Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_File	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	COSMIC_Codon	COSMIC_Gene	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	TTotCov	TVarCov	NTotCov	NVarCov	dbSNPPopFreq	COSMIC_Gene_Freq	COSMIC_Site_Freq	dbSNP_AF	Algorithm
CEP104	9731	hgsc.bcm.edu	hg19	1	3754080	3754080	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	CEP104,colon,carcinoma,0,1	CEP104	NM_014704	exon9	c.C895T	p.R299X	GTCTTCGCATCTA	.	61.0	3.0	53.0	0.0	.	79	.	.	Atlas-SNP
KLHL21	9903	hgsc.bcm.edu	hg19	1	6653499	6653499	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	KLHL21,right_upper_lobe,carcinoma,0,1	KLHL21	NM_014851	exon4	c.G1720A	p.E574K	CCAACTCGAAGCC	.	51.0	3.0	50.0	1.0	.	27	.	.	Atlas-SNP
KAZN	23254	hgsc.bcm.edu	hg19	1	15287300	15287300	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	KAZN	NM_015209	exon2	c.C347T	p.S116L	TCCTCTCGGCCAC	.	85.0	5.0	51.0	0.0	.	57	.	.	Atlas-SNP
ZNF683	257101	hgsc.bcm.edu	hg19	1	26691310	26691310	+	Missense_Mutation	SNP	G	G	C	rs145815386		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ZNF683	NM_173574	exon4	c.C727G	p.L243V	GCCCCAGCTCATT	.	7.0	6.0	0.0	0.0	.	51	.	.	Atlas-SNP
TINAGL1	64129	hgsc.bcm.edu	hg19	1	32052549	32052549	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	TINAGL1,right_upper_lobe,carcinoma,0,1	TINAGL1	NM_022164	exon12	c.G1373A	p.R458H	GGGGCCGCGTGGG	.	10.0	2.0	49.0	0.0	.	35	.	.	Atlas-SNP
CSMD2	114784	hgsc.bcm.edu	hg19	1	34006774	34006774	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CSMD2	NM_052896	exon58	c.G8981A	p.C2994Y	TTGGTGCAGCTCA	.	123.0	5.0	117.0	0.0	.	946	.	.	Atlas-SNP
FOXD3	27022	hgsc.bcm.edu	hg19	1	63789224	63789224	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	FOXD3,right_upper_lobe,carcinoma,0,1	FOXD3	NM_012183	exon1	c.C495T	p.S165S	CCTGAGCGGCATC	.	69.0	3.0	70.0	0.0	.	15	.	.	Atlas-SNP
JAK1	3716	hgsc.bcm.edu	hg19	1	65335078	65335078	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	JAK1	NM_002227	exon6	c.A563T	p.E188V	AGACACTCGTTCT	.	123.0	35.0	100.0	0.0	.	209	.	.	Atlas-SNP
CLCA4	22802	hgsc.bcm.edu	hg19	1	87045908	87045908	+	Silent	SNP	T	T	A	rs77594462		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CLCA4	NM_012128	exon14	c.T2640A	p.T880T	ACCTACTCCTACT	.	107.0	26.0	43.0	0.0	.	131	.	.	Atlas-SNP
PTPN22	26191	hgsc.bcm.edu	hg19	1	114380935	114380935	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PTPN22	NM_015967	exon13	c.G1087A	p.A363T	CTTTTGCACTTAT	.	100.0	4.0	99.0	0.0	.	90	.	.	Atlas-SNP
WDR3	10885	hgsc.bcm.edu	hg19	1	118495158	118495158	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	WDR3	NM_006784	exon19	c.A2024G	p.H675R	GTCATCACCAGGA	.	93.0	4.0	93.0	0.0	.	81	.	.	Atlas-SNP
NBPF10	100132406	hgsc.bcm.edu	hg19	1	145367777	145367777	+	Missense_Mutation	SNP	G	G	T	rs200743139	bycluster	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	NBPF10,NS,carcinoma,0,1	NBPF10	NM_001039703	exon83	c.G10373T	p.R3458M	GAAGAAGGGGAAG	.	6.0	3.0	2.0	0.0	.	221	.	.	Atlas-SNP
LCE1E	353135	hgsc.bcm.edu	hg19	1	152759984	152759984	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	LCE1E	NM_178353	exon2	c.C209A	p.S70Y	GCAGCTCTGGGGG	.	95.0	46.0	134.0	0.0	.	26	.	.	Atlas-SNP
DENND4B	9909	hgsc.bcm.edu	hg19	1	153907287	153907287	+	Missense_Mutation	SNP	G	G	C	rs199597671		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	DENND4B	NM_014856	exon18	c.C2722G	p.Q908E	GCTGCTGCTGCTG	.	51.0	6.0	25.0	0.0	.	210	.	.	Atlas-SNP
SLC50A1	55974	hgsc.bcm.edu	hg19	1	155110121	155110121	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SLC50A1	NM_018845	exon4	c.G367A	p.E123K	AACCCTGAGGCCC	.	97.0	28.0	68.0	0.0	.	16	.	.	Atlas-SNP
FAM189B	10712	hgsc.bcm.edu	hg19	1	155223732	155223732	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	FAM189B	NM_006589	exon4	c.T431C	p.L144P	CGGAGGAGGGGAA	.	95.0	6.0	57.0	0.0	.	51	.	.	Atlas-SNP
KIRREL	55243	hgsc.bcm.edu	hg19	1	158061246	158061246	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	KIRREL,NS,carcinoma,0,1	KIRREL	NM_018240	exon11	c.C1371T	p.T457T	GCTCACCATCAAC	.	64.0	12.0	57.0	0.0	.	346	.	.	Atlas-SNP
DCAF6	55827	hgsc.bcm.edu	hg19	1	168034975	168034975	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	DCAF6	NM_001198956	exon19	c.T2587C	p.F863L	CATCCGTTTGACC	.	87.0	4.0	63.0	0.0	.	99	.	.	Atlas-SNP
SLC9C2	284525	hgsc.bcm.edu	hg19	1	173476077	173476077	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	.	NM_178527	exon25	c.T3143G	p.I1048S	ACAATGATAACAA	.	184.0	38.0	169.0	0.0	.	.	.	.	Atlas-SNP
KIF21B	23046	hgsc.bcm.edu	hg19	1	200957983	200957983	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	KIF21B	NM_017596	exon22	c.C3209T	p.S1070F	TGGGAGGAGCCTG	.	103.0	6.0	90.0	0.0	.	208	.	.	Atlas-SNP
KIF21B	23046	hgsc.bcm.edu	hg19	1	200978071	200978071	+	Silent	SNP	G	G	A	rs199591058	bycluster	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	KIF21B,NS,carcinoma,0,1	KIF21B	NM_017596	exon3	c.C273T	p.A91A	CTTCCCGGCCCCC	.	41.0	2.0	29.0	0.0	.	208	.	G|0.999;A|0.001	Atlas-SNP
IGFN1	91156	hgsc.bcm.edu	hg19	1	201182025	201182025	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	IGFN1	NM_001164586	exon12	c.A8004G	p.P2668P	AGGGCCAGGGGGC	.	95.0	4.0	70.0	0.0	.	220	.	.	Atlas-SNP
KLHDC8A	55220	hgsc.bcm.edu	hg19	1	205306696	205306696	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	KLHDC8A	NM_018203	exon6	c.C884T	p.T295M	TCCGCCGTCTCCA	.	87.0	5.0	46.0	0.0	.	31	.	.	Atlas-SNP
FCAMR	83953	hgsc.bcm.edu	hg19	1	207133090	207133090	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	FCAMR	NM_001170631	exon7	c.A1507G	p.M503V	CCAGCATGGTAGA	.	88.0	23.0	93.0	0.0	.	125	.	.	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	hg19	1	225525167	225525167	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	DNAH14	NM_001373	exon65	c.C10001T	p.A3334V	AAAATGCTATGAA	.	331.0	59.0	283.0	0.0	.	300	.	.	Atlas-SNP
PRSS38	339501	hgsc.bcm.edu	hg19	1	228033905	228033905	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PRSS38	NM_183062	exon5	c.T977C	p.L326P	CAGTGCTGTGAGG	.	52.0	4.0	30.0	0.0	.	55	.	.	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	hg19	1	228511085	228511085	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	OBSCN	NM_001271223	exon67	c.A18301G	p.S6101G	CCTGTGAGCTTTG	.	122.0	5.0	90.0	0.0	.	2142	.	.	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	hg19	1	228547659	228547659	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	OBSCN	NM_052843	exon81	c.G19066T	p.G6356W	TCATCGGGGCATC	.	113.0	6.0	77.0	0.0	.	2142	.	.	Atlas-SNP
ACTN2	88	hgsc.bcm.edu	hg19	1	236906307	236906307	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	ACTN2,caecum,carcinoma,0,1	ACTN2	NM_001103	exon11	c.A1219G	p.R407G	AAGTTCAGGCAGA	.	62.0	3.0	48.0	0.0	.	191	.	.	Atlas-SNP
FMN2	56776	hgsc.bcm.edu	hg19	1	240370636	240370636	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	FMN2,NS,malignant_melanoma,0,3	FMN2	NM_020066	exon5	c.G2524T	p.E842X	AGCCACGAACACT	.	120.0	5.0	88.0	0.0	.	451	.	.	Atlas-SNP
COLEC11	78989	hgsc.bcm.edu	hg19	2	3652045	3652045	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	COLEC11_ENST00000418971,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,2	COLEC11	NM_001255985	exon3	c.G157A	p.V53I	ATCCTCGTCCCTG	.	83.0	4.0	89.0	0.0	.	93	.	.	Atlas-SNP
RHOB	388	hgsc.bcm.edu	hg19	2	20647265	20647265	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	RHOB,colon,carcinoma,0,1	RHOB	NM_004040	exon1	c.C39T	p.D13D	GGGCGACGGCGCG	.	27.0	2.0	33.0	0.0	.	18	.	.	Atlas-SNP
ATAD2B	54454	hgsc.bcm.edu	hg19	2	23980414	23980414	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ATAD2B	NM_017552	exon25	c.C3952A	p.P1318T	TTTCTGGTTTTTC	.	219.0	53.0	186.0	0.0	.	110	.	.	Atlas-SNP
C2orf44	80304	hgsc.bcm.edu	hg19	2	24261849	24261849	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	C2orf44	NM_025203	exon2	c.G516A	p.V172V	TGCCACCACCAGC	.	83.0	21.0	77.0	0.0	.	56	.	.	Atlas-SNP
AGBL5	60509	hgsc.bcm.edu	hg19	2	27278977	27278977	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	AGBL5_ENST00000323064,lower_third,carcinoma,0,2	AGBL5	NM_021831	exon7	c.G1336A	p.G446R	ATGTACGGAAACA	.	48.0	2.0	40.0	0.0	.	126	.	.	Atlas-SNP
IFT172	26160	hgsc.bcm.edu	hg19	2	27679434	27679434	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	IFT172	NM_015662	exon30	c.A3315G	p.R1105R	AAGCAGTCTAACT	.	81.0	4.0	74.0	0.0	.	119	.	.	Atlas-SNP
CYP26B1	56603	hgsc.bcm.edu	hg19	2	72359542	72359542	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CYP26B1	NM_019885	exon6	c.G1353A	p.L451L	CACCTTCAGGAAC	.	93.0	4.0	94.0	0.0	.	73	.	.	Atlas-SNP
INO80B	83444	hgsc.bcm.edu	hg19	2	74682605	74682605	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	INO80B,NS,carcinoma,0,1	INO80B	NM_031288	exon2	c.A131G	p.K44R	AGCACAAGAAGAA	.	49.0	2.0	39.0	0.0	.	37	.	.	Atlas-SNP
DNAH6	1768	hgsc.bcm.edu	hg19	2	84932627	84932627	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	DNAH6	NM_001370	exon52	c.C8483A	p.A2828E	CATCAGCAAAGCA	.	105.0	19.0	65.0	0.0	.	194	.	.	Atlas-SNP
REV1	51455	hgsc.bcm.edu	hg19	2	100019562	100019562	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	REV1,colon,carcinoma,0,1	REV1	NM_016316	exon20	c.G3174T	p.K1058N	AGGATTCTTTGGC	.	51.0	3.0	50.0	0.0	.	100	.	.	Atlas-SNP
TBC1D8	11138	hgsc.bcm.edu	hg19	2	101656711	101656711	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	TBC1D8,NS,carcinoma,0,1	TBC1D8	NM_001102426	exon6	c.G964A	p.A322T	CAGAGGCGAACAT	.	61.0	3.0	60.0	0.0	.	169	.	.	Atlas-SNP
LCT	3938	hgsc.bcm.edu	hg19	2	136566972	136566972	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	LCT	NM_002299	exon8	c.G2945A	p.R982Q	AAAATCCGAGACC	.	85.0	5.0	68.0	0.0	.	309	.	.	Atlas-SNP
PKP4	8502	hgsc.bcm.edu	hg19	2	159481873	159481873	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PKP4	NM_001005476	exon7	c.C1087T	p.Q363X	ATGGAGCAATTCG	.	268.0	48.0	223.0	0.0	.	133	.	.	Atlas-SNP
FAP	2191	hgsc.bcm.edu	hg19	2	163031427	163031427	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	FAP	NM_004460	exon22	c.T1919C	p.L640P	TTGAAAAGACCAG	.	93.0	4.0	86.0	0.0	.	122	.	.	Atlas-SNP
TNS1	7145	hgsc.bcm.edu	hg19	2	218713231	218713231	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	TNS1	NM_022648	exon17	c.A1634G	p.D545G	GACTTGTCCAGAC	.	67.0	4.0	95.0	0.0	.	251	.	.	Atlas-SNP
TNS1	7145	hgsc.bcm.edu	hg19	2	218762666	218762666	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.,2	TNS1	NM_022648	exon6	c.A23T	p.E8V	CTGTCCTCCATGG	.	48.0	4.0	44.0	0.0	.	251	.	.	Atlas-SNP
FEV	54738	hgsc.bcm.edu	hg19	2	219849754	219849754	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	FEV	NM_017521	exon1	c.A44G	p.Y15C	GGCAGGTACATGT	.	73.0	4.0	48.0	0.0	.	10	.	.	Atlas-SNP
SPEG	10290	hgsc.bcm.edu	hg19	2	220333895	220333895	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	SPEG,NS,carcinoma,0,1	SPEG	NM_005876	exon13	c.T3509C	p.M1170T	AGAAGATGCCATC	.	63.0	4.0	69.0	0.0	.	272	.	.	Atlas-SNP
COL4A4	1286	hgsc.bcm.edu	hg19	2	228012135	228012135	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	COL4A4	NM_000092	exon2	c.G65A	p.G22D	CAGGGACCTGTGG	.	56.0	8.0	62.0	0.0	.	215	.	.	Atlas-SNP
SH3BP4	23677	hgsc.bcm.edu	hg19	2	235950464	235950464	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SH3BP4	NM_014521	exon4	c.A1051G	p.T351A	GGGGAGACCCAGC	.	68.0	4.0	54.0	0.0	.	109	.	.	Atlas-SNP
COL6A3	1293	hgsc.bcm.edu	hg19	2	238289663	238289663	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	COL6A3_ENST00000392004,colon,carcinoma,0,3	COL6A3	NM_004369	exon5	c.G1792A	p.D598N	AGGAGTCGAAAGC	.	56.0	3.0	49.0	0.0	.	608	.	.	Atlas-SNP
ILKAP	80895	hgsc.bcm.edu	hg19	2	239079271	239079271	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	ILKAP,NS,carcinoma,0,1	ILKAP	NM_030768	exon12	c.G1085A	p.R362H	TCGTAGCGGGCGT	.	69.0	3.0	111.0	0.0	.	42	.	.	Atlas-SNP
OR6B3	150681	hgsc.bcm.edu	hg19	2	240984862	240984862	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	OR6B3	NM_173351	exon1	c.C628G	p.P210A	GGAGTGGAAACAC	.	279.0	55.0	256.0	0.0	.	37	.	.	Atlas-SNP
SCN11A	11280	hgsc.bcm.edu	hg19	3	38921489	38921489	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SCN11A	NM_014139	exon19	c.A3345G	p.G1115G	ATACTTTCCAAAT	.	88.0	4.0	80.0	0.0	.	296	.	.	Atlas-SNP
WDR6	11180	hgsc.bcm.edu	hg19	3	49052272	49052272	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	WDR6	NM_018031	exon6	c.T3007C	p.S1003P	ACCCCCTCCCTGA	.	104.0	5.0	62.0	0.0	.	79	.	.	Atlas-SNP
USP4	7375	hgsc.bcm.edu	hg19	3	49362451	49362451	+	Missense_Mutation	SNP	C	C	A	rs117411669	bycluster;by1000genomes;alternate_allele	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	USP4	NM_001251877	exon5	c.G509T	p.R170L	AGCTTCCGCATCT	.	150.0	42.0	131.0	0.0	.	72	.	C|0.999;T|0.001	Atlas-SNP
CACNA2D2	9254	hgsc.bcm.edu	hg19	3	50413239	50413239	+	Splice_Site	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CACNA2D2	NM_001174051	exon21	c.1845+1G>A	.	TCCTTACCTCATC	.	76.0	4.0	58.0	0.0	.	82	.	.	Atlas-SNP
HEMK1	51409	hgsc.bcm.edu	hg19	3	50614592	50614592	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	HEMK1	NM_016173	exon5	c.T524C	p.L175P	TCTCCCTCAGCCT	.	69.0	4.0	73.0	0.0	.	17	.	.	Atlas-SNP
GNL3	26354	hgsc.bcm.edu	hg19	3	52727767	52727767	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	GNL3,NS,carcinoma,0,1	GNL3	NM_014366	exon13	c.G1444C	p.E482Q	AAGCAGGAGGAGA	.	134.0	10.0	123.0	0.0	.	37	.	.	Atlas-SNP
FAM208A	23272	hgsc.bcm.edu	hg19	3	56680996	56680996	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	FAM208A	NM_001112736	exon14	c.C1769T	p.S590L	GGAGCTGAGTATA	.	241.0	31.0	201.0	0.0	.	113	.	.	Atlas-SNP
MORC1	27136	hgsc.bcm.edu	hg19	3	108723940	108723940	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	MORC1	NM_014429	exon19	c.G1990T	p.V664F	GTTTGACATTTTC	.	119.0	25.0	108.0	0.0	.	211	.	.	Atlas-SNP
CASR	846	hgsc.bcm.edu	hg19	3	121980604	121980604	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CASR	NM_001178065	exon4	c.A722T	p.E241V	TCAGTGAACTCAT	.	221.0	20.0	182.0	0.0	.	190	.	.	Atlas-SNP
PDIA5	10954	hgsc.bcm.edu	hg19	3	122849447	122849447	+	Silent	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PDIA5	NM_006810	exon11	c.C894A	p.V298V	CCTCGTCATGTTC	.	121.0	26.0	113.0	0.0	.	66	.	.	Atlas-SNP
CPNE4	131034	hgsc.bcm.edu	hg19	3	131624109	131624109	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CPNE4	NM_130808	exon2	c.A179T	p.E60V	CCTACCTCAAACC	.	133.0	27.0	126.0	0.0	.	112	.	.	Atlas-SNP
ACAD11	84129	hgsc.bcm.edu	hg19	3	132337601	132337601	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ACAD11	NM_032169	exon11	c.G1291A	p.E431K	GACCCTCGACTTT	.	238.0	63.0	202.0	0.0	.	78	.	.	Atlas-SNP
ATP11B	23200	hgsc.bcm.edu	hg19	3	182566270	182566270	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	ATP11B,NS,carcinoma,0,1	ATP11B	NM_014616	exon10	c.C776T	p.A259V	GTGTTGCGGTATA	.	232.0	59.0	190.0	0.0	.	115	.	.	Atlas-SNP
HRG	3273	hgsc.bcm.edu	hg19	3	186383833	186383833	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	HRG	NM_000412	exon1	c.A13G	p.I5V	GCACTCATTGCAG	.	111.0	26.0	106.0	0.0	.	81	.	.	Atlas-SNP
HES1	3280	hgsc.bcm.edu	hg19	3	193854818	193854818	+	Silent	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	HES1,NS,carcinoma,0,1	HES1	NM_005524	exon3	c.G273A	p.L91L	GAACCTGCAGCGG	.	64.0	3.0	59.0	0.0	.	23	.	.	Atlas-SNP
MUC4	4585	hgsc.bcm.edu	hg19	3	195511811	195511811	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	MUC4	NM_018406	exon2	c.C6640A	p.P2214T	AGGAAGGGCTGGT	.	118.0	6.0	139.0	0.0	.	1505	.	.	Atlas-SNP
FAM157A	728262	hgsc.bcm.edu	hg19	3	197880164	197880164	+	Silent	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	FAM157A	NM_001145248	exon2	c.G243A	p.Q81Q	GCAGCAGCAGCAG	.	213.0	26.0	192.0	0.0	.	4	.	.	Atlas-SNP
SLBP	7884	hgsc.bcm.edu	hg19	4	1701341	1701341	+	Missense_Mutation	SNP	G	G	C	rs200085408		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SLBP	NM_006527	exon5	c.C429G	p.N143K	CCCATAGTTGATC	.	264.0	49.0	195.0	0.0	.	12	.	G|0.999;C|0.001	Atlas-SNP
EVC2	132884	hgsc.bcm.edu	hg19	4	5642500	5642500	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	EVC2	NM_147127	exon10	c.A1211G	p.K404R	ATATCCTTGCTGA	.	141.0	6.0	115.0	0.0	.	202	.	.	Atlas-SNP
EVC	2121	hgsc.bcm.edu	hg19	4	5798818	5798818	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	EVC,NS,carcinoma,0,1	EVC	NM_153717	exon14	c.C1956T	p.R652R	ACTCCGCGGCAAC	.	122.0	5.0	143.0	0.0	.	90	.	.	Atlas-SNP
WDR1	9948	hgsc.bcm.edu	hg19	4	10099482	10099482	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	WDR1	NM_017491	exon5	c.T411C	p.S137S	CACAGAAGAGCCA	.	92.0	4.0	57.0	0.0	.	93	.	.	Atlas-SNP
DSPP	1834	hgsc.bcm.edu	hg19	4	88537513	88537513	+	Missense_Mutation	SNP	A	A	C	rs112275895		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	DSPP	NM_014208	exon5	c.A3699C	p.E1233D	CAATGAAAGCAGC	.	221.0	21.0	158.0	0.0	.	174	.	A|0.500;C|0.500	Atlas-SNP
UCP1	7350	hgsc.bcm.edu	hg19	4	141484320	141484320	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	UCP1	NM_021833	exon4	c.A572G	p.E191G	ACTAGCTCTGTAC	.	122.0	6.0	139.0	0.0	.	33	.	.	Atlas-SNP
WWC2	80014	hgsc.bcm.edu	hg19	4	184233492	184233492	+	Splice_Site	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	WWC2,NS,carcinoma,0,1	WWC2	NM_024949	exon22	c.3385-2A>G	.	TTTTCCAGGCTGA	.	27.0	2.0	28.0	0.0	.	78	.	.	Atlas-SNP
CCDC111	201973	hgsc.bcm.edu	hg19	4	185615700	185615700	+	Missense_Mutation	SNP	G	G	A	rs200746705	bycluster	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.,1	CCDC111	NM_152683	exon14	c.G1450A	p.A484T	GATGAAGCAGATG	.	53.0	8.0	71.0	0.0	.	43	.	.	Atlas-SNP
ISL1	3670	hgsc.bcm.edu	hg19	5	50683549	50683549	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ISL1	NM_002202	exon3	c.T444C	p.S148S	GCTCAGTCCCCTG	.	99.0	4.0	107.0	0.0	.	65	.	.	Atlas-SNP
ADAMTS6	11174	hgsc.bcm.edu	hg19	5	64748641	64748641	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ADAMTS6	NM_197941	exon5	c.G736A	p.V246M	TGCTCACTGATCT	.	324.0	58.0	251.0	0.0	.	174	.	.	Atlas-SNP
GFM2	84340	hgsc.bcm.edu	hg19	5	74021855	74021855	+	Missense_Mutation	SNP	T	T	A	rs145997856		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	GFM2	NM_032380	exon18	c.A1823T	p.E608V	TCAAACTCAATCA	.	122.0	10.0	102.0	0.0	.	38	.	.	Atlas-SNP
ERAP2	64167	hgsc.bcm.edu	hg19	5	96237302	96237302	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	ERAP2,NS,carcinoma,0,2	ERAP2	NM_001130140	exon11	c.C1665T	p.D555D	ACAAGACGGGTGT	.	44.0	2.0	60.0	0.0	.	77	.	.	Atlas-SNP
PCDHB4	56131	hgsc.bcm.edu	hg19	5	140503780	140503780	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	PCDHB4,right_upper_lobe,carcinoma,0,1	PCDHB4	NM_018938	exon1	c.C2200T	p.H734Y	CCAGGGCATCTGG	.	33.0	2.0	47.0	0.0	.	177	.	.	Atlas-SNP
PCDH12	51294	hgsc.bcm.edu	hg19	5	141335035	141335035	+	Silent	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PCDH12	NM_016580	exon1	c.C2382T	p.S794S	TTTGTGGGACTGC	.	77.0	4.0	70.0	0.0	.	133	.	.	Atlas-SNP
SLC6A7	6534	hgsc.bcm.edu	hg19	5	149578931	149578931	+	Splice_Site	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SLC6A7	NM_014228	exon5	c.723+2T>C	.	GCAAGGTGAAGCC	.	95.0	4.0	78.0	0.0	.	52	.	.	Atlas-SNP
SLIT3	6586	hgsc.bcm.edu	hg19	5	168093513	168093513	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	SLIT3,NS,lymphoid_neoplasm,0,1	SLIT3	NM_001271946	exon36	c.G4539A	p.S1513S	TACAAACGAGGAG	.	49.0	2.0	31.0	0.0	.	224	.	.	Atlas-SNP
BTNL9	153579	hgsc.bcm.edu	hg19	5	180486679	180486679	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	BTNL9,NS,carcinoma,0,1	BTNL9	NM_152547	exon11	c.C1425T	p.H475H	CTTCCACGACACC	.	42.0	2.0	45.0	0.0	.	58	.	.	Atlas-SNP
GCM2	9247	hgsc.bcm.edu	hg19	6	10877430	10877430	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	GCM2,NS,carcinoma,0,1	GCM2	NM_004752	exon2	c.G286A	p.G96S	GGGAACCGTCGGG	.	52.0	3.0	42.0	1.0	.	81	.	.	Atlas-SNP
MUC21	394263	hgsc.bcm.edu	hg19	6	30955247	30955247	+	Missense_Mutation	SNP	C	C	T	rs144122059		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	MUC21	NM_001010909	exon2	c.C1295T	p.A432V	GTGGGGCCAACAC	.	163.0	10.0	87.0	0.0	.	98	.	.	Atlas-SNP
PRRC2A	7916	hgsc.bcm.edu	hg19	6	31599160	31599160	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	PRRC2A,NS,carcinoma,0,1	PRRC2A	NM_004638	exon16	c.C2710A	p.R904S	CCTGCCCGCGGAG	.	44.0	2.0	71.0	0.0	.	152	.	.	Atlas-SNP
MEA1	4201	hgsc.bcm.edu	hg19	6	42980713	42980713	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	MEA1	NM_014623	exon3	c.G357T	p.E119D	TCCCTCCTCATCT	.	120.0	9.0	74.0	0.0	.	11	.	.	Atlas-SNP
CAPN11	11131	hgsc.bcm.edu	hg19	6	44148727	44148727	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CAPN11	NM_007058	exon18	c.T1862C	p.L621P	TCAACCTCATGGA	.	98.0	4.0	56.0	0.0	.	66	.	.	Atlas-SNP
DEFB113	245927	hgsc.bcm.edu	hg19	6	49936572	49936572	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	DEFB113	NM_001037729	exon2	c.A67T	p.K23X	TTTTTTTCTGTGG	.	97.0	21.0	99.0	0.0	.	18	.	.	Atlas-SNP
BMP5	653	hgsc.bcm.edu	hg19	6	55639030	55639030	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	BMP5	NM_021073	exon4	c.A844G	p.N282D	TTACGTTGATACT	.	230.0	32.0	175.0	0.0	.	94	.	.	Atlas-SNP
MCHR2	84539	hgsc.bcm.edu	hg19	6	100382375	100382375	+	Silent	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	MCHR2,NS,carcinoma,-1,1	MCHR2	NM_001040179	exon5	c.G606T	p.T202T	TGTTATCGTCAAA	.	58.0	3.0	42.0	0.0	.	97	.	.	Atlas-SNP
DSE	29940	hgsc.bcm.edu	hg19	6	116757465	116757465	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	DSE	NM_001080976	exon6	c.G1834C	p.G612R	AGAGATGGTCTCT	.	135.0	6.0	52.0	0.0	.	98	.	.	Atlas-SNP
LTV1	84946	hgsc.bcm.edu	hg19	6	144184607	144184607	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	LTV1	NM_032860	exon11	c.A1371G	p.R457R	GAAAAGAAGGCAA	.	260.0	77.0	201.0	0.0	.	48	.	.	Atlas-SNP
UTRN	7402	hgsc.bcm.edu	hg19	6	145021342	145021342	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	UTRN	NM_007124	exon52	c.A7772G	p.D2591G	GAGGAGATGTTCC	.	94.0	4.0	62.0	0.0	.	327	.	.	Atlas-SNP
SASH1	23328	hgsc.bcm.edu	hg19	6	148846461	148846461	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SASH1	NM_015278	exon11	c.A1244G	p.N415S	TGACGAATCGCTC	.	67.0	17.0	61.0	0.0	.	123	.	.	Atlas-SNP
ARID1B	57492	hgsc.bcm.edu	hg19	6	157522125	157522125	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ARID1B	NM_020732	exon18	c.C4397A	p.A1466E	TGTGGGCAGCACG	.	126.0	16.0	69.0	0.0	.	320	.	.	Atlas-SNP
MRPL18	29074	hgsc.bcm.edu	hg19	6	160212008	160212008	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	MRPL18,NS,malignant_melanoma,0,1	MRPL18	NM_014161	exon2	c.C89T	p.P30L	CCGAGCCGGCAGC	.	68.0	3.0	52.0	0.0	.	25	.	.	Atlas-SNP
SUN1	23353	hgsc.bcm.edu	hg19	7	882841	882841	+	Splice_Site	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SUN1	NM_001171946	exon5	c.452-2A>G	.	TTTTTTAGGTCTT	.	90.0	5.0	78.0	0.0	.	157	.	.	Atlas-SNP
LFNG	3955	hgsc.bcm.edu	hg19	7	2552880	2552880	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	LFNG	NM_001166355	exon2	c.C137T	p.T46I	GATGGACAGATGG	.	75.0	7.0	53.0	0.0	.	57	.	.	Atlas-SNP
SP4	6671	hgsc.bcm.edu	hg19	7	21469601	21469601	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SP4	NM_003112	exon3	c.A818G	p.N273S	TAAACAACGTGGC	.	174.0	44.0	130.0	0.0	.	91	.	.	Atlas-SNP
HOXA5	3202	hgsc.bcm.edu	hg19	7	27181672	27181672	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	HOXA5,NS,carcinoma,0,1	HOXA5	NM_019102	exon2	c.C595T	p.R199W	CCGTCCGGGCCCT	.	79.0	4.0	56.0	0.0	.	43	.	.	Atlas-SNP
DDX56	54606	hgsc.bcm.edu	hg19	7	44612257	44612257	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	DDX56	NM_001257189	exon4	c.G470T	p.R157L	GAGTCACGAAGTT	.	209.0	51.0	133.0	0.0	.	36	.	.	Atlas-SNP
POMZP3	22932	hgsc.bcm.edu	hg19	7	76240786	76240786	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	POMZP3	NM_012230	exon6	c.T560G	p.L187R	GGTTACAGGGAAG	.	137.0	8.0	92.0	0.0	.	19	.	.	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	hg19	7	82389961	82389961	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PCLO	NM_033026	exon24	c.T15282C	p.S5094S	CTGAAGAGAATGT	.	508.0	113.0	390.0	0.0	.	1506	.	.	Atlas-SNP
FZD1	8321	hgsc.bcm.edu	hg19	7	90894459	90894459	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.,4	FZD1	NM_003505	exon1	c.A264G	p.Q88Q	GCAGCAACCGCCG	.	4.0	2.0	2.0	0.0	.	64	.	.	Atlas-SNP
BUD31	8896	hgsc.bcm.edu	hg19	7	99017026	99017026	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	BUD31,NS,carcinoma,0,1	BUD31	NM_003910	exon6	c.G397A	p.E133K	ATCATCGAGTGCA	.	71.0	3.0	57.0	0.0	.	12	.	.	Atlas-SNP
CNPY4	245812	hgsc.bcm.edu	hg19	7	99722425	99722425	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CNPY4	NM_152755	exon6	c.G661C	p.E221Q	CAGGAGGAGGAGG	.	38.0	5.0	24.0	0.0	.	18	.	.	Atlas-SNP
STAG3	10734	hgsc.bcm.edu	hg19	7	99787154	99787154	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	STAG3	NM_012447	exon8	c.A802G	p.R268G	GCTGAAAGAAACA	.	96.0	4.0	63.0	0.0	.	121	.	.	Atlas-SNP
LRRC17	10234	hgsc.bcm.edu	hg19	7	102575002	102575002	+	Missense_Mutation	SNP	A	A	T	rs77576273		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	LRRC17	NM_005824	exon2	c.A642T	p.E214D	TAATGAAGAAGAA	.	25.0	5.0	8.0	0.0	.	45	.	.	Atlas-SNP
DOCK4	9732	hgsc.bcm.edu	hg19	7	111381259	111381259	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	DOCK4	NM_014705	exon46	c.A4904G	p.Y1635C	GCTGGGTAACTTA	.	95.0	4.0	71.0	0.0	.	365	.	.	Atlas-SNP
METTL2B	55798	hgsc.bcm.edu	hg19	7	128117152	128117152	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	METTL2B	NM_018396	exon2	c.T127C	p.S43P	GAGTGGTCGGAAG	.	116.0	5.0	92.0	0.0	.	34	.	.	Atlas-SNP
SCARA5	286133	hgsc.bcm.edu	hg19	8	27779159	27779159	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	SCARA5,NS,lymphoid_neoplasm,0,1	SCARA5	NM_173833	exon4	c.C845T	p.A282V	GTGACCGCGTTGA	.	30.0	3.0	45.0	0.0	.	53	.	.	Atlas-SNP
TEX15	56154	hgsc.bcm.edu	hg19	8	30701385	30701385	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	TEX15,rectum,carcinoma,0,1	TEX15	NM_031271	exon1	c.C5149T	p.R1717X	AGCTTCGCAATGT	.	91.0	30.0	99.0	1.0	.	350	.	.	Atlas-SNP
IKBKB	3551	hgsc.bcm.edu	hg19	8	42176090	42176090	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	IKBKB	NM_001556	exon13	c.C1261G	p.L421V	AGGAATCTCGCCT	.	77.0	12.0	100.0	0.0	.	88	.	.	Atlas-SNP
COPS5	10987	hgsc.bcm.edu	hg19	8	67974167	67974167	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	COPS5	NM_006837	exon1	c.C65T	p.A22V	CTCTGAGCTTCCT	.	92.0	7.0	71.0	0.0	.	29	.	.	Atlas-SNP
PREX2	80243	hgsc.bcm.edu	hg19	8	68972975	68972975	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PREX2	NM_025170	exon11	c.T1300C	p.L434L	GTGCACTTGGGAC	.	97.0	4.0	109.0	0.0	.	614	.	.	Atlas-SNP
CRISPLD1	83690	hgsc.bcm.edu	hg19	8	75927121	75927121	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CRISPLD1	NM_031461	exon6	c.G701A	p.G234D	GAGGGGGCTGTAG	.	143.0	31.0	141.0	0.0	.	94	.	.	Atlas-SNP
ZFHX4	79776	hgsc.bcm.edu	hg19	8	77762578	77762578	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ZFHX4	NM_024721	exon9	c.A3944G	p.E1315G	CAGCTGAGGGGTC	.	92.0	5.0	78.0	0.0	.	878	.	.	Atlas-SNP
VPS13B	157680	hgsc.bcm.edu	hg19	8	100829851	100829851	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	VPS13B	NM_017890	exon45	c.A8256C	p.Q2752H	TGGTCAAGATGGA	.	232.0	49.0	147.0	0.0	.	811	.	.	Atlas-SNP
ATAD2	29028	hgsc.bcm.edu	hg19	8	124382155	124382155	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ATAD2	NM_014109	exon7	c.T837A	p.D279E	TTCATCATCTTCA	.	210.0	20.0	135.0	0.0	.	160	.	.	Atlas-SNP
ATAD2	29028	hgsc.bcm.edu	hg19	8	124382158	124382158	+	Missense_Mutation	SNP	T	T	A	rs373069275		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ATAD2	NM_014109	exon7	c.A834T	p.E278D	ATCATCTTCATCA	.	204.0	19.0	133.0	0.0	.	160	.	.	Atlas-SNP
ANXA13	312	hgsc.bcm.edu	hg19	8	124705521	124705521	+	Nonsense_Mutation	SNP	C	C	T	rs146521013	alternate_allele	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ANXA13	NM_001003954	exon9	c.G681A	p.W227X	AGTGCCCCAGCGG	.	166.0	9.0	90.0	0.0	.	38	.	C|1.000;A|0.000	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	hg19	8	144940354	144940354	+	Silent	SNP	G	G	A	rs375604799		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	EPPK1	NM_031308	exon1	c.C7068T	p.R2356R	GGGCACGCGGTGG	.	22.0	10.0	23.0	0.0	.	199	.	.	Atlas-SNP
OPLAH	26873	hgsc.bcm.edu	hg19	8	145112137	145112137	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	OPLAH	NM_017570	exon11	c.G1509A	p.L503L	CATGCCCAGGGCC	.	43.0	9.0	77.0	0.0	.	78	.	.	Atlas-SNP
OPLAH	26873	hgsc.bcm.edu	hg19	8	145112386	145112386	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	OPLAH,NS,carcinoma,0,1	OPLAH	NM_017570	exon10	c.G1387A	p.E463K	TGGCCTCGTTGGC	.	14.0	2.0	62.0	0.0	.	78	.	.	Atlas-SNP
CPSF1	29894	hgsc.bcm.edu	hg19	8	145634528	145634528	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CPSF1	NM_013291	exon2	c.C15A	p.Y5X	CTGTTTGTACACG	.	30.0	8.0	42.0	0.0	.	92	.	.	Atlas-SNP
TEK	7010	hgsc.bcm.edu	hg19	9	27190548	27190548	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	TEK	NM_000459	exon10	c.C1349G	p.A450G	TGAATGCCCCAAA	.	183.0	17.0	184.0	0.0	.	250	.	.	Atlas-SNP
NAA35	60560	hgsc.bcm.edu	hg19	9	88631506	88631506	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	NAA35	NM_024635	exon18	c.G1621A	p.D541N	CGTGCCGATGGCT	.	69.0	4.0	81.0	0.0	.	50	.	.	Atlas-SNP
FGD3	89846	hgsc.bcm.edu	hg19	9	95768397	95768397	+	Missense_Mutation	SNP	G	G	A	rs371917520		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	FGD3_ENST00000375482,colon,carcinoma,0,4	FGD3	NM_001083536	exon6	c.G772A	p.V258I	CGAGCCGTAGGGC	.	50.0	2.0	45.0	0.0	.	116	.	.	Atlas-SNP
WNK2	65268	hgsc.bcm.edu	hg19	9	96021717	96021717	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	WNK2	NM_006648	exon11	c.C2887A	p.P963T	ACGCTGCCCCCTC	.	21.0	4.0	31.0	0.0	.	277	.	.	Atlas-SNP
ZNF618	114991	hgsc.bcm.edu	hg19	9	116812389	116812389	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	ZNF618_ENST00000374126,NS,NS,0,2	ZNF618	NM_133374	exon14	c.G2528A	p.R843Q	GGAGGCGGCTGCT	.	36.0	2.0	39.0	0.0	.	184	.	.	Atlas-SNP
COL27A1	85301	hgsc.bcm.edu	hg19	9	117068878	117068878	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	COL27A1,colon,carcinoma,0,1	COL27A1	NM_032888	exon58	c.A5017G	p.I1673V	AACCTCATCCAGA	.	50.0	2.0	56.0	0.0	.	200	.	.	Atlas-SNP
TNC	3371	hgsc.bcm.edu	hg19	9	117848274	117848274	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	TNC	NM_002160	exon3	c.T1736C	p.I579T	TGGCAGATGCACT	.	110.0	6.0	77.0	0.0	.	282	.	.	Atlas-SNP
SETX	23064	hgsc.bcm.edu	hg19	9	135204112	135204112	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SETX	NM_015046	exon10	c.T2873C	p.I958T	CTGTCTATCTGAG	.	206.0	29.0	173.0	0.0	.	234	.	.	Atlas-SNP
COL5A1	1289	hgsc.bcm.edu	hg19	9	137593180	137593180	+	Splice_Site	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	COL5A1	NM_000093	exon4	c.654+1G>A	.	TTTGAGGTGAGCA	.	91.0	4.0	68.0	0.0	.	323	.	.	Atlas-SNP
GPSM1	26086	hgsc.bcm.edu	hg19	9	139250948	139250948	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	GPSM1,NS,carcinoma,0,1	GPSM1	NM_001145638	exon13	c.C1767T	p.H589H	AGGCCACGGCGAG	.	16.0	3.0	44.0	1.0	.	50	.	.	Atlas-SNP
CARD9	64170	hgsc.bcm.edu	hg19	9	139265325	139265325	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	CARD9,colon,carcinoma,0,1	CARD9	NM_052813	exon4	c.G595A	p.A199T	TGAGCGCGGCGCC	.	28.0	3.0	56.0	0.0	.	47	.	.	Atlas-SNP
PITRM1	10531	hgsc.bcm.edu	hg19	10	3208566	3208566	+	Silent	SNP	C	C	T	rs114690446	bycluster	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	PITRM1,colon,carcinoma,-1,3	PITRM1	NM_014889	exon4	c.G273A	p.Q91Q	ACGGAACTGCACG	.	31.0	9.0	14.0	0.0	.	109	.	.	Atlas-SNP
PITRM1	10531	hgsc.bcm.edu	hg19	10	3208567	3208567	+	Missense_Mutation	SNP	T	T	G	rs28416720	bycluster	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	PITRM1,colon,carcinoma,0,3	PITRM1	NM_014889	exon4	c.A272C	p.Q91P	CGGAACTGCACGC	.	30.0	9.0	13.0	0.0	.	109	.	.	Atlas-SNP
MSRB2	22921	hgsc.bcm.edu	hg19	10	23393130	23393130	+	Missense_Mutation	SNP	C	C	G	rs201493683	alternate_allele	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	MSRB2	NM_012228	exon2	c.C176G	p.T59S	AACTAACCCCGGA	.	117.0	25.0	101.0	0.0	.	21	.	C|0.999;T|0.001	Atlas-SNP
MICU1	10367	hgsc.bcm.edu	hg19	10	74293540	74293540	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	.	NM_001195518	exon5	c.T501C	p.G167G	ATCCAGACCCAAG	.	54.0	4.0	45.0	0.0	.	.	.	.	Atlas-SNP
KAT6B	23522	hgsc.bcm.edu	hg19	10	76781899	76781899	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	.	NM_012330	exon16	c.A3282G	p.E1094E	GGAGGAAGAAGAG	.	108.0	14.0	90.0	0.0	.	.	.	.	Atlas-SNP
PLAC9	219348	hgsc.bcm.edu	hg19	10	81901931	81901931	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PLAC9	NM_001012973	exon2	c.A158G	p.E53G	TCATGGAGGAGGT	.	52.0	4.0	40.0	0.0	.	9	.	.	Atlas-SNP
LDB3	11155	hgsc.bcm.edu	hg19	10	88466389	88466389	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	LDB3,right_upper_lobe,carcinoma,-1,1	LDB3	NM_007078	exon7	c.C998T	p.S333L	CGGCTTCGCCACC	.	27.0	3.0	82.0	0.0	.	164	.	.	Atlas-SNP
C10orf12	26148	hgsc.bcm.edu	hg19	10	98742889	98742889	+	Missense_Mutation	SNP	G	G	A	rs141178994		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	C10orf12,colon,carcinoma,0,1	C10orf12	NM_015652	exon1	c.G1742A	p.R581H	ATGAACGCCCCTC	.	71.0	4.0	83.0	1.0	.	94	.	G|1.000;A|0.000	Atlas-SNP
LOXL4	84171	hgsc.bcm.edu	hg19	10	100013493	100013493	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	LOXL4	NM_032211	exon11	c.G1652A	p.R551H	AGCGGGCGGTCCT	.	37.0	5.0	39.0	0.0	.	60	.	.	Atlas-SNP
HPS1	3257	hgsc.bcm.edu	hg19	10	100179909	100179909	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	HPS1	NM_000195	exon18	c.T1750C	p.S584P	TCAGAGACCAGAC	.	75.0	4.0	69.0	0.0	.	65	.	.	Atlas-SNP
GBF1	8729	hgsc.bcm.edu	hg19	10	104118303	104118303	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	GBF1	NM_001199378	exon10	c.T828C	p.S276S	CTCCTCTGCAAGT	.	74.0	4.0	74.0	0.0	.	142	.	.	Atlas-SNP
GBF1	8729	hgsc.bcm.edu	hg19	10	104125298	104125298	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	GBF1	NM_001199378	exon18	c.A2251G	p.M751V	AAGAAGATGATTG	.	117.0	6.0	131.0	0.0	.	142	.	.	Atlas-SNP
PDCD11	22984	hgsc.bcm.edu	hg19	10	105202983	105202983	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PDCD11	NM_014976	exon33	c.T5017C	p.S1673P	TACGGCTCTCAGG	.	92.0	4.0	63.0	0.0	.	160	.	.	Atlas-SNP
CALHM2	51063	hgsc.bcm.edu	hg19	10	105209279	105209279	+	Silent	SNP	T	T	C	rs201668640		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CALHM2	NM_015916	exon3	c.A420G	p.S140S	CGTGAGTGAGGAA	.	55.0	4.0	60.0	0.0	.	30	.	T|0.999;C|0.001	Atlas-SNP
PDCD4	27250	hgsc.bcm.edu	hg19	10	112641040	112641040	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PDCD4	NM_014456	exon3	c.T93C	p.A31A	AAATGCTGGGACT	.	91.0	4.0	92.0	0.0	.	39	.	.	Atlas-SNP
NHLRC2	374354	hgsc.bcm.edu	hg19	10	115644138	115644138	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	NHLRC2	NM_198514	exon5	c.A1038G	p.S346S	AACATCAGGTATG	.	87.0	4.0	90.0	0.0	.	56	.	.	Atlas-SNP
DOCK1	1793	hgsc.bcm.edu	hg19	10	129172467	129172467	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	DOCK1,colon,carcinoma,-1,2	DOCK1	NM_001380	exon35	c.G3601A	p.V1201I	TGCACCGTCAATG	.	66.0	3.0	70.0	0.0	.	188	.	.	Atlas-SNP
CALY	50632	hgsc.bcm.edu	hg19	10	135140482	135140482	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	CALY,colon,carcinoma,0,1	CALY	NM_015722	exon4	c.G260T	p.R87L	ATCATCCGTGCGG	.	39.0	2.0	82.0	1.0	.	19	.	.	Atlas-SNP
RRM1	6240	hgsc.bcm.edu	hg19	11	4153626	4153626	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	RRM1	NM_001033	exon16	c.G1880A	p.R627H	ATACTCGCAGAGT	.	93.0	4.0	75.0	0.0	.	31	.	.	Atlas-SNP
OR51G2	81282	hgsc.bcm.edu	hg19	11	4936238	4936238	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	OR51G2	NM_001005238	exon1	c.T656G	p.I219S	AAGAGGATGAGCA	.	116.0	32.0	101.0	0.0	.	70	.	.	Atlas-SNP
OR51I1	390063	hgsc.bcm.edu	hg19	11	5462447	5462447	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	OR51I1,NS,carcinoma,0,1	OR51I1	NM_001005288	exon1	c.C298A	p.L100M	GGACCAGGCAAGC	.	139.0	37.0	89.0	0.0	.	66	.	.	Atlas-SNP
SMPD1	6609	hgsc.bcm.edu	hg19	11	6413367	6413367	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	SMPD1_ENST00000342245,NS,carcinoma,0,2	SMPD1	NM_000543	exon2	c.G1072A	p.E358K	CCTGCCGAAGCCC	.	95.0	4.0	76.0	0.0	.	108	.	.	Atlas-SNP
ZNF143	7702	hgsc.bcm.edu	hg19	11	9537864	9537864	+	Silent	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	ZNF143,NS,carcinoma,0,1	ZNF143	NM_003442	exon14	c.G1641A	p.T547T	AGGAACGCACTCT	.	34.0	2.0	42.0	0.0	.	38	.	.	Atlas-SNP
AMPD3	272	hgsc.bcm.edu	hg19	11	10503698	10503698	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	AMPD3	NM_000480	exon4	c.G542T	p.R181L	ACCACCGCTTCCC	.	69.0	10.0	51.0	0.0	.	68	.	.	Atlas-SNP
CCDC34	91057	hgsc.bcm.edu	hg19	11	27384473	27384473	+	Missense_Mutation	SNP	A	A	C	rs77142757	bycluster	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CCDC34	NM_030771	exon1	c.T269G	p.V90G	TCATCCACGTCTT	.	98.0	13.0	116.0	0.0	.	48	.	A|1.000;C|0.000	Atlas-SNP
C11orf74	119710	hgsc.bcm.edu	hg19	11	36631742	36631742	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	C11orf74	NM_138787	exon2	c.G89G	p.G30G	ATGAGCAAACATA	.	81.0	4.0	57.0	0.0	.	22	.	.	Atlas-SNP
OR4C46	119749	hgsc.bcm.edu	hg19	11	51515417	51515417	+	Missense_Mutation	SNP	A	A	C	rs148928414		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	OR4C46	NM_001004703	exon1	c.A136C	p.T46P	GTGGTCACCATCA	.	117.0	26.0	78.0	0.0	.	96	.	.	Atlas-SNP
OR5AS1	219447	hgsc.bcm.edu	hg19	11	55798847	55798847	+	Missense_Mutation	SNP	G	G	A	rs201114315	bycluster	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	OR5AS1,NS,carcinoma,0,1	OR5AS1	NM_001001921	exon1	c.G953A	p.R318H	TAAATCGTTTAAG	.	35.0	2.0	26.0	0.0	.	121	.	.	Atlas-SNP
MS4A6A	64231	hgsc.bcm.edu	hg19	11	59947379	59947379	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	MS4A6A	NM_001247999	exon4	c.T291C	p.A97A	GAAGGAAGCAGAT	.	121.0	5.0	95.0	0.0	.	85	.	.	Atlas-SNP
TMEM138	51524	hgsc.bcm.edu	hg19	11	61131933	61131933	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	TMEM138	NM_016464	exon2	c.T71C	p.V24A	TCTTTGTCAATTC	.	99.0	4.0	68.0	0.0	.	16	.	.	Atlas-SNP
EHBP1L1	254102	hgsc.bcm.edu	hg19	11	65357652	65357652	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	EHBP1L1	NM_001099409	exon15	c.A4154G	p.E1385G	AGGTGGAGATGCA	.	90.0	5.0	53.0	0.0	.	64	.	.	Atlas-SNP
OVOL1	5017	hgsc.bcm.edu	hg19	11	65561586	65561586	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	OVOL1	NM_004561	exon2	c.A185G	p.N62S	CTTTGAACATGAG	.	92.0	4.0	81.0	0.0	.	15	.	.	Atlas-SNP
KDM2A	22992	hgsc.bcm.edu	hg19	11	66982895	66982895	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	KDM2A	NM_012308	exon7	c.A571T	p.M191L	TTGGAGATGCAGT	.	81.0	18.0	66.0	0.0	.	80	.	.	Atlas-SNP
MTL5	9633	hgsc.bcm.edu	hg19	11	68475846	68475846	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	MTL5	NM_004923	exon10	c.A1457G	p.E486G	AATTCCTCCAGGA	.	149.0	6.0	132.0	0.0	.	37	.	.	Atlas-SNP
TENM4	26011	hgsc.bcm.edu	hg19	11	78775891	78775891	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	.	NM_001098816	exon6	c.G385A	p.V129M	GACGCACGGGGTG	.	48.0	12.0	45.0	0.0	.	.	.	.	Atlas-SNP
CTSC	1075	hgsc.bcm.edu	hg19	11	88070831	88070831	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	CTSC,NS,carcinoma,0,1	CTSC	NM_148170	exon1	c.G10T	p.G4W	AGGGCCCAGCACC	.	43.0	3.0	85.0	0.0	.	46	.	.	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	hg19	11	92616495	92616495	+	Silent	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	FAT3	NM_001008781	exon23	c.C12873A	p.A4291A	CCCCGCCGTGTCA	.	25.0	10.0	36.0	0.0	.	1822	.	.	Atlas-SNP
DYNC2H1	79659	hgsc.bcm.edu	hg19	11	103027464	103027464	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	DYNC2H1	NM_001377	exon26	c.A4092G	p.E1364E	AAAAGAACAGACA	.	81.0	4.0	67.0	0.0	.	246	.	.	Atlas-SNP
NCAM1	4684	hgsc.bcm.edu	hg19	11	113085206	113085206	+	Silent	SNP	T	T	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	NCAM1	NM_001242608	exon9	c.T1032A	p.S344S	GACTTCTACCCGG	.	112.0	11.0	81.0	0.0	.	372	.	.	Atlas-SNP
TECTA	7007	hgsc.bcm.edu	hg19	11	121058616	121058616	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	TECTA	NM_005422	exon20	c.C6075T	p.T2025T	CGTCACCGTCTTT	.	89.0	24.0	93.0	0.0	.	329	.	.	Atlas-SNP
ACRV1	56	hgsc.bcm.edu	hg19	11	125542541	125542541	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ACRV1	NM_001612	exon4	c.A745G	p.T249A	TCCTCGTTCCATG	.	88.0	4.0	76.0	0.0	.	21	.	.	Atlas-SNP
APLP2	334	hgsc.bcm.edu	hg19	11	129991652	129991652	+	Missense_Mutation	SNP	T	T	G	rs1063201	bycluster	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	APLP2	NM_001243299	exon5	c.T690G	p.D230E	GGAAGATGAAGAG	.	150.0	9.0	111.0	0.0	.	71	.	.	Atlas-SNP
OPCML	4978	hgsc.bcm.edu	hg19	11	132527021	132527021	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	OPCML	NM_002545	exon2	c.A361T	p.N121Y	GATGATTGTCTGT	.	243.0	54.0	175.0	0.0	.	166	.	.	Atlas-SNP
CCDC77	84318	hgsc.bcm.edu	hg19	12	520926	520926	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CCDC77	NM_032358	exon4	c.T52C	p.S18P	GTTGTCTCCAAAC	.	77.0	4.0	56.0	0.0	.	35	.	.	Atlas-SNP
B4GALNT3	283358	hgsc.bcm.edu	hg19	12	653566	653566	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	B4GALNT3	NM_173593	exon4	c.T413C	p.L138P	AGCAGCTCAGGAG	.	46.0	5.0	32.0	0.0	.	64	.	.	Atlas-SNP
SLC38A1	81539	hgsc.bcm.edu	hg19	12	46599923	46599923	+	Missense_Mutation	SNP	C	C	T	rs369346779		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	SLC38A1,colon,carcinoma,0,1	SLC38A1	NM_030674	exon9	c.G586A	p.V196I	CCAGAACGCGGCC	.	39.0	2.0	34.0	0.0	.	58	.	.	Atlas-SNP
SLC38A2	54407	hgsc.bcm.edu	hg19	12	46756927	46756927	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SLC38A2	NM_018976	exon13	c.A1056G	p.E352E	AACATGTTCTACA	.	75.0	4.0	64.0	0.0	.	36	.	.	Atlas-SNP
LMBR1L	55716	hgsc.bcm.edu	hg19	12	49500745	49500745	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	LMBR1L	NM_018113	exon2	c.A156G	p.T52T	AGTACCTGTGGTG	.	119.0	5.0	97.0	0.0	.	61	.	.	Atlas-SNP
FAIM2	23017	hgsc.bcm.edu	hg19	12	50281167	50281167	+	Splice_Site	SNP	A	A	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	FAIM2	NM_012306	exon12	c.801+2T>A	.	ACACTCACCAATG	.	47.0	10.0	32.0	0.0	.	32	.	.	Atlas-SNP
AQP5	362	hgsc.bcm.edu	hg19	12	50357929	50357929	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	AQP5	NM_001651	exon3	c.G583C	p.V195L	GCGGTGGTCATGA	.	107.0	15.0	82.0	0.0	.	19	.	.	Atlas-SNP
C12orf44	60673	hgsc.bcm.edu	hg19	12	52470885	52470885	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	C12orf44	NM_001098673	exon4	c.T568C	p.Y190H	TACCTGTACAAGA	.	97.0	4.0	72.0	0.0	.	14	.	.	Atlas-SNP
ITGA7	3679	hgsc.bcm.edu	hg19	12	56088716	56088716	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ITGA7	NM_001144996	exon15	c.G2054A	p.G685E	GGCTGCCCACTCA	.	61.0	6.0	49.0	0.0	.	194	.	.	Atlas-SNP
ORMDL2	29095	hgsc.bcm.edu	hg19	12	56212815	56212815	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ORMDL2	NM_014182	exon2	c.A32G	p.N11S	AAGTAAACCCCAA	.	81.0	4.0	81.0	0.0	.	8	.	.	Atlas-SNP
LRP1	4035	hgsc.bcm.edu	hg19	12	57577928	57577928	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	LRP1	NM_002332	exon37	c.C5990T	p.S1997F	ATGGCTCCTTCCG	.	104.0	12.0	74.0	0.0	.	428	.	.	Atlas-SNP
GLIPR1L2	144321	hgsc.bcm.edu	hg19	12	75816822	75816822	+	Silent	SNP	A	A	G	rs75261424		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	GLIPR1L2	NM_152436	exon4	c.A723G	p.K241K	CAAGAAAAATAAG	.	90.0	5.0	109.0	0.0	.	54	.	.	Atlas-SNP
PTPRQ	374462	hgsc.bcm.edu	hg19	12	81014071	81014071	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PTPRQ	NM_001145026	exon29	c.T5012A	p.I1671N	TCTACATCATAGG	.	177.0	35.0	165.0	0.0	.	119	.	.	Atlas-SNP
USP30	84749	hgsc.bcm.edu	hg19	12	109519740	109519740	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	USP30	NM_032663	exon9	c.T783C	p.G261G	GTAGGGTCACCCA	.	155.0	7.0	94.0	0.0	.	48	.	.	Atlas-SNP
NOS1	4842	hgsc.bcm.edu	hg19	12	117726019	117726019	+	Silent	SNP	C	C	A	rs368611180	alternate_allele	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	NOS1,NS,carcinoma,0,1	NOS1	NM_000620	exon5	c.G987T	p.T329T	GCATCCCGTTTCC	.	44.0	2.0	35.0	0.0	.	240	.	.	Atlas-SNP
XPO4	64328	hgsc.bcm.edu	hg19	13	21375110	21375110	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	XPO4	NM_022459	exon14	c.A1837G	p.R613G	AAACTCTGAGAAT	.	89.0	4.0	90.0	0.0	.	153	.	.	Atlas-SNP
SKA3	221150	hgsc.bcm.edu	hg19	13	21750551	21750551	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	SKA3,NS,carcinoma,0,1	SKA3	NM_145061	exon1	c.G66A	p.T22T	CCGGGCCGTCTCG	.	16.0	2.0	22.0	0.0	.	76	.	.	Atlas-SNP
EFHA1	221154	hgsc.bcm.edu	hg19	13	22140947	22140947	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	EFHA1	NM_152726	exon2	c.A347G	p.E116G	ATTTGCTCAAACA	.	80.0	4.0	57.0	0.0	.	33	.	.	Atlas-SNP
BRCA2	675	hgsc.bcm.edu	hg19	13	32937423	32937423	+	Missense_Mutation	SNP	C	C	T	rs80359048	bycluster	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	BRCA2_ENST00000544455,NS,carcinoma,0,2	BRCA2	NM_000059	exon18	c.C8084T	p.S2695L	TAATTTCATTGAG	.	124.0	5.0	98.0	0.0	.	812	.	.	Atlas-SNP
LHFP	10186	hgsc.bcm.edu	hg19	13	40175086	40175086	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	LHFP,NS,carcinoma,0,1	LHFP	NM_005780	exon2	c.G268A	p.G90S	CCAGGCCGGTCAC	.	71.0	3.0	56.0	0.0	.	31	.	.	Atlas-SNP
PHF11	51131	hgsc.bcm.edu	hg19	13	50080776	50080776	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PHF11	NM_001040443	exon2	c.T100C	p.F34L	GGTGTCTTTCAGG	.	54.0	4.0	45.0	0.0	.	20	.	.	Atlas-SNP
NEK3	4752	hgsc.bcm.edu	hg19	13	52718058	52718058	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	NEK3	NM_002498	exon10	c.G869A	p.R290K	TTTTTTCTTGGTG	.	112.0	6.0	80.0	0.0	.	41	.	.	Atlas-SNP
GPC5	2262	hgsc.bcm.edu	hg19	13	92380785	92380785	+	Splice_Site	SNP	G	G	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	GPC5,NS,carcinoma,0,1	GPC5	NM_004466	exon4	c.1021-1G>T	.	TTAAAAGGTAAAT	.	71.0	3.0	48.0	0.0	.	140	.	.	Atlas-SNP
OR11G2	390439	hgsc.bcm.edu	hg19	14	20666182	20666182	+	Missense_Mutation	SNP	G	G	A	rs77471263	bycluster	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	OR11G2	NM_001005503	exon1	c.G688A	p.G230S	AAAAAAGGCCCTG	.	322.0	26.0	229.0	0.0	.	73	.	.	Atlas-SNP
OR11G2	390439	hgsc.bcm.edu	hg19	14	20666184	20666184	+	Silent	SNP	C	C	G	rs74538160	bycluster	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	OR11G2	NM_001005503	exon1	c.C690G	p.G230G	AAAAGGCCCTGTG	.	316.0	15.0	223.0	0.0	.	73	.	.	Atlas-SNP
ARHGEF40	55701	hgsc.bcm.edu	hg19	14	21555549	21555549	+	Silent	SNP	G	G	A	rs373398882		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	ARHGEF40_ENST00000298694,NS,carcinoma,0,1	ARHGEF40	NM_018071	exon21	c.G4314A	p.S1438S	CCTTTCGCCGGGA	.	14.0	2.0	18.0	1.0	.	84	.	.	Atlas-SNP
ABHD4	63874	hgsc.bcm.edu	hg19	14	23072501	23072501	+	Nonsense_Mutation	SNP	C	C	T	rs148116289		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	ABHD4,colon,carcinoma,0,1	ABHD4	NM_022060	exon3	c.C319T	p.R107X	TTCGGGCGAAGCT	.	87.0	4.0	53.0	0.0	.	30	.	C|1.000;T|0.000	Atlas-SNP
ACIN1	22985	hgsc.bcm.edu	hg19	14	23548777	23548777	+	Silent	SNP	T	T	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ACIN1	NM_001164814	exon6	c.A1941T	p.S647S	TGATGCTGAACGA	.	240.0	15.0	148.0	0.0	.	147	.	.	Atlas-SNP
ACIN1	22985	hgsc.bcm.edu	hg19	14	23549875	23549875	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ACIN1	NM_001164814	exon6	c.A843T	p.E281D	ATCATCTTCTTCC	.	210.0	10.0	141.0	0.0	.	147	.	.	Atlas-SNP
ACIN1	22985	hgsc.bcm.edu	hg19	14	23549881	23549881	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ACIN1	NM_001164814	exon6	c.G837A	p.E279E	TTCTTCCTCCTCC	.	148.0	20.0	86.0	0.0	.	147	.	.	Atlas-SNP
ACIN1	22985	hgsc.bcm.edu	hg19	14	23549902	23549902	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ACIN1	NM_001164814	exon6	c.A816G	p.E272E	CTCTTCTTCCTCC	.	182.0	11.0	118.0	0.0	.	147	.	.	Atlas-SNP
PPP2R3C	55012	hgsc.bcm.edu	hg19	14	35577440	35577440	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PPP2R3C	NM_017917	exon5	c.A407T	p.Q136L	AAAAATTGCCTAA	.	102.0	17.0	53.0	0.0	.	44	.	.	Atlas-SNP
MAP4K5	11183	hgsc.bcm.edu	hg19	14	50923302	50923302	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	MAP4K5	NM_006575	exon14	c.T947C	p.I316T	CGAATGATTGCAT	.	127.0	7.0	64.0	0.0	.	48	.	.	Atlas-SNP
WDHD1	11169	hgsc.bcm.edu	hg19	14	55467661	55467661	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	WDHD1	NM_007086	exon9	c.G743A	p.G248D	ATACTACCTGCAG	.	306.0	128.0	207.0	0.0	.	82	.	.	Atlas-SNP
SNAPC1	6617	hgsc.bcm.edu	hg19	14	62233751	62233751	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SNAPC1	NM_003082	exon2	c.A286G	p.K96E	AAACAAAAGGTAA	.	86.0	4.0	97.0	0.0	.	32	.	.	Atlas-SNP
NEK9	91754	hgsc.bcm.edu	hg19	14	75590877	75590877	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	NEK9	NM_033116	exon2	c.A269G	p.E90G	TCCTTCTCAGACA	.	133.0	6.0	125.0	0.0	.	64	.	.	Atlas-SNP
DICER1	23405	hgsc.bcm.edu	hg19	14	95556981	95556981	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	DICER1	NM_030621	exon28	c.G5623A	p.D1875N	TCCCGTCGTAAGT	.	326.0	118.0	211.0	0.0	.	181	.	.	Atlas-SNP
ZNF839	55778	hgsc.bcm.edu	hg19	14	102798159	102798159	+	Silent	SNP	G	G	A	rs368513189		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	ZNF839,NS,carcinoma,0,1	ZNF839	NM_018335	exon3	c.G1392A	p.S464S	GGCGTCGCCAAGC	.	38.0	3.0	24.0	0.0	.	41	.	.	Atlas-SNP
CEP170B	283638	hgsc.bcm.edu	hg19	14	105360106	105360106	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	KIAA0284_ENST00000414716,NS,carcinoma,0,2	.	NM_001112726	exon16	c.C4191T	p.F1397F	GATCTTCGATAAC	.	45.0	3.0	24.0	0.0	.	.	.	.	Atlas-SNP
GPR132	29933	hgsc.bcm.edu	hg19	14	105517686	105517686	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	GPR132	NM_013345	exon4	c.T788A	p.L263H	TTGACGAGGAGAA	.	193.0	41.0	59.0	0.0	.	40	.	.	Atlas-SNP
BTBD6	90135	hgsc.bcm.edu	hg19	14	105716119	105716119	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	BTBD6	NM_033271	exon5	c.G568A	p.V190I	GCCTGCGTCCTGC	.	99.0	31.0	50.0	0.0	.	24	.	.	Atlas-SNP
OCA2	4948	hgsc.bcm.edu	hg19	15	28230328	28230328	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	OCA2,NS,carcinoma,0,1	OCA2	NM_000275	exon13	c.C1246T	p.R416W	AGAGCCGGTATGC	.	40.0	3.0	50.0	0.0	.	173	.	.	Atlas-SNP
TMEM87A	25963	hgsc.bcm.edu	hg19	15	42556385	42556385	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	TMEM87A	NM_001110503	exon4	c.T308G	p.L103W	AAATACAACTCTA	.	220.0	69.0	211.0	0.0	.	56	.	.	Atlas-SNP
ZNF609	23060	hgsc.bcm.edu	hg19	15	64967011	64967011	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ZNF609	NM_015042	exon4	c.T1958A	p.L653Q	AGAGCCTAAAGTC	.	107.0	5.0	90.0	0.0	.	106	.	.	Atlas-SNP
TMC3	342125	hgsc.bcm.edu	hg19	15	81625157	81625157	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	TMC3	NM_001080532	exon22	c.C2906A	p.A969D	TGAGGAGCCCGAC	.	72.0	18.0	47.0	0.0	.	112	.	.	Atlas-SNP
RAB40C	57799	hgsc.bcm.edu	hg19	16	675504	675504	+	Missense_Mutation	SNP	G	G	A	rs141847125		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	RAB40C,NS,carcinoma,0,1	RAB40C	NM_021168	exon4	c.G337A	p.D113N	GAGATCGATGAGG	.	40.0	2.0	40.0	0.0	.	32	.	G|1.000;A|0.000	Atlas-SNP
XYLT1	64131	hgsc.bcm.edu	hg19	16	17211760	17211760	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	XYLT1	NM_022166	exon11	c.T2300C	p.V767A	ATACCCACCGGCT	.	144.0	7.0	154.0	0.0	.	147	.	.	Atlas-SNP
ARHGAP17	55114	hgsc.bcm.edu	hg19	16	24955110	24955110	+	Missense_Mutation	SNP	C	C	T	rs149340407	alternate_allele	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	ARHGAP17_ENST00000289968,NS,carcinoma,0,2	ARHGAP17	NM_001006634	exon15	c.G1315A	p.D439N	ACCAGTCGGCATG	.	74.0	5.0	89.0	1.0	.	138	.	C|1.000;A|0.000	Atlas-SNP
SULT1A2	6799	hgsc.bcm.edu	hg19	16	28606943	28606943	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SULT1A2	NM_001054	exon3	c.G202A	p.E68K	ACTTTTCCAGGTC	.	121.0	47.0	99.0	0.0	.	27	.	.	Atlas-SNP
SPNS1	83985	hgsc.bcm.edu	hg19	16	28986619	28986619	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	SPNS1,NS,carcinoma,0,1	SPNS1	NM_001142451	exon1	c.C147T	p.R49R	GCAGCGCATCACC	.	46.0	2.0	42.0	0.0	.	47	.	.	Atlas-SNP
SRCAP	10847	hgsc.bcm.edu	hg19	16	30750366	30750366	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SRCAP	NM_006662	exon34	c.C9005G	p.P3002R	CGTCCCCACCCAA	.	84.0	6.0	54.0	0.0	.	298	.	.	Atlas-SNP
RLTPR	146206	hgsc.bcm.edu	hg19	16	67686234	67686234	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	RLTPR	NM_001013838	exon27	c.A2809G	p.K937E	GAGGAGAAGGAGA	.	10.0	4.0	15.0	0.0	.	124	.	.	Atlas-SNP
EDC4	23644	hgsc.bcm.edu	hg19	16	67912905	67912905	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	EDC4,colon,carcinoma,0,1	EDC4	NM_014329	exon12	c.G1333A	p.A445T	GGCCACGCCTGCT	.	60.0	3.0	31.0	0.0	.	101	.	.	Atlas-SNP
CTRL	1506	hgsc.bcm.edu	hg19	16	67964673	67964673	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CTRL	NM_001907	exon4	c.C274T	p.R92X	ATGATCGGTCATA	.	80.0	4.0	86.0	0.0	.	11	.	.	Atlas-SNP
COG4	25839	hgsc.bcm.edu	hg19	16	70543864	70543864	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	COG4,colon,carcinoma,0,1	COG4	NM_015386	exon6	c.A799G	p.R267G	CAGCTCTCCGATC	.	66.0	3.0	83.0	0.0	.	64	.	.	Atlas-SNP
MON1B	22879	hgsc.bcm.edu	hg19	16	77227419	77227419	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	MON1B,colon,carcinoma,0,1	MON1B	NM_014940	exon3	c.C220T	p.R74W	ACCTCTCGGCTCT	.	44.0	3.0	54.0	0.0	.	55	.	.	Atlas-SNP
SENP3	26168	hgsc.bcm.edu	hg19	17	7470288	7470288	+	Missense_Mutation	SNP	A	A	G	rs76586164	bycluster	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SENP3	NM_015670	exon8	c.A1307G	p.K436R	TACCAAAGGGTTA	.	155.0	14.0	178.0	0.0	.	18	.	A|0.500;G|0.500	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7578478	7578478	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	TP53_ENST00000545858,NS,adenocarcinoma,-1,2	TP53	NM_000546	exon5	c.C452A	p.P151H	GGCGGGGGTGTGG	.	68.0	17.0	61.0	0.0	.	33396	.	.	Atlas-SNP
DNAH2	146754	hgsc.bcm.edu	hg19	17	7674169	7674169	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	DNAH2	NM_020877	exon26	c.A4280G	p.D1427G	ATGTGGACCACTG	.	122.0	6.0	113.0	0.0	.	498	.	.	Atlas-SNP
MYH10	4628	hgsc.bcm.edu	hg19	17	8480586	8480586	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	MYH10	NM_005964	exon5	c.T601C	p.S201P	TATGTGAAGAAGC	.	87.0	4.0	89.0	0.0	.	148	.	.	Atlas-SNP
KIAA0100	9703	hgsc.bcm.edu	hg19	17	26961982	26961982	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	KIAA0100,right_upper_lobe,carcinoma,0,1	KIAA0100	NM_014680	exon16	c.G2623T	p.E875X	AGTGCTCAACCTT	.	89.0	4.0	71.0	1.0	.	175	.	.	Atlas-SNP
NSRP1	84081	hgsc.bcm.edu	hg19	17	28499575	28499575	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	NSRP1	NM_032141	exon3	c.A130G	p.S44G	AGTGAAAGCCTTC	.	96.0	4.0	65.0	0.0	.	49	.	.	Atlas-SNP
MYO19	80179	hgsc.bcm.edu	hg19	17	34856750	34856750	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	MYO19_ENST00000431794,NS,carcinoma,0,2	MYO19	NM_001163735	exon24	c.G2297A	p.R766H	ATGCAGCGGGCAC	.	44.0	2.0	67.0	1.0	.	130	.	.	Atlas-SNP
CACNB1	782	hgsc.bcm.edu	hg19	17	37341067	37341067	+	Silent	SNP	G	G	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CACNB1	NM_199247	exon8	c.C834A	p.I278I	CACCAGGATGATG	.	131.0	23.0	89.0	0.0	.	89	.	.	Atlas-SNP
KRTAP29-1	100533177	hgsc.bcm.edu	hg19	17	39459053	39459053	+	Silent	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	KRTAP29-1	NM_001257309	exon1	c.C51T	p.P17P	GATGGTGGGCACA	.	58.0	13.0	57.0	0.0	.	2	.	.	Atlas-SNP
KANSL1	284058	hgsc.bcm.edu	hg19	17	44249469	44249469	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	KIAA1267,NS,neuroblastoma,0,1	.	NM_001193466	exon2	c.A41G	p.E14G	TGTGCTTCAGCTG	.	65.0	3.0	32.0	1.0	.	.	.	.	Atlas-SNP
CDC27	996	hgsc.bcm.edu	hg19	17	45232068	45232068	+	Silent	SNP	A	A	G	rs74710570	bycluster	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CDC27	NM_001114091	exon8	c.T927C	p.D309D	TGGCACATCAATT	.	101.0	5.0	50.0	0.0	.	337	.	.	Atlas-SNP
LRRC46	90506	hgsc.bcm.edu	hg19	17	45914305	45914305	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	LRRC46	NM_033413	exon8	c.C785T	p.P262L	CAGTCCCTGAGGC	.	114.0	6.0	86.0	0.0	.	25	.	.	Atlas-SNP
EME1	146956	hgsc.bcm.edu	hg19	17	48452982	48452982	+	Missense_Mutation	SNP	C	C	A	rs75511911		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	EME1	NM_152463	exon2	c.C413A	p.P138H	AAAAGCCCTTTCC	.	172.0	8.0	129.0	0.0	.	39	.	.	Atlas-SNP
MYCBPAP	84073	hgsc.bcm.edu	hg19	17	48603556	48603556	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	MYCBPAP	NM_032133	exon14	c.C2226T	p.S742S	GGACAGCACCAAG	.	65.0	22.0	55.0	0.0	.	135	.	.	Atlas-SNP
SCN4A	6329	hgsc.bcm.edu	hg19	17	62045610	62045610	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SCN4A	NM_000334	exon6	c.A809G	p.Q270R	AAGAGCTGCAGTC	.	186.0	8.0	143.0	0.0	.	205	.	.	Atlas-SNP
ARSG	22901	hgsc.bcm.edu	hg19	17	66352820	66352820	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ARSG	NM_001267727	exon6	c.A579G	p.R193R	TCAAAGAGACTGT	.	111.0	5.0	81.0	0.0	.	55	.	.	Atlas-SNP
FAM20A	54757	hgsc.bcm.edu	hg19	17	66538299	66538299	+	Silent	SNP	G	G	A	rs367996001		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	FAM20A,NS,carcinoma,0,1	FAM20A	NM_017565	exon7	c.C936T	p.N312N	GCACACGTTGCTC	.	48.0	2.0	37.0	0.0	.	35	.	.	Atlas-SNP
ABCA10	10349	hgsc.bcm.edu	hg19	17	67190119	67190119	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.,1	ABCA10	NM_080282	exon14	c.A1357T	p.I453F	TATAAATAGTGGC	.	18.0	9.0	0.0	0.0	.	209	.	.	Atlas-SNP
KIF19	124602	hgsc.bcm.edu	hg19	17	72348385	72348385	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	KIF19	NM_153209	exon14	c.T1886C	p.L629P	AGCGCCTGGAAGA	.	51.0	4.0	76.0	0.0	.	102	.	.	Atlas-SNP
FBF1	85302	hgsc.bcm.edu	hg19	17	73915902	73915902	+	Missense_Mutation	SNP	C	C	T	rs374900201		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	FBF1	NM_001080542	exon19	c.G1940A	p.R647Q	TCTCTCCGGAGCC	.	86.0	4.0	74.0	0.0	.	48	.	.	Atlas-SNP
TEN1	100134934	hgsc.bcm.edu	hg19	17	73996268	73996268	+	Silent	SNP	G	G	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	TEN1	NM_001113324	exon4	c.G297T	p.G99G	GGAGGGGATGAAC	.	67.0	18.0	46.0	0.0	.	4	.	.	Atlas-SNP
ENPP7	339221	hgsc.bcm.edu	hg19	17	77704969	77704969	+	Missense_Mutation	SNP	C	C	T	rs193920826		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	ENPP7,NS,adenoma,0,1	ENPP7	NM_178543	exon1	c.C68T	p.P23L	GAGCACCGGTACA	.	42.0	3.0	45.0	0.0	.	63	.	.	Atlas-SNP
B3GNTL1	146712	hgsc.bcm.edu	hg19	17	80972391	80972391	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	B3GNTL1	NM_001009905	exon5	c.A347G	p.D116G	ATGACGTCATCCT	.	118.0	5.0	73.0	0.0	.	40	.	.	Atlas-SNP
PTPRM	5797	hgsc.bcm.edu	hg19	18	8384641	8384641	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PTPRM	NM_001105244	exon30	c.A4001G	p.E1334G	TGGAAGAGGACAT	.	128.0	6.0	94.0	0.0	.	185	.	.	Atlas-SNP
SOGA2	23255	hgsc.bcm.edu	hg19	18	8813094	8813094	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	.	NM_015210	exon12	c.G2722C	p.V908L	AGCCTGGTCATGG	.	156.0	14.0	135.0	0.0	.	.	.	.	Atlas-SNP
FHOD3	80206	hgsc.bcm.edu	hg19	18	34298575	34298575	+	Missense_Mutation	SNP	G	G	A	rs369061380		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	FHOD3,colon,carcinoma,0,1	FHOD3	NM_025135	exon16	c.G2789A	p.R930H	ACCGACGCTGCAG	.	67.0	3.0	68.0	0.0	.	210	.	.	Atlas-SNP
SMAD2	4087	hgsc.bcm.edu	hg19	18	45375012	45375012	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SMAD2	NM_005901	exon8	c.A831G	p.I277M	ATATGCTATCGAA	.	73.0	4.0	88.0	0.0	.	85	.	.	Atlas-SNP
LPPR3	0	hgsc.bcm.edu	hg19	19	814544	814544	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	.	NM_024888	exon6	c.T805C	p.F269L	TGGCAAAGGCGAA	.	32.0	4.0	32.0	0.0	.	.	.	.	Atlas-SNP
STXBP2	6813	hgsc.bcm.edu	hg19	19	7707395	7707395	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	STXBP2,colon,carcinoma,0,1	STXBP2	NM_001272034	exon10	c.G908A	p.R303H	AGCTTCGCCACAT	.	91.0	4.0	70.0	0.0	.	63	.	.	Atlas-SNP
ZNF317	57693	hgsc.bcm.edu	hg19	19	9271064	9271064	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ZNF317	NM_020933	exon7	c.A743G	p.K248R	GGGAGAAGCCTTA	.	93.0	4.0	56.0	0.0	.	61	.	.	Atlas-SNP
CALR	811	hgsc.bcm.edu	hg19	19	13054664	13054664	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CALR	NM_004343	exon9	c.T1191C	p.D397D	GGAGGATGAGGAG	.	136.0	9.0	127.0	0.0	.	31	.	.	Atlas-SNP
PIK3R2	5296	hgsc.bcm.edu	hg19	19	18266738	18266738	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PIK3R2	NM_005027	exon2	c.C49T	p.R17W	TTCCGCCGGGAGC	.	16.0	7.0	17.0	0.0	.	48	.	.	Atlas-SNP
ZNF714	148206	hgsc.bcm.edu	hg19	19	21299777	21299777	+	Missense_Mutation	SNP	G	G	A	rs111443257	bycluster	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ZNF714	NM_182515	exon5	c.G307A	p.E103K	GGTTATGAACTAA	.	304.0	18.0	205.0	0.0	.	121	.	.	Atlas-SNP
ZNF429	353088	hgsc.bcm.edu	hg19	19	21720474	21720474	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ZNF429	NM_001001415	exon4	c.A1619T	p.E540V	AATGTGAAGAATG	.	42.0	10.0	32.0	0.0	.	338	.	.	Atlas-SNP
ZNF726	730087	hgsc.bcm.edu	hg19	19	24115505	24115505	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	.	NM_001244038	exon4	c.C587T	p.T196I	TATATACTACAGA	.	46.0	12.0	46.0	0.0	.	.	.	.	Atlas-SNP
ZNF536	9745	hgsc.bcm.edu	hg19	19	30934614	30934614	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	ZNF536,rectum,carcinoma,0,2	ZNF536	NM_014717	exon2	c.G145A	p.E49K	TTCCCCGAGCTCC	.	47.0	2.0	58.0	0.0	.	424	.	.	Atlas-SNP
ZNF507	22847	hgsc.bcm.edu	hg19	19	32873386	32873386	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ZNF507	NM_001136156	exon6	c.G2374C	p.G792R	CTGTGTGGGTATG	.	196.0	37.0	178.0	0.0	.	92	.	.	Atlas-SNP
ZNF793	390927	hgsc.bcm.edu	hg19	19	38023312	38023312	+	Missense_Mutation	SNP	C	C	T	rs201422659		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	ZNF793_ENST00000445217,colon,carcinoma,0,1	ZNF793	NM_001013659	exon6	c.C70T	p.R24W	TGGCACCGGCTGA	.	93.0	5.0	83.0	1.0	.	50	.	.	Atlas-SNP
ZC3H4	23211	hgsc.bcm.edu	hg19	19	47575245	47575245	+	Missense_Mutation	SNP	C	C	G	rs381976	bycluster;byhapmap	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ZC3H4	NM_015168	exon13	c.G1936C	p.A646P	TGTCTGCGTGCAT	.	67.0	15.0	52.0	0.0	.	96	.	C|1.000;|0.000	Atlas-SNP
ZC3H4	23211	hgsc.bcm.edu	hg19	19	47575267	47575267	+	Silent	SNP	C	C	G	rs200656728	bycluster;by1000genomes;alternate_allele	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ZC3H4	NM_015168	exon13	c.G1914C	p.P638P	CATGTCCGGGTGC	.	65.0	6.0	56.0	0.0	.	96	.	C|1.000;A|0.000	Atlas-SNP
EHD2	30846	hgsc.bcm.edu	hg19	19	48244338	48244338	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	EHD2,NS,carcinoma,0,1	EHD2	NM_014601	exon6	c.T1281C	p.P427P	GGGACCTGACGAG	.	16.0	2.0	28.0	0.0	.	59	.	.	Atlas-SNP
SPACA4	171169	hgsc.bcm.edu	hg19	19	49110448	49110448	+	Silent	SNP	C	C	T	rs371143349		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	SPACA4,NS,carcinoma,0,2	SPACA4	NM_133498	exon1	c.C213T	p.C71C	CAGCTGCGGCCTT	.	40.0	2.0	49.0	1.0	.	9	.	.	Atlas-SNP
ALDH16A1	126133	hgsc.bcm.edu	hg19	19	49965915	49965915	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	ALDH16A1,bladder,carcinoma,0,2	ALDH16A1	NM_153329	exon8	c.G1001A	p.R334Q	GTGGCCGAGGGCT	.	39.0	2.0	67.0	0.0	.	54	.	.	Atlas-SNP
SIGLECL1	284369	hgsc.bcm.edu	hg19	19	51770669	51770669	+	Silent	SNP	G	G	T	rs369648100	alternate_allele	TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	C19orf75,rectum,carcinoma,0,1	.	NM_173635	exon5	c.G453T	p.A151A	TGCAGCGATCAGA	.	64.0	3.0	44.0	0.0	.	.	.	.	Atlas-SNP
ZNF816	125893	hgsc.bcm.edu	hg19	19	53453990	53453990	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ZNF816	NM_001202457	exon4	c.T1038C	p.C346C	CTTGCCACACTCA	.	109.0	5.0	82.0	0.0	.	73	.	.	Atlas-SNP
PEG3	5178	hgsc.bcm.edu	hg19	19	57334962	57334962	+	Silent	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PEG3	NM_001146184	exon4	c.C480T	p.F160F	ACCACTGAAAGAA	.	70.0	15.0	47.0	0.0	.	414	.	.	Atlas-SNP
ZNF814	730051	hgsc.bcm.edu	hg19	19	58385536	58385536	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ZNF814	NM_001144989	exon3	c.T1222C	p.Y408H	ATTCATAATGTTT	.	201.0	12.0	118.0	0.0	.	93	.	.	Atlas-SNP
DOK5	55816	hgsc.bcm.edu	hg19	20	53226977	53226977	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	DOK5	NM_018431	exon6	c.A650C	p.E217A	ACGGGGAGGCCAT	.	171.0	20.0	143.0	0.0	.	54	.	.	Atlas-SNP
ZNF831	128611	hgsc.bcm.edu	hg19	20	57767832	57767832	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	ZNF831,NS,carcinoma,0,2	ZNF831	NM_178457	exon1	c.C1758T	p.D586D	CACAGACGCAAAG	.	34.0	2.0	36.0	0.0	.	287	.	.	Atlas-SNP
PCMTD2	55251	hgsc.bcm.edu	hg19	20	62904798	62904798	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PCMTD2	NM_018257	exon6	c.T931C	p.C311R	AACAGCTGTGAAG	.	59.0	4.0	43.0	0.0	.	35	.	.	Atlas-SNP
ADAMTS1	9510	hgsc.bcm.edu	hg19	21	28212774	28212774	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ADAMTS1	NM_006988	exon5	c.T1486C	p.S496P	GTTTGGAGTCCTC	.	70.0	4.0	64.0	0.0	.	131	.	.	Atlas-SNP
LTN1	26046	hgsc.bcm.edu	hg19	21	30339226	30339226	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	LTN1,colon,carcinoma,0,1	LTN1	NM_015565	exon10	c.G1725A	p.L575L	TGACTTCAATGAG	.	110.0	5.0	104.0	0.0	.	141	.	.	Atlas-SNP
SYNJ1	8867	hgsc.bcm.edu	hg19	21	34003927	34003927	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SYNJ1	NM_003895	exon32	c.T4217A	p.L1406X	GAACTCAAAACAT	.	135.0	8.0	124.0	0.0	.	253	.	.	Atlas-SNP
KCNJ15	3772	hgsc.bcm.edu	hg19	21	39671581	39671581	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	KCNJ15,NS,carcinoma,0,1	KCNJ15	NM_002243	exon4	c.G398A	p.C133Y	GAGTCCGTTCCAT	.	100.0	4.0	92.0	0.0	.	43	.	.	Atlas-SNP
DSCAM	1826	hgsc.bcm.edu	hg19	21	42064802	42064802	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.,1	DSCAM	NM_001271534	exon3	c.C442A	p.P148T	AGGAGGGGATAAT	.	52.0	3.0	52.0	0.0	.	347	.	.	Atlas-SNP
TRAPPC10	7109	hgsc.bcm.edu	hg19	21	45523364	45523364	+	Silent	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	TRAPPC10	NM_003274	exon23	c.G3732A	p.L1244L	AGTCCTGGTCATC	.	58.0	4.0	106.0	0.0	.	109	.	.	Atlas-SNP
FAM207A	85395	hgsc.bcm.edu	hg19	21	46380029	46380029	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	.	NM_058190	exon3	c.A298G	p.T100A	GCCAAGACCGTTT	.	62.0	4.0	69.0	0.0	.	.	.	.	Atlas-SNP
MCM3AP	8888	hgsc.bcm.edu	hg19	21	47676785	47676785	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	MCM3AP,NS,carcinoma,0,1	MCM3AP	NM_003906	exon17	c.G3850T	p.E1284X	GGCACTCTGCGCT	.	31.0	2.0	79.0	0.0	.	146	.	.	Atlas-SNP
SNAP29	9342	hgsc.bcm.edu	hg19	22	21235343	21235343	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SNAP29	NM_004782	exon3	c.A441G	p.K147K	ATTGAAAGAAGCT	.	84.0	4.0	101.0	0.0	.	22	.	.	Atlas-SNP
MMP11	4320	hgsc.bcm.edu	hg19	22	24124435	24124435	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	MMP11,NS,carcinoma,0,1	MMP11	NM_005940	exon7	c.C1098T	p.D366D	GTACGACGGTGAA	.	39.0	2.0	39.0	0.0	.	53	.	.	Atlas-SNP
SMARCB1	6598	hgsc.bcm.edu	hg19	22	24175869	24175869	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	SMARCB1,brain,primitive_neuroectodermal_tumour-medulloblastoma,0,1	SMARCB1	NM_003073	exon8	c.G1097A	p.R366H	AGATCCGCGACCA	.	33.0	2.0	38.0	0.0	.	586	.	.	Atlas-SNP
GGT1	2678	hgsc.bcm.edu	hg19	22	25023537	25023537	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	GGT1,NS,carcinoma,0,1	GGT1	NM_013430	exon12	c.G1159A	p.V387I	TCTGTCGTCGCAG	.	43.0	2.0	52.0	0.0	.	68	.	.	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	hg19	22	26164267	26164267	+	Silent	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	MYO18B	NM_032608	exon4	c.C384A	p.A128A	GAAGGCCCAGGAG	.	89.0	5.0	89.0	0.0	.	322	.	.	Atlas-SNP
CRYBA4	1413	hgsc.bcm.edu	hg19	22	27026346	27026346	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CRYBA4	NM_001886	exon6	c.T486C	p.Y162Y	TCAGTATGTGCTG	.	89.0	4.0	98.0	0.0	.	33	.	.	Atlas-SNP
HMGXB4	10042	hgsc.bcm.edu	hg19	22	35660647	35660647	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	HMGXB4,NS,carcinoma,0,1	HMGXB4	NM_001003681	exon5	c.C266T	p.S89L	ATATTTCGTCTTT	.	42.0	2.0	50.0	0.0	.	52	.	.	Atlas-SNP
CELSR1	9620	hgsc.bcm.edu	hg19	22	46794440	46794440	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CELSR1	NM_014246	exon11	c.G5507T	p.G1836V	CGGAATCCACGGC	.	71.0	22.0	97.0	0.0	.	242	.	.	Atlas-SNP
PLCXD1	55344	hgsc.bcm.edu	hg19	X	215776	215776	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	PLCXD1	NM_018390	exon7	c.T746C	p.V249A	TGTTCGTGGCCGG	.	76.0	4.0	123.0	0.0	.	18	.	.	Atlas-SNP
MXRA5	25878	hgsc.bcm.edu	hg19	X	3241431	3241431	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	MXRA5	NM_015419	exon5	c.T2295A	p.F765L	AGATTCAAACACT	.	210.0	81.0	280.0	0.0	.	815	.	.	Atlas-SNP
SUPT20HL2	170067	hgsc.bcm.edu	hg19	X	24329896	24329896	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	.	NM_001136233	exon1	c.G1537C	p.A513P	GAGCAGCAGCAGG	.	177.0	25.0	177.0	0.0	.	.	.	.	Atlas-SNP
KCND1	3750	hgsc.bcm.edu	hg19	X	48823420	48823420	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	KCND1	NM_004979	exon2	c.A1215G	p.P405P	AATGACTGGCACA	.	88.0	6.0	82.0	0.0	.	63	.	.	Atlas-SNP
TAF1	6872	hgsc.bcm.edu	hg19	X	70607151	70607151	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	TAF1	NM_004606	exon15	c.A2327G	p.H776R	ATCTTCATAAGAT	.	235.0	86.0	256.0	0.0	.	439	.	.	Atlas-SNP
GLA	2717	hgsc.bcm.edu	hg19	X	100658874	100658874	+	Silent	SNP	G	G	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	GLA	NM_000169	exon2	c.C294A	p.P98P	TCTTTGGGGAGCC	.	99.0	36.0	135.0	0.0	.	43	.	.	Atlas-SNP
COL4A6	1288	hgsc.bcm.edu	hg19	X	107418370	107418370	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	COL4A6	NM_001847	exon30	c.A2909G	p.D970G	CCTTTGTCTCCTT	.	106.0	5.0	122.0	0.0	.	270	.	.	Atlas-SNP
RBMXL3	139804	hgsc.bcm.edu	hg19	X	114424946	114424946	+	Silent	SNP	C	C	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	RBMXL3	NM_001145346	exon1	c.C942T	p.A314A	CGCTGCCCCTGTG	.	130.0	11.0	144.0	0.0	.	83	.	.	Atlas-SNP
FATE1	89885	hgsc.bcm.edu	hg19	X	150884642	150884642	+	Silent	SNP	A	A	G	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	FATE1	NM_033085	exon1	c.A51G	p.A17A	CCTGGCAGAAGAA	.	146.0	40.0	175.0	0.0	.	30	.	.	Atlas-SNP
GABRQ	55879	hgsc.bcm.edu	hg19	X	151815446	151815446	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	GABRQ	NM_018558	exon4	c.A344C	p.K115T	CTTGGAAAGATTC	.	149.0	61.0	179.0	0.0	.	131	.	.	Atlas-SNP
L1CAM	3897	hgsc.bcm.edu	hg19	X	153129904	153129904	+	Silent	SNP	T	T	C	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	L1CAM	NM_000425	exon24	c.A3195G	p.P1065P	ATACTGTGGCGAA	.	97.0	4.0	80.0	0.0	.	189	.	.	Atlas-SNP
GJB1	2705	hgsc.bcm.edu	hg19	X	70445066	70445069	+	RNA	DEL	TGTT	TGTT	-	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	TGTT	TGTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	GJB1	.	.	.	.	.	.	118.0	42.0	123.0	0.0	.	21	.	.	Atlas-Indel,Pindel
GRAMD1B	57476	hgsc.bcm.edu	hg19	11	123489856	123489856	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	GRAMD1B	NM_020716	exon19	c.2050delT	p.S684fs	.	.	50.0	14.0	49.0	0.0	.	122	.	.	Atlas-Indel,Pindel
HSPG2	3339	hgsc.bcm.edu	hg19	1	22159859	22159872	+	Frame_Shift_Del	DEL	AAGTAGGGCACCAC	AAGTAGGGCACCAC	-	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	AAGTAGGGCACCAC	AAGTAGGGCACCAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	HSPG2	NM_005529	exon80	c.10985_10998del	p.3662_3666del	.	.	106.0	10.0	83.0	0.0	.	311	.	.	Atlas-Indel,Pindel
CUL1	8454	hgsc.bcm.edu	hg19	7	148456419	148456422	+	Frame_Shift_Del	DEL	CTGT	CTGT	-	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	CTGT	CTGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	CUL1	NM_003592	exon5	c.506_509del	p.169_170del	.	.	180.0	29.0	123.0	0.0	.	80	.	.	Atlas-Indel,Pindel
BIRC6	57448	hgsc.bcm.edu	hg19	2	32613893	32613893	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	BIRC6	NM_016252	exon4	c.720delG	p.K240fs	.	.	171.0	30.0	168.0	0.0	.	838	.	.	Atlas-Indel,Pindel
ODF2	4957	hgsc.bcm.edu	hg19	9	131256869	131256872	+	Frame_Shift_Del	DEL	TGAG	TGAG	-	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	TGAG	TGAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	ODF2_ENST00000372814,NS,carcinoma,0,3	ODF2	NM_153435	exon17	c.2024_2027del	p.675_676del	.	.	102.0	22.0	63.0	0.0	.	227	.	.	Atlas-Indel,Pindel
GPR132	29933	hgsc.bcm.edu	hg19	14	105517685	105517686	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	GPR132	NM_013345	exon4	c.789_790insA	p.L263fs	.	.	193.0	39.0	59.0	0.0	.	40	.	.	Atlas-INDEL
SUPT20HL2	170067	hgsc.bcm.edu	hg19	X	24329882	24329884	+	In_Frame_Del	DEL	TAA	TAA	-	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	TAA	TAA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	.	NM_001136233	exon1	c.1550_1552del	p.517_518del	.	.	162.0	10.0	170.0	0.0	.	.	.	.	Atlas-INDEL
ZNF512B	57473	hgsc.bcm.edu	hg19	20	62597492	62597583	+	Frame_Shift_Del	DEL	GACCTGGGACGAGCCCCCATACCTTTTCTTACCACTGTTCCTCCCCGACCTGGGACGAGCCCCCATACCTTTTCTTACCACTGTTCCTCCCT	GACCTGGGACGAGCCCCCATACCTTTTCTTACCACTGTTCCTCCCCGACCTGGGACGAGCCCCCATACCTTTTCTTACCACTGTTCCTCCCT	-	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	GACCTGGGACGAGCCCCCATACCTTTTCTTACCACTGTTCCTCCCCGACCTGGGACGAGCCCCCATACCTTTTCTTACCACTGTTCCTCCCT	GACCTGGGACGAGCCCCCATACCTTTTCTTACCACTGTTCCTCCCCGACCTGGGACGAGCCCCCATACCTTTTCTTACCACTGTTCCTCCCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	ZNF512B	NM_020713	exon5	c.1012_1034del	p.338_345del	.	.	121.0	11.0	0.0	0.0	.	72	.	.	Pindel
SCFD1	23256	hgsc.bcm.edu	hg19	14	31107344	31107345	+	Frame_Shift_Ins	INS	-	-	ACTAT	novel		TCGA-BD-A3EP-01A-11D-A22F-10	TCGA-BD-A3EP-11A-12D-A22F-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	9cd66ad6-837c-48db-b3a9-ed3e2558eef5	631a4a75-d468-41a0-9bf7-693499a63901	.	SCFD1	NM_016106	exon5	c.326_327insACTAT	p.Q109fs	.	.	210.0	40.0	0.0	0.0	.	43	.	.	Pindel
