavenged	Atlas-SNP
MKL1	57591	hgsc.bcm.edu	37	22	40816901	40816901	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	67	4	82	0	0.0597015	0	.	.	none	.	MKL1	69	.	NM_020831	exon10	c.G831C	p.Q277H	CTGCTGCTGGTTG	.	PASS	Atlas-SNP
DNTTIP2	30836	hgsc.bcm.edu	37	1	94341909	94341909	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	90	7	125	0	0.0777778	0	.	.	none	DNTTIP2,lymph_node,lymphoid_neoplasm,0,1	DNTTIP2	59	1	NM_014597	exon2	c.A1582G	p.S528G	CTTCACTTTTTTC	.	PASS	Atlas-SNP
SLFN12L	100506736	hgsc.bcm.edu	37	17	33805150	33805150	+	Missense_Mutation	SNP	T	T	C	rs2304968	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	108	2	136	0	0.0185185	0	T|0.242;C|0.758	0.758	strong	SLFN12L_ENST00000449046,NS,carcinoma,0,6	SLFN12L	140	6	NM_001195790	exon3	c.A1148G	p.Y383C	AGAGGATAACTCT	.	scavenged	Atlas-SNP
TAS2R30	259293	hgsc.bcm.edu	37	12	11286736	11286736	+	Silent	SNP	G	G	C	rs112605675		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	261	7	295	2	0.0268199	0.00677966	G|0.500;C|0.500	0.500	weak	TAS2R30,NS,carcinoma,0,1	TAS2R30	28	1	NM_001097643	exon1	c.C108G	p.V36V	TCTCTTGACCCAC	.	scavenged	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240371283	240371283	+	Silent	SNP	T	T	A	rs201761863	byfrequency	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	66	8	75	11	0.121212	0.146667	T|0.957;A|0.043	0.043	strong	FMN2,NS,carcinoma,0,1	FMN2	451	1	NM_020066	exon5	c.T3171A	p.P1057P	TCCCCCTCTTCCC	.	scavenged	Atlas-SNP
ACAN	176	hgsc.bcm.edu	37	15	89400106	89400106	+	Silent	SNP	T	T	C	rs78806382	bycluster;byfrequency	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	104	4	130	2	0.0384615	0.0153846	T|0.949;C|0.051	0.051	strong	AGC1,NS,haematopoietic_neoplasm,0,2	ACAN	220	2	NM_001135	exon12	c.T4290C	p.S1430S	GATCAGTGGGCTT	.	scavenged	Atlas-SNP
KDR	3791	hgsc.bcm.edu	37	4	55968617	55968617	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	111	6	173	0	0.0540541	0	.	.	none	.	KDR	307	.	NM_002253	exon14	c.A2046C	p.E682D	GATGCTTTCCCCA	.	PASS	Atlas-SNP
FCGBP	8857	hgsc.bcm.edu	37	19	40373950	40373950	+	Missense_Mutation	SNP	G	G	T	rs3746010	bycluster	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	229	20	227	8	0.0873362	0.0352423	G|0.750;T|0.250	0.250	weak	FCGBP,NS,carcinoma,0,1	FCGBP	416	1	NM_003890	exon26	c.C12128A	p.T4043N	CCTTTGGTGACGC	.	scavenged	Atlas-SNP
PTPRG	5793	hgsc.bcm.edu	37	3	62189308	62189308	+	Silent	SNP	C	C	T	rs150936656		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	125	16	179	0	0.128	0	C|1.000;T|0.000	0.000	weak	.	PTPRG	153	.	NM_002841	exon12	c.C1839T	p.H613H	GACCCACGCTGCC	.	PASS	Atlas-SNP
ADSSL1	122622	hgsc.bcm.edu	37	14	105204722	105204722	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	50	3	67	0	0.06	0	.	.	none	ADSSL1,NS,carcinoma,-1,1	ADSSL1	37	1	NM_199165	exon3	c.T434C	p.V145A	ACGGGGTGGTCAT	.	scavenged	Atlas-SNP
FAM25A	643161	hgsc.bcm.edu	37	10	88782084	88782084	+	Silent	SNP	A	A	G	rs3802666	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	18	10	8	0	0.555556	0	A|0.562;G|0.438	0.438	strong	FAM25A,NS,carcinoma,0,1	FAM25A	4	1	NM_001146157	exon2	c.A87G	p.E29E	CGTGGAAGAAGTG	.	scavenged	Atlas-SNP
CAPN12	147968	hgsc.bcm.edu	37	19	39227194	39227194	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	313	25	337	0	0.0798722	0	.	.	none	.	CAPN12	43	.	NM_144691	exon11	c.G1372C	p.E458Q	TCACCTCCTCTGG	.	PASS	Atlas-SNP
CTSE	1510	hgsc.bcm.edu	37	1	206329027	206329027	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	113	9	125	0	0.079646	0	.	.	none	.	CTSE	72	.	NM_148964	exon7	c.C851T	p.P284L	AGTCCCCTATACC	.	PASS	Atlas-SNP
DGKI	9162	hgsc.bcm.edu	37	7	137206621	137206621	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	86	4	81	0	0.0465116	0	.	.	none	.	DGKI	335	.	NM_004717	exon21	c.C2239T	p.R747X	CTTCTCGGAGTTT	.	PASS	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	37	1	240371141	240371141	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	83	3	91	2	0.0361446	0.021978	.	.	none	FMN2,colon,carcinoma,0,2	FMN2	451	2	NM_020066	exon5	c.C3029T	p.P1010L	TACCCCCTCCTCC	.	scavenged	Atlas-SNP
APOB	338	hgsc.bcm.edu	37	2	21239442	21239442	+	Silent	SNP	C	C	T	rs200281277	by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	136	12	202	0	0.0882353	0	C|1.000;T|0.000	0.000	strong	.	APOB	761	.	NM_000384	exon21	c.G3201A	p.P1067P	AAAATCCGGAATT	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45216113	45216113	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	48	2	50	0	0.0416667	0	.	.	none	CDC27_ENST00000531206,caecum,carcinoma,+1,6	CDC27	337	6	NM_001114091	exon13	c.T1714C	p.S572P	CTGGCGAATTTTT	.	scavenged	Atlas-SNP
ADRA2B	151	hgsc.bcm.edu	37	2	96781704	96781704	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	117	9	142	0	0.0769231	0	.	.	none	.	ADRA2B	115	.	NM_000682	exon1	c.C185T	p.A62V	AGCGTGGCCACCA	.	PASS	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29885567	29885567	+	Silent	SNP	A	A	C	rs75808076	bycluster	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	159	17	198	0	0.106918	0	.	.	weak	NEFH,rectum,carcinoma,0,1	NEFH	178	1	NM_021076	exon4	c.A1938C	p.A646A	GGAAGCAAAGTCC	.	PASS	Atlas-SNP
CRIPAK	285464	hgsc.bcm.edu	37	4	1389063	1389063	+	Missense_Mutation	SNP	G	G	C	rs148588369	bycluster;byfrequency	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	43	4	48	1	0.0930233	0.0208333	G|0.982;C|0.018	0.018	strong	CRIPAK,NS,carcinoma,0,1	CRIPAK	185	1	NM_175918	exon1	c.G764C	p.R255P	CGTGCCGATGTGG	.	scavenged	Atlas-SNP
PCDHA12	56137	hgsc.bcm.edu	37	5	140257190	140257190	+	Silent	SNP	G	G	C	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	95	15	122	0	0.157895	0	.	.	none	.	PCDHA12	196	.	NM_018903	exon1	c.G2133C	p.L711L	CCTGCTGGTGCTC	.	PASS	Atlas-SNP
POTEE	445582	hgsc.bcm.edu	37	2	132021766	132021766	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	147	8	177	3	0.0544218	0.0169492	.	.	none	ENSG00000188219,rectum,NS,0,1	.	.	1	NM_001083538	exon15	c.A2738C	p.K913T	ACATCAAAGAGAA	.	scavenged	Atlas-SNP
DCLK1	9201	hgsc.bcm.edu	37	13	36686046	36686046	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	59	2	73	0	0.0338983	0	.	.	none	DCLK1_ENST00000255448,colon,carcinoma,0,2	DCLK1	350	2	NM_004734	exon3	c.C683A	p.S228X	ACTCCCGAGTCCA	.	scavenged	Atlas-SNP
RAB36	9609	hgsc.bcm.edu	37	22	23495232	23495232	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	52	9	63	0	0.173077	0	.	.	none	.	RAB36	26	.	NM_004914	exon5	c.T438G	p.N146K	CAAGAATGTTTTT	.	PASS	Atlas-SNP
TLN1	7094	hgsc.bcm.edu	37	9	35724043	35724043	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	72	8	115	0	0.111111	0	.	.	none	.	TLN1	185	.	NM_006289	exon7	c.G688A	p.V230I	AGGAGACAGGGTG	.	PASS	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	37	6	30954709	30954709	+	Missense_Mutation	SNP	G	G	A	rs11756238	bycluster;byfrequency;by2hit2allele;byhapmap	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	106	10	111	4	0.0943396	0.036036	G|0.989;A|0.011	0.011	strong	MUC21,colon,carcinoma,-1,2	MUC21	98	2	NM_001010909	exon2	c.G757A	p.G253S	GGGGCCGGCACAG	.	scavenged	Atlas-SNP
FAM21A	387680	hgsc.bcm.edu	37	10	51863831	51863831	+	Missense_Mutation	SNP	G	G	C	rs2338445		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	384	13	500	10	0.0338542	0.02	.	.	weak	FAM21A,NS,carcinoma,0,1	FAM21A	32	1	NM_001005751	exon18	c.G1665C	p.K555N	GAGTAAGTTAAAA	.	scavenged	Atlas-SNP
NCAPG	64151	hgsc.bcm.edu	37	4	17829990	17829990	+	Missense_Mutation	SNP	G	G	C	rs3795243	bycluster;byfrequency;by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	76	4	129	0	0.0526316	0	G|0.884;C|0.116	0.116	strong	.	NCAPG	76	.	NM_022346	exon12	c.G1743C	p.M581I	AACCATGAATGGA	.	PASS	Atlas-SNP
NOMO1	23420	hgsc.bcm.edu	37	16	14969025	14969025	+	Silent	SNP	C	C	T	rs11554237		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	405	4	455	1	0.00987654	0.0021978	.	.	weak	NOMO1,NS,carcinoma,0,1	NOMO1	60	1	NM_014287	exon19	c.C2187T	p.G729G	GGAAGGCGAAGAA	.	scavenged	Atlas-SNP
FRG1	2483	hgsc.bcm.edu	37	4	190873379	190873379	+	Missense_Mutation	SNP	A	A	G	rs1803592		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	222	28	289	22	0.126126	0.0761246	.	.	weak	FRG1,arm,malignant_melanoma,0,1	FRG1	76	1	NM_004477	exon3	c.A196G	p.K66E	ATGGATAAGGGAA	.	scavenged	Atlas-SNP
PPM1E	22843	hgsc.bcm.edu	37	17	56833457	56833457	+	Silent	SNP	G	G	C	rs74256772		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	195	11	226	0	0.0564103	0	.	.	weak	PPM1E,colon,carcinoma,0,1	PPM1E	97	1	NM_014906	exon1	c.G99C	p.P33P	GGAGCCGGAACCC	.	PASS	Atlas-SNP
HIST1H2AC	8334	hgsc.bcm.edu	37	6	26124712	26124712	+	Silent	SNP	G	G	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	183	12	195	0	0.0655738	0	.	.	none	.	HIST1H2AC	29	.	NM_003512	exon1	c.G252A	p.L84L	CCACTTGCAGCTG	.	PASS	Atlas-SNP
LTA	4049	hgsc.bcm.edu	37	6	31541106	31541106	+	Missense_Mutation	SNP	G	G	A	rs148093456		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	68	4	61	0	0.0588235	0	G|1.000;A|0.000	0.000	weak	.	LTA	18	.	NM_001159740	exon4	c.G254A	p.R85H	CGGACCGTGCCTT	.	PASS	Atlas-SNP
RPS6KA1	6195	hgsc.bcm.edu	37	1	26856462	26856462	+	Silent	SNP	T	T	G	rs11800553	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	7	7	0	0	1	.	T|0.065;G|0.935	0.935	strong	.	RPS6KA1	65	.	NM_002953	exon1	c.T51G	p.P17P	AGTGCCTCTGGAC	.	PASS	Atlas-SNP
PAPPA	5069	hgsc.bcm.edu	37	9	118989774	118989774	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	41	7	44	0	0.170732	0	.	.	none	PAPPA,NS,carcinoma,-2,1	PAPPA	243	1	NM_002581	exon6	c.G2176A	p.A726T	TCCAACGCTTCCT	.	PASS	Atlas-SNP
PCDHGA6	56109	hgsc.bcm.edu	37	5	140755640	140755640	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	150	11	169	0	0.0733333	0	.	.	none	.	PCDHGA6	219	.	NM_018919	exon1	c.G1990A	p.V664M	GTGGCCGTGGCCG	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	37	17	45234727	45234727	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	160	5	206	2	0.03125	0.00970874	.	.	none	CDC27_ENST00000531206,NS,carcinoma,+2,10	CDC27	337	10	NM_001114091	exon6	c.A499T	p.T167S	TAAATGTTTGGTC	.	scavenged	Atlas-SNP
KRTAP4-11	653240	hgsc.bcm.edu	37	17	39274214	39274214	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	51	6	35	3	0.117647	0.0857143	.	.	none	KRTAP4-11,right_upper_lobe,carcinoma,-1,2	KRTAP4-11	94	2	NM_033059	exon1	c.C354G	p.S118R	GCAGCAGCTGGAC	.	scavenged	Atlas-SNP
CXXC1	30827	hgsc.bcm.edu	37	18	47812268	47812268	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	65	5	67	0	0.0769231	0	.	.	none	.	CXXC1	50	.	NM_001101654	exon5	c.C490T	p.R164W	CTGACCGTTTGAT	.	PASS	Atlas-SNP
CXCR4	7852	hgsc.bcm.edu	37	2	136875620	136875620	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	56	5	61	0	0.0892857	0	.	.	none	.	CXCR4	51	.	NM_003467	exon1	c.T11G	p.I4S	ACACTGATCCCCT	.	PASS	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29885562	29885562	+	Missense_Mutation	SNP	G	G	A	rs370929798		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	153	11	205	0	0.0718954	0	.	.	weak	NEFH,rectum,carcinoma,-2,1	NEFH	178	1	NM_021076	exon4	c.G1933A	p.E645K	AAGGAGGAAGCAA	.	PASS	Atlas-SNP
TNFRSF10C	8794	hgsc.bcm.edu	37	8	22974315	22974315	+	Missense_Mutation	SNP	A	A	C	rs61736405	bycluster	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	107	7	124	2	0.0654206	0.016129	A|0.013;C|0.987	0.987	weak	TNFRSF10C,trunk,malignant_melanoma,0,1	TNFRSF10C	30	1	NM_003841	exon5	c.A551C	p.N184T	CAATGAACACCAG	.	scavenged	Atlas-SNP
NACC1	112939	hgsc.bcm.edu	37	19	13246155	13246155	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	87	2	108	0	0.0229885	0	.	.	none	NACC1,colon,carcinoma,0,1	NACC1	30	1	NM_052876	exon2	c.G134T	p.R45L	CCCACCGGGCCGT	.	scavenged	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	37	7	100680438	100680438	+	Missense_Mutation	SNP	G	G	C	rs112926140	bycluster;byfrequency	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	52	2	71	2	0.0384615	0.028169	A|0.001;G|0.999	.	strong	MUC17,right_upper_lobe,carcinoma,+1,1	MUC17	804	1	NM_001040105	exon3	c.G5741C	p.S1914T	ACGGTAGCAGCAT	.	scavenged	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	37	8	113267635	113267635	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	91	6	135	0	0.0659341	0	.	.	none	CSMD3_ENST00000343508,caecum,carcinoma,-1,4	CSMD3	2325	4	NM_198123	exon62	c.G9884T	p.G3295V	GGTATACCAGGGT	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	37	11	1264581	1264581	+	Silent	SNP	C	C	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	463	8	428	2	0.0172786	0.0046729	.	.	none	MUC5B,NS,carcinoma,+1,2	MUC5B	473	2	NM_002458	exon31	c.C6471T	p.P2157P	AACTCCCATCCCC	.	scavenged	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	37	22	29885564	29885564	+	Silent	SNP	A	A	G	rs202065964	bycluster	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	152	14	202	0	0.0921053	0	.	.	weak	NEFH,rectum,carcinoma,0,1	NEFH	178	1	NM_021076	exon4	c.A1935G	p.E645E	GGAGGAAGCAAAG	.	PASS	Atlas-SNP
GGT1	2678	hgsc.bcm.edu	37	22	25023419	25023419	+	Silent	SNP	C	C	T	rs202087650	bycluster;byfrequency	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	314	19	367	12	0.0605096	0.0326975	C|0.989;T|0.011	0.011	strong	GGT1,NS,carcinoma,0,2	GGT1	68	2	NM_013430	exon12	c.C1041T	p.S347S	GACCTCCGAGTTC	.	scavenged	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	37	3	195505814	195505814	+	Missense_Mutation	SNP	C	C	T	rs199819876		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	70	10	69	1	0.142857	0.0144928	.	.	weak	MUC4_ENST00000463781,NS,carcinoma,+1,5	MUC4	1505	5	NM_018406	exon2	c.G12637A	p.D4213N	AAGTGTCGGTGAC	.	scavenged	Atlas-SNP
PPM1E	22843	hgsc.bcm.edu	37	17	56833497	56833497	+	Missense_Mutation	SNP	C	C	T	rs61052860		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	202	20	232	0	0.0990099	0	C|0.900;T|0.100	0.100	weak	PPM1E,colon,carcinoma,0,1	PPM1E	97	1	NM_014906	exon1	c.C139T	p.P47S	TCCGAGCCCGAGC	.	PASS	Atlas-SNP
COX3	5742	hgsc.bcm.edu	37	MT	9368	9368	+	Silent	SNP	A	A	G	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	5	5	0	0	1	.	.	.	none	.	.	.	.	ENST00000362079	exon1	c.A162G	p.M54M	AACCATATACCAA	.	PASS	Atlas-SNP
STAB2	55576	hgsc.bcm.edu	37	12	104031890	104031890	+	Missense_Mutation	SNP	G	G	A	rs374968745		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	93	7	133	0	0.0752688	0	.	.	weak	STAB2,rectum,carcinoma,0,1	STAB2	370	1	NM_017564	exon8	c.G806A	p.R269H	GCTACCGTGGGGA	.	PASS	Atlas-SNP
KCNC2	3747	hgsc.bcm.edu	37	12	75601404	75601404	+	Silent	SNP	G	G	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	158	12	151	0	0.0759494	0	.	.	none	KCNC2_ENST00000549446,colon,carcinoma,0,2	KCNC2	239	2	NM_139137	exon2	c.C360T	p.T120T	CTTGCCGGTGCGG	.	PASS	Atlas-SNP
PRR21	643905	hgsc.bcm.edu	37	2	240982131	240982131	+	Missense_Mutation	SNP	A	A	G	rs79839275	bycluster;by1000genomes	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	60	7	73	11	0.116667	0.150685	A|0.737;G|0.263	0.263	strong	PRR21,NS,carcinoma,0,2	PRR21	53	2	NM_001080835	exon1	c.T269C	p.M90T	AGAGGCATGGATG	.	scavenged	Atlas-SNP
DCAF4L2	138009	hgsc.bcm.edu	37	8	88886183	88886183	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	88	3	130	0	0.0340909	0	.	.	none	DCAF4L2,NS,carcinoma,0,1	DCAF4L2	187	1	NM_152418	exon1	c.C17A	p.P6Q	AGTCGCGGTCTTT	.	scavenged	Atlas-SNP
STRADB	55437	hgsc.bcm.edu	37	2	202344861	202344861	+	Missense_Mutation	SNP	A	A	G	rs139900078	bycluster	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	166	4	210	2	0.0240964	0.00952381	.	.	weak	STRADB,hand,malignant_melanoma,0,1	STRADB	33	1	NM_018571	exon12	c.A1220G	p.D407G	AATGTGATTTTCC	.	scavenged	Atlas-SNP
NBPF15	284565	hgsc.bcm.edu	37	1	148579636	148579636	+	Missense_Mutation	SNP	T	T	C	rs80088922		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	22	10	26	9	0.454545	0.346154	T|0.167;C|0.833	0.833	weak	NBPF15,NS,carcinoma,0,2	NBPF15	20	2	NM_173638	exon6	c.T206C	p.F69S	TAAAATTTATGCT	.	scavenged	Atlas-SNP
PPM1E	22843	hgsc.bcm.edu	37	17	56833454	56833454	+	Silent	SNP	G	G	A	rs77856248		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	200	9	235	1	0.045	0.00425532	.	.	weak	PPM1E,colon,carcinoma,0,1	PPM1E	97	1	NM_014906	exon1	c.G96A	p.E32E	GCCGGAGCCGGAA	.	scavenged	Atlas-SNP
PPM1E	22843	hgsc.bcm.edu	37	17	56833490	56833490	+	Silent	SNP	G	G	A	rs59676153		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	203	31	231	1	0.152709	0.004329	.	.	weak	PPM1E,colon,carcinoma,0,1	PPM1E	97	1	NM_014906	exon1	c.G132A	p.E44E	ACCCGAGTCCGAG	.	scavenged	Atlas-SNP
NRXN1	9378	hgsc.bcm.edu	37	2	50765586	50765586	+	Missense_Mutation	SNP	C	C	T	rs202137841	alternate_allele	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	110	12	171	0	0.109091	0	.	.	alt	.	NRXN1	1118	.	NM_001135659	exon11	c.G2068A	p.D690N	GGCCATCGATGAA	.	PASS	Atlas-SNP
IFI44	10561	hgsc.bcm.edu	37	1	79116328	79116328	+	Silent	SNP	C	C	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	217	3	285	0	0.0138249	0	.	.	none	IFI44,caecum,carcinoma,0,2	IFI44	55	2	NM_006417	exon2	c.C448A	p.R150R	GTTTTTCGATGCG	.	scavenged	Atlas-SNP
TCTN1	79600	hgsc.bcm.edu	37	12	111066588	111066588	+	Silent	SNP	C	C	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	57	5	76	0	0.0877193	0	.	.	none	.	TCTN1	37	.	NM_024549	exon4	c.C489T	p.S163S	ATTATCCTTTATT	.	PASS	Atlas-SNP
AHRR	57491	hgsc.bcm.edu	37	5	428050	428050	+	Silent	SNP	G	G	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	75	2	107	0	0.0266667	0	.	.	none	AHRR,colon,carcinoma,+1,2	AHRR	67	2	NM_020731	exon9	c.G903A	p.A301A	CGCAGCGGAGATG	.	scavenged	Atlas-SNP
TMEM30A	55754	hgsc.bcm.edu	37	6	75969072	75969072	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	271	15	392	0	0.0553506	0	.	.	none	TMEM30A,caecum,carcinoma,0,2	TMEM30A	40	2	NM_018247	exon5	c.C676T	p.R226X	TAAATCGTTCTTC	.	PASS	Atlas-SNP
ZNF699	374879	hgsc.bcm.edu	37	19	9407194	9407194	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	69	6	88	0	0.0869565	0	.	.	none	.	ZNF699	67	.	NM_198535	exon5	c.G886T	p.E296X	TGTGTTCTGTGAG	.	PASS	Atlas-SNP
CSGALNACT2	55454	hgsc.bcm.edu	37	10	43659419	43659419	+	Missense_Mutation	SNP	G	G	T	rs79064394	bycluster	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	156	4	147	0	0.025641	0	.	.	weak	CSGALNACT2,NS,carcinoma,0,5	CSGALNACT2	67	5	NM_018590	exon5	c.G1086T	p.L362F	GGTCTTGATGTTT	.	scavenged	Atlas-SNP
POTEH	23784	hgsc.bcm.edu	37	22	16277852	16277852	+	Silent	SNP	C	C	T	rs200742649	bycluster;byfrequency	TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	429	99	562	115	0.230769	0.204626	C|0.816;T|0.184	0.184	strong	POTEH,NS,carcinoma,0,1	POTEH	114	1	NM_001136213	exon5	c.G1062A	p.S354S	ACTTGCCGATCCA	.	scavenged	Atlas-SNP
SLMO1	10650	hgsc.bcm.edu	37	18	12420448	12420448	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	68	6	63	0	0.0882353	0	.	.	none	.	SLMO1	11	.	NM_001142405	exon2	c.C157T	p.R53C	AGCTTGCGCCTGC	.	PASS	Atlas-SNP
PCDHA4	56144	hgsc.bcm.edu	37	5	140186810	140186810	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GR-A4D5-01A-11D-A31X-10	TCGA-GR-A4D5-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	90533f5d-0761-4b4a-a1ee-91e10e9ba2c4	433ab22f-7d7f-4e86-86f3-0ab50681046c	80	6	111	0	0.075	0	.	.	none	.	PCDHA4	419	.	NM_031500	exon1	c.G38A	p.R13H	CCCGGCGTCTGCT	.	PASS	Atlas-SNP
