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
FBXO44	93611	hgsc.bcm.edu	hg19	1	11718615	11718615	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	FBXO44	NM_033182	exon4	c.G418A	p.D140N	GTGGTGGACCTCA	.	39.0	18.0	47.0	0.0	.	20	.	.	Atlas-SNP
CROCC	9696	hgsc.bcm.edu	hg19	1	17280833	17280833	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CROCC	NM_014675	exon22	c.G3302T	p.S1101I	CCCAGAGCCGGCA	.	71.0	31.0	58.0	0.0	.	185	.	.	Atlas-SNP
NR0B2	8431	hgsc.bcm.edu	hg19	1	27240140	27240140	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	NR0B2,NS,carcinoma,0,1	NR0B2	NM_021969	exon1	c.C292A	p.L98I	ACCCAAGCAGGAA	.	59.0	38.0	55.0	1.0	.	14	.	.	Atlas-SNP
KIAA1522	57648	hgsc.bcm.edu	hg19	1	33235646	33235646	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	KIAA1522	NM_020888	exon6	c.A866T	p.E289V	AGACAGAGGCCAT	.	64.0	24.0	50.0	0.0	.	68	.	.	Atlas-SNP
MACF1	23499	hgsc.bcm.edu	hg19	1	39929343	39929343	+	Silent	SNP	A	A	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	MACF1	NM_012090	exon91	c.A15561C	p.G5187G	GATCGGAGAGAAT	.	135.0	66.0	92.0	0.0	.	909	.	.	Atlas-SNP
ATPAF1	64756	hgsc.bcm.edu	hg19	1	47110923	47110923	+	Silent	SNP	T	T	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ATPAF1	NM_022745	exon7	c.A663G	p.L221L	AGCACATAGAAAC	.	42.0	27.0	34.0	0.0	.	19	.	.	Atlas-SNP
INADL	10207	hgsc.bcm.edu	hg19	1	62516654	62516654	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	INADL	NM_176877	exon31	c.A4049T	p.E1350V	GCACCGAACCTAT	.	42.0	20.0	48.0	0.0	.	179	.	.	Atlas-SNP
ABCA4	24	hgsc.bcm.edu	hg19	1	94510167	94510167	+	Splice_Site	SNP	A	A	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ABCA4	NM_000350	exon21	c.3050+2T>G	.	TCGCTTACTGGTG	.	86.0	31.0	79.0	0.0	.	275	.	.	Atlas-SNP
SPAG17	200162	hgsc.bcm.edu	hg19	1	118623785	118623785	+	Silent	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	SPAG17,NS,carcinoma,0,1	SPAG17	NM_206996	exon15	c.T2148C	p.D716D	TCTATTATCAGGG	.	150.0	66.0	152.0	0.0	.	263	.	.	Atlas-SNP
ITGA10	8515	hgsc.bcm.edu	hg19	1	145532113	145532113	+	Splice_Site	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ITGA10	NM_003637	exon8	c.759-2A>T	.	CTTCTCAGCACAG	.	24.0	11.0	26.0	0.0	.	131	.	.	Atlas-SNP
VPS72	6944	hgsc.bcm.edu	hg19	1	151156881	151156881	+	Silent	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	VPS72	NM_001271087	exon4	c.A474T	p.R158R	CCCCTTTCGCCGT	.	77.0	36.0	55.0	0.0	.	31	.	.	Atlas-SNP
FLAD1	80308	hgsc.bcm.edu	hg19	1	154961247	154961247	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	FLAD1	NM_025207	exon2	c.C1039A	p.P347T	CGTTTGCCCCAGG	.	71.0	25.0	41.0	0.0	.	52	.	.	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	hg19	1	158589013	158589013	+	Silent	SNP	T	T	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	SPTA1	NM_003126	exon45	c.A6529C	p.R2177R	CACACCTGGTTTC	.	107.0	39.0	108.0	0.0	.	720	.	.	Atlas-SNP
TNN	63923	hgsc.bcm.edu	hg19	1	175046732	175046732	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	TNN	NM_022093	exon2	c.G178A	p.A60T	GTTGACGCTGACC	.	96.0	49.0	77.0	0.0	.	297	.	.	Atlas-SNP
KIAA1614	57710	hgsc.bcm.edu	hg19	1	180904469	180904469	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	KIAA1614	NM_020950	exon5	c.T1424A	p.V475E	GCCAGGTGCTGAG	.	47.0	22.0	31.0	0.0	.	75	.	.	Atlas-SNP
HMCN1	83872	hgsc.bcm.edu	hg19	1	186056637	186056637	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	HMCN1	NM_031935	exon60	c.A9223T	p.T3075S	GAGGGAACTTCTG	.	113.0	44.0	85.0	0.0	.	797	.	.	Atlas-SNP
C1orf27	54953	hgsc.bcm.edu	hg19	1	186348970	186348970	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	C1orf27	NM_001164245	exon2	c.T53A	p.I18K	CAAACATAAATCT	.	203.0	82.0	120.0	0.0	.	41	.	.	Atlas-SNP
FAIM3	9214	hgsc.bcm.edu	hg19	1	207087190	207087190	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	FAIM3	NM_005449	exon2	c.A287G	p.E96G	TCACTTTCTGTCA	.	190.0	52.0	133.0	0.0	.	36	.	.	Atlas-SNP
KCNH1	3756	hgsc.bcm.edu	hg19	1	211093249	211093249	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	KCNH1	NM_172362	exon7	c.A1195T	p.S399C	CAATGCTGTACCA	.	227.0	70.0	138.0	0.0	.	199	.	.	Atlas-SNP
CDC42BPA	8476	hgsc.bcm.edu	hg19	1	227216680	227216680	+	Silent	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CDC42BPA	NM_003607	exon29	c.C4005A	p.T1335T	GTGACGGGTCTTG	.	56.0	14.0	26.0	0.0	.	528	.	.	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	hg19	1	228528927	228528927	+	Silent	SNP	C	C	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	OBSCN	NM_001271223	exon84	c.C20700A	p.V6900V	TACCGTCAGCTAC	.	72.0	17.0	38.0	0.0	.	2142	.	.	Atlas-SNP
CHML	1122	hgsc.bcm.edu	hg19	1	241799048	241799048	+	Silent	SNP	T	T	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CHML	NM_001821	exon1	c.A21C	p.T7T	AAACTCTGTGGGA	.	197.0	51.0	130.0	0.0	.	82	.	.	Atlas-SNP
MYT1L	23040	hgsc.bcm.edu	hg19	2	1843065	1843065	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	MYT1L	NM_015025	exon21	c.C2930G	p.P977R	GCCAAGGGGCACC	.	52.0	31.0	63.0	0.0	.	241	.	.	Atlas-SNP
DDX1	1653	hgsc.bcm.edu	hg19	2	15736869	15736869	+	Silent	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	DDX1	NM_004939	exon4	c.A144T	p.T48T	AGAAACAGGAAGT	.	528.0	236.0	474.0	1.0	.	70	.	.	Atlas-SNP
APOB	338	hgsc.bcm.edu	hg19	2	21236253	21236253	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	APOB	NM_000384	exon25	c.C3995G	p.S1332C	TCTCGAGATGGCA	.	56.0	20.0	59.0	0.0	.	761	.	.	Atlas-SNP
APOB	338	hgsc.bcm.edu	hg19	2	21255274	21255274	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	APOB	NM_000384	exon10	c.A1304G	p.D435G	CGCTGATCCCTCG	.	18.0	6.0	42.0	0.0	.	761	.	.	Atlas-SNP
NCOA1	8648	hgsc.bcm.edu	hg19	2	24881562	24881562	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	NCOA1	NM_147223	exon3	c.G16T	p.D6Y	CTCGGGGACAGTT	.	75.0	34.0	87.0	0.0	.	210	.	.	Atlas-SNP
PLB1	151056	hgsc.bcm.edu	hg19	2	28824137	28824137	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	PLB1	NM_153021	exon37	c.G2545A	p.D849N	CATGAAGACTGGA	.	78.0	37.0	79.0	0.0	.	255	.	.	Atlas-SNP
BIRC6	57448	hgsc.bcm.edu	hg19	2	32706429	32706429	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	BIRC6	NM_016252	exon38	c.G7450C	p.D2484H	GAAATTGACCTTG	.	215.0	110.0	210.0	0.0	.	838	.	.	Atlas-SNP
TSPYL6	388951	hgsc.bcm.edu	hg19	2	54482488	54482488	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	TSPYL6	NM_001003937	exon1	c.A801T	p.R267S	TTGGCCTCTAATC	.	95.0	49.0	74.0	0.0	.	54	.	.	Atlas-SNP
MXD1	4084	hgsc.bcm.edu	hg19	2	70165400	70165400	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	MXD1	NM_002357	exon6	c.C650T	p.A217V	ACAAGGCGTGTCT	.	79.0	33.0	71.0	0.0	.	23	.	.	Atlas-SNP
GPR45	11250	hgsc.bcm.edu	hg19	2	105858703	105858703	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	GPR45	NM_007227	exon1	c.G388A	p.V130M	ATCAGCGTGGACC	.	117.0	64.0	114.0	0.0	.	73	.	.	Atlas-SNP
UGGT1	56886	hgsc.bcm.edu	hg19	2	128870806	128870806	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	UGGT1	NM_020120	exon6	c.A670T	p.N224Y	AAAATCAATTATG	.	247.0	93.0	275.0	0.0	.	126	.	.	Atlas-SNP
TMEM163	81615	hgsc.bcm.edu	hg19	2	135260482	135260482	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	TMEM163	NM_030923	exon5	c.T545C	p.L182P	TCTGGGAGCAGCC	.	94.0	39.0	96.0	0.0	.	34	.	.	Atlas-SNP
NR4A2	4929	hgsc.bcm.edu	hg19	2	157186238	157186238	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	NR4A2	NM_006186	exon3	c.A461T	p.Q154L	TAGTTCTGGTGGA	.	88.0	39.0	75.0	0.0	.	82	.	.	Atlas-SNP
CWC22	57703	hgsc.bcm.edu	hg19	2	180851443	180851443	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CWC22	NM_020943	exon4	c.A185G	p.Y62C	CTATCATAAGAAC	.	60.0	23.0	46.0	0.0	.	62	.	.	Atlas-SNP
FSIP2	401024	hgsc.bcm.edu	hg19	2	186670102	186670102	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	FSIP2	NM_173651	exon17	c.G16336T	p.E5446X	GTATATGAACAGT	.	168.0	85.0	217.0	0.0	.	251	.	.	Atlas-SNP
DOCK10	55619	hgsc.bcm.edu	hg19	2	225652011	225652011	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	DOCK10	NM_014689	exon49	c.A5522T	p.E1841V	TGTTTCTCAAAGA	.	61.0	24.0	73.0	0.0	.	308	.	.	Atlas-SNP
THAP4	51078	hgsc.bcm.edu	hg19	2	242542471	242542471	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	THAP4	NM_015963	exon4	c.C1424T	p.T475M	TTGCGCGTGTCCG	.	23.0	13.0	31.0	0.0	.	27	.	.	Atlas-SNP
FBLN2	2199	hgsc.bcm.edu	hg19	3	13612450	13612450	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	FBLN2	NM_001998	exon2	c.T595G	p.Y199D	TACAGCTATGACC	.	62.0	23.0	41.0	0.0	.	137	.	.	Atlas-SNP
GLB1	2720	hgsc.bcm.edu	hg19	3	33110391	33110391	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	GLB1	NM_000404	exon3	c.A317T	p.Y106F	AGAAAATATTCCA	.	78.0	35.0	75.0	0.0	.	51	.	.	Atlas-SNP
STAC	6769	hgsc.bcm.edu	hg19	3	36485045	36485045	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	STAC	NM_003149	exon2	c.C301G	p.L101V	GCTGGTCTGCATC	.	41.0	23.0	36.0	0.0	.	78	.	.	Atlas-SNP
ITGA9	3680	hgsc.bcm.edu	hg19	3	37574811	37574811	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ITGA9	NM_002207	exon14	c.G1380T	p.R460S	AGCAAGGCCTGTC	.	43.0	22.0	45.0	0.0	.	98	.	.	Atlas-SNP
MYD88	4615	hgsc.bcm.edu	hg19	3	38181897	38181897	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	MYD88	NM_002468	exon3	c.T521A	p.F174Y	AGCGTTTCGATGC	.	84.0	38.0	58.0	0.0	.	900	.	.	Atlas-SNP
CTNNB1	1499	hgsc.bcm.edu	hg19	3	41266098	41266098	+	Missense_Mutation	SNP	A	A	T	rs121913396	bycluster	TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	CTNNB1,gallbladder,other,+1,128	CTNNB1	NM_001098209	exon3	c.A95T	p.D32V	ACCTGGACTCTGG	.	150.0	73.0	122.0	0.0	.	4904	.	.	Atlas-SNP
STAB1	23166	hgsc.bcm.edu	hg19	3	52558211	52558211	+	Silent	SNP	C	C	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	STAB1	NM_015136	exon68	c.C7638T	p.T2546T	CGACACCTTTTGT	.	86.0	48.0	62.0	0.0	.	178	.	.	Atlas-SNP
FRMD4B	23150	hgsc.bcm.edu	hg19	3	69221075	69221075	+	Silent	SNP	G	G	A	rs373666395	alternate_allele	TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	FRMD4B	NM_015123	exon23	c.C3042T	p.N1014N	CTCCAGGTTGTCT	.	143.0	53.0	171.0	0.0	.	90	.	.	Atlas-SNP
ROBO1	6091	hgsc.bcm.edu	hg19	3	78737868	78737868	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ROBO1	NM_002941	exon9	c.C1100A	p.T367N	GTTACAGTCCGTC	.	51.0	16.0	57.0	0.0	.	833	.	.	Atlas-SNP
POLQ	10721	hgsc.bcm.edu	hg19	3	121264699	121264699	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	POLQ	NM_199420	exon1	c.A26T	p.K9I	CGCCGTTTCCCAC	.	40.0	15.0	37.0	0.0	.	273	.	.	Atlas-SNP
ILDR1	286676	hgsc.bcm.edu	hg19	3	121712723	121712723	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ILDR1	NM_001199799	exon7	c.A873T	p.K291N	CAGTTCTTTCTCC	.	30.0	17.0	25.0	0.0	.	120	.	.	Atlas-SNP
SLC12A8	84561	hgsc.bcm.edu	hg19	3	124826958	124826958	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	SLC12A8	NM_024628	exon10	c.A1072G	p.K358E	GTGTTTTGTTTGG	.	49.0	14.0	48.0	0.0	.	81	.	.	Atlas-SNP
SLC41A3	54946	hgsc.bcm.edu	hg19	3	125769824	125769824	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	SLC41A3	NM_017836	exon3	c.A343T	p.N115Y	CCAGGTTCCCCTT	.	25.0	15.0	30.0	0.0	.	80	.	.	Atlas-SNP
CLDN18	51208	hgsc.bcm.edu	hg19	3	137748665	137748665	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CLDN18	NM_016369	exon4	c.T530C	p.V177A	TGTTCGTGGGCTG	.	62.0	33.0	106.0	0.0	.	33	.	.	Atlas-SNP
DZIP1L	199221	hgsc.bcm.edu	hg19	3	137787109	137787109	+	Silent	SNP	T	T	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	DZIP1L	NM_173543	exon13	c.A1716C	p.P572P	ACGAGTTGGTGGG	.	78.0	17.0	86.0	0.0	.	88	.	.	Atlas-SNP
HTR3D	200909	hgsc.bcm.edu	hg19	3	183756700	183756700	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	HTR3D	NM_001163646	exon8	c.C1302A	p.F434L	GCTCTTCCGCCTC	.	85.0	23.0	95.0	0.0	.	65	.	.	Atlas-SNP
OTOP1	133060	hgsc.bcm.edu	hg19	4	4228502	4228502	+	Silent	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	OTOP1	NM_177998	exon1	c.T90A	p.P30P	CGAGGGAGGCGAG	.	15.0	11.0	8.0	0.0	.	118	.	.	Atlas-SNP
BOD1L1	259282	hgsc.bcm.edu	hg19	4	13601419	13601419	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	.	NM_148894	exon10	c.A7105T	p.S2369C	GCTTGCTCACTTC	.	135.0	50.0	144.0	0.0	.	.	.	.	Atlas-SNP
SLC10A4	201780	hgsc.bcm.edu	hg19	4	48490859	48490859	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	SLC10A4	NM_152679	exon3	c.A1217T	p.Y406F	TTTCTTATAAAAA	.	76.0	34.0	60.0	0.0	.	23	.	.	Atlas-SNP
UGT2B4	7363	hgsc.bcm.edu	hg19	4	70346460	70346460	+	Silent	SNP	C	C	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	UGT2B4	NM_021139	exon6	c.G1479C	p.V493V	CCCAGTCACATCC	.	107.0	55.0	117.0	0.0	.	105	.	.	Atlas-SNP
RUFY3	22902	hgsc.bcm.edu	hg19	4	71659507	71659507	+	Missense_Mutation	SNP	G	G	A	rs372273317		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	RUFY3	NM_001037442	exon13	c.G1343A	p.R448H	GATTGCGCCAGGC	.	195.0	41.0	155.0	0.0	.	61	.	.	Atlas-SNP
DCHS2	54798	hgsc.bcm.edu	hg19	4	155256019	155256019	+	Splice_Site	SNP	C	C	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	DCHS2	NM_017639	exon9	c.1216+1G>C	.	TACTTACTCAAGG	.	26.0	9.0	47.0	0.0	.	594	.	.	Atlas-SNP
ENPP6	133121	hgsc.bcm.edu	hg19	4	185074757	185074757	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ENPP6	NM_153343	exon2	c.G371A	p.W124X	GTGACCCACAGAG	.	113.0	55.0	130.0	0.0	.	61	.	.	Atlas-SNP
ADAMTS12	81792	hgsc.bcm.edu	hg19	5	33649699	33649699	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ADAMTS12	NM_030955	exon8	c.T1294C	p.W432R	TGGACCATGTCAG	.	46.0	14.0	30.0	0.0	.	464	.	.	Atlas-SNP
OXCT1	5019	hgsc.bcm.edu	hg19	5	41739504	41739504	+	Silent	SNP	C	C	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	OXCT1,NS,carcinoma,0,1	OXCT1	NM_000436	exon16	c.G1509C	p.G503G	ATCACACCCAGTA	.	128.0	52.0	123.0	0.0	.	54	.	.	Atlas-SNP
IL31RA	133396	hgsc.bcm.edu	hg19	5	55178923	55178923	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	IL31RA	NM_001242637	exon5	c.A506T	p.K169I	GCATCAAACGAAT	.	114.0	54.0	122.0	0.0	.	84	.	.	Atlas-SNP
VCAN	1462	hgsc.bcm.edu	hg19	5	82816442	82816442	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	VCAN	NM_004385	exon7	c.A2317T	p.T773S	ACAGCAACTCCAG	.	53.0	27.0	45.0	0.0	.	498	.	.	Atlas-SNP
PCDHA6	56142	hgsc.bcm.edu	hg19	5	140209357	140209357	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	PCDHA6	NM_018909	exon1	c.A1681T	p.N561Y	AACGACAACGCGC	.	56.0	26.0	51.0	0.0	.	442	.	.	Atlas-SNP
PCDHB6	56130	hgsc.bcm.edu	hg19	5	140531345	140531345	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	PCDHB6	NM_018939	exon1	c.T1507A	p.S503T	CTGGTCTCCATCA	.	42.0	14.0	36.0	0.0	.	161	.	.	Atlas-SNP
AFAP1L1	134265	hgsc.bcm.edu	hg19	5	148687115	148687115	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	AFAP1L1	NM_001146337	exon7	c.G686C	p.R229P	TGCTGCGGAAAAA	.	56.0	23.0	45.0	0.0	.	86	.	.	Atlas-SNP
PDE6A	5145	hgsc.bcm.edu	hg19	5	149314265	149314265	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	PDE6A	NM_000440	exon2	c.A491G	p.D164G	ACAAAGTCACAGA	.	68.0	30.0	66.0	0.0	.	98	.	.	Atlas-SNP
SLC36A2	153201	hgsc.bcm.edu	hg19	5	150701730	150701730	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	SLC36A2	NM_181776	exon9	c.A1057T	p.T353S	CATAGGTGCACAG	.	63.0	26.0	49.0	0.0	.	71	.	.	Atlas-SNP
ZNF391	346157	hgsc.bcm.edu	hg19	6	27368962	27368962	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ZNF391	NM_001076781	exon3	c.C813G	p.H271Q	AACACACACTGGG	.	118.0	38.0	86.0	0.0	.	90	.	.	Atlas-SNP
TRIM31	11074	hgsc.bcm.edu	hg19	6	30080321	30080321	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	TRIM31	NM_007028	exon2	c.T262C	p.S88P	TTTTGGACTGCAC	.	126.0	35.0	85.0	0.0	.	40	.	.	Atlas-SNP
NOTCH4	4855	hgsc.bcm.edu	hg19	6	32170085	32170085	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	NOTCH4,NS,carcinoma,0,1	NOTCH4	NM_004557	exon21	c.G3523T	p.A1175S	CCTTGGCTCCGGG	.	60.0	21.0	42.0	0.0	.	201	.	.	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	hg19	6	38802359	38802359	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	DNAH8	NM_001206927	exon32	c.G4307A	p.G1436E	AGGAAGGACCTAT	.	256.0	70.0	177.0	0.0	.	1239	.	.	Atlas-SNP
ABCC10	89845	hgsc.bcm.edu	hg19	6	43402429	43402429	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ABCC10	NM_001198934	exon4	c.G1451T	p.R484L	GAGCCCGAGTAGA	.	103.0	29.0	53.0	0.0	.	118	.	.	Atlas-SNP
TMEM63B	55362	hgsc.bcm.edu	hg19	6	44116103	44116103	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	TMEM63B	NM_018426	exon13	c.A1102G	p.N368D	TTCCACAATGAGA	.	63.0	12.0	25.0	0.0	.	77	.	.	Atlas-SNP
RIMS1	22999	hgsc.bcm.edu	hg19	6	73102430	73102430	+	Silent	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	RIMS1	NM_014989	exon31	c.T4536A	p.A1512A	GGGAGCTGACAGT	.	72.0	64.0	126.0	0.0	.	278	.	.	Atlas-SNP
TBX18	9096	hgsc.bcm.edu	hg19	6	85446945	85446945	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	TBX18	NM_001080508	exon8	c.A1282T	p.N428Y	ATCGGTTGAGGGT	.	72.0	66.0	100.0	0.0	.	131	.	.	Atlas-SNP
THEMIS	387357	hgsc.bcm.edu	hg19	6	128134158	128134158	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	THEMIS	NM_001010923	exon4	c.T1628C	p.M543T	CTCCGCATCATGT	.	35.0	31.0	77.0	0.0	.	168	.	.	Atlas-SNP
VTA1	51534	hgsc.bcm.edu	hg19	6	142468439	142468439	+	Silent	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	VTA1	NM_016485	exon1	c.A15G	p.A5A	GCTTGCACCGCTG	.	22.0	18.0	35.0	0.0	.	29	.	.	Atlas-SNP
LATS1	9113	hgsc.bcm.edu	hg19	6	150005471	150005471	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	LATS1_ENST00000543571,colon,carcinoma,+2,4	LATS1	NM_001270519	exon4	c.A754T	p.R252X	GGCCTCTTGGAGG	.	52.0	46.0	88.0	0.0	.	241	.	.	Atlas-SNP
NOX3	50508	hgsc.bcm.edu	hg19	6	155774563	155774563	+	Silent	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	NOX3	NM_015718	exon4	c.C315T	p.V105V	ATAGGCGACCAGT	.	63.0	57.0	174.0	0.0	.	93	.	.	Atlas-SNP
CARD11	84433	hgsc.bcm.edu	hg19	7	2987241	2987241	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CARD11	NM_032415	exon3	c.C188T	p.A63V	ATAGGGGCATTAA	.	121.0	61.0	118.0	0.0	.	339	.	.	Atlas-SNP
AHR	196	hgsc.bcm.edu	hg19	7	17375399	17375399	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	AHR,NS,carcinoma,0,1	AHR	NM_001621	exon9	c.G1149T	p.Q383H	AACTCAGAGACCA	.	76.0	26.0	71.0	0.0	.	89	.	.	Atlas-SNP
RAPGEF5	9771	hgsc.bcm.edu	hg19	7	22259519	22259519	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	RAPGEF5	NM_012294	exon9	c.A503T	p.Q168L	TCCGTCTGCAAAA	.	153.0	76.0	161.0	0.0	.	96	.	.	Atlas-SNP
VPS37D	155382	hgsc.bcm.edu	hg19	7	73085576	73085576	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	VPS37D	NM_001077621	exon4	c.C626T	p.A209V	CACCAGCAGTGCC	.	40.0	17.0	36.0	0.0	.	10	.	.	Atlas-SNP
CLIP2	7461	hgsc.bcm.edu	hg19	7	73752825	73752825	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CLIP2	NM_032421	exon3	c.G169A	p.A57T	CCGGCCGCAGCTG	.	79.0	34.0	72.0	0.0	.	134	.	.	Atlas-SNP
PION	54103	hgsc.bcm.edu	hg19	7	76982269	76982269	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	PION	NM_017439	exon18	c.T1483G	p.W495G	TATTCCAAGTGAG	.	92.0	41.0	113.0	0.0	.	74	.	.	Atlas-SNP
MTERF	7978	hgsc.bcm.edu	hg19	7	91503797	91503797	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	MTERF	NM_006980	exon3	c.A311T	p.E104V	TCCTGCTCATTGG	.	91.0	35.0	92.0	0.0	.	32	.	.	Atlas-SNP
CFTR	1080	hgsc.bcm.edu	hg19	7	117307000	117307000	+	Silent	SNP	C	C	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CFTR	NM_000492	exon27	c.C4281T	p.I1427I	TTCCATCCAGAAA	.	105.0	47.0	89.0	0.0	.	171	.	.	Atlas-SNP
CPA5	93979	hgsc.bcm.edu	hg19	7	130002351	130002351	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CPA5	NM_080385	exon8	c.C607A	p.H203N	ATCACCCATGCCA	.	35.0	22.0	34.0	0.0	.	61	.	.	Atlas-SNP
PTK2B	2185	hgsc.bcm.edu	hg19	8	27315905	27315905	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	PTK2B	NM_173174	exon36	c.A2909T	p.E970V	TAAGTGAGGAGTG	.	16.0	15.0	43.0	0.0	.	304	.	.	Atlas-SNP
SULF1	23213	hgsc.bcm.edu	hg19	8	70541750	70541750	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	SULF1	NM_001128205	exon19	c.A2120T	p.Q707L	CTGCTCAGGAAGT	.	224.0	54.0	117.0	0.0	.	153	.	.	Atlas-SNP
TERF1	7013	hgsc.bcm.edu	hg19	8	73939235	73939235	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	TERF1	NM_017489	exon6	c.A835T	p.S279C	AAACCTAGTGGTA	.	42.0	10.0	24.0	0.0	.	48	.	.	Atlas-SNP
ZC2HC1A	51101	hgsc.bcm.edu	hg19	8	79590890	79590890	+	Silent	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	.	NM_016010	exon3	c.A186G	p.P62P	TATTCCAACAGTA	.	146.0	61.0	99.0	0.0	.	.	.	.	Atlas-SNP
CNBD1	168975	hgsc.bcm.edu	hg19	8	88249211	88249211	+	Silent	SNP	T	T	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CNBD1	NM_173538	exon6	c.T642C	p.Y214Y	CGTGTATAAAAAT	.	153.0	53.0	87.0	0.0	.	206	.	.	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	hg19	8	113529405	113529405	+	Silent	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CSMD3	NM_198123	exon28	c.T4614A	p.T1538T	ATTTCGAGTCCCA	.	125.0	14.0	72.0	0.0	.	2325	.	.	Atlas-SNP
KCNQ3	3786	hgsc.bcm.edu	hg19	8	133192469	133192469	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	KCNQ3	NM_004519	exon4	c.C712A	p.L238M	TCCGCAGCATGCG	.	57.0	9.0	35.0	0.0	.	164	.	.	Atlas-SNP
DENND3	22898	hgsc.bcm.edu	hg19	8	142190927	142190927	+	Missense_Mutation	SNP	C	C	T	rs201075864		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	DENND3,colon,carcinoma,0,1	DENND3	NM_014957	exon17	c.C2678T	p.A893V	CACAAGCGGTGGA	.	66.0	16.0	25.0	0.0	.	127	.	C|0.999;T|0.001	Atlas-SNP
TOP1MT	116447	hgsc.bcm.edu	hg19	8	144408432	144408432	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	TOP1MT	NM_052963	exon4	c.A443G	p.K148R	GCGGCCTTGTCCA	.	163.0	9.0	68.0	0.0	.	63	.	.	Atlas-SNP
RRAGA	10670	hgsc.bcm.edu	hg19	9	19050112	19050112	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	RRAGA	NM_006570	exon1	c.C455T	p.S152F	GTCTGTCTCGCCC	.	52.0	18.0	62.0	0.0	.	17	.	.	Atlas-SNP
IFNA6	3443	hgsc.bcm.edu	hg19	9	21350829	21350829	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	IFNA6	NM_021002	exon1	c.T58A	p.C20S	GAGAGCAGCTTGA	.	69.0	23.0	87.0	0.0	.	27	.	.	Atlas-SNP
TRPM6	140803	hgsc.bcm.edu	hg19	9	77435310	77435310	+	Silent	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	TRPM6	NM_017662	exon9	c.C1044A	p.I348I	CATGCAGATGATC	.	52.0	18.0	32.0	0.0	.	377	.	.	Atlas-SNP
SPATA31D4	389761	hgsc.bcm.edu	hg19	9	84547809	84547809	+	Silent	SNP	C	C	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	.	NM_001145197	exon4	c.C2733T	p.P911P	GAAGCCCATATTA	.	172.0	56.0	173.0	0.0	.	.	.	.	Atlas-SNP
ERP44	23071	hgsc.bcm.edu	hg19	9	102784454	102784454	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ERP44	NM_015051	exon5	c.G341A	p.R114H	CCATTACGAAACA	.	243.0	52.0	220.0	0.0	.	38	.	.	Atlas-SNP
DBC1	1620	hgsc.bcm.edu	hg19	9	121930107	121930107	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	DBC1	NM_014618	exon8	c.C1541A	p.T514N	AAGAAGGTGTCGA	.	68.0	25.0	57.0	0.0	.	194	.	.	Atlas-SNP
CIZ1	25792	hgsc.bcm.edu	hg19	9	130929424	130929424	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CIZ1	NM_001257975	exon16	c.C2483A	p.S828Y	TCTCTGGATATAT	.	60.0	29.0	53.0	0.0	.	75	.	.	Atlas-SNP
IDI1	3422	hgsc.bcm.edu	hg19	10	1094803	1094803	+	Splice_Site	SNP	C	C	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	IDI1	NM_004508	exon2	c.140+1G>A	.	ACAGTACCTGATC	.	52.0	22.0	56.0	0.0	.	22	.	.	Atlas-SNP
PIP4K2A	5305	hgsc.bcm.edu	hg19	10	22829005	22829005	+	Splice_Site	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	PIP4K2A	NM_005028	exon10	c.1037-2A>T	.	CGAGTCTGCAGAG	.	46.0	22.0	36.0	0.0	.	59	.	.	Atlas-SNP
RAB18	22931	hgsc.bcm.edu	hg19	10	27793366	27793366	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	RAB18	NM_001256415	exon1	c.G68C	p.S23T	AGTCCAGGTGAGG	.	55.0	31.0	44.0	0.0	.	18	.	.	Atlas-SNP
OPN4	94233	hgsc.bcm.edu	hg19	10	88415951	88415951	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	OPN4	NM_033282	exon2	c.A184G	p.T62A	CTCCCCACGGTTG	.	104.0	43.0	105.0	0.0	.	61	.	.	Atlas-SNP
HPSE2	60495	hgsc.bcm.edu	hg19	10	100995494	100995494	+	Silent	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	HPSE2	NM_001166246	exon1	c.A66T	p.L22L	CGGGGCTAGGCAC	.	103.0	49.0	103.0	0.0	.	203	.	.	Atlas-SNP
SEC31B	25956	hgsc.bcm.edu	hg19	10	102269083	102269083	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	SEC31B	NM_015490	exon4	c.A389G	p.N130S	AAAGGATTCAAGT	.	70.0	22.0	70.0	0.0	.	84	.	.	Atlas-SNP
CTBP2	1488	hgsc.bcm.edu	hg19	10	126715391	126715391	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CTBP2	NM_022802	exon1	c.A938T	p.Q313L	AAGCCCTGCTGCA	.	30.0	27.0	74.0	0.0	.	100	.	.	Atlas-SNP
OR52R1	119695	hgsc.bcm.edu	hg19	11	4824853	4824853	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	OR52R1	NM_001005177	exon1	c.C758A	p.A253D	TAAAGAGCCAAGA	.	58.0	13.0	50.0	0.0	.	81	.	.	Atlas-SNP
SYT9	143425	hgsc.bcm.edu	hg19	11	7437386	7437386	+	Silent	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	SYT9	NM_175733	exon4	c.A1158G	p.G386G	AACAGGAGCATCA	.	52.0	14.0	67.0	0.0	.	91	.	.	Atlas-SNP
TRIM49	57093	hgsc.bcm.edu	hg19	11	89531677	89531677	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	TRIM49	NM_020358	exon8	c.G980A	p.S327N	AGAAAACTTCTAG	.	74.0	17.0	96.0	0.0	.	45	.	.	Atlas-SNP
CLMP	79827	hgsc.bcm.edu	hg19	11	122954395	122954395	+	Silent	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CLMP	NM_024769	exon4	c.T549A	p.S183S	AATCCTAGATTTG	.	44.0	10.0	61.0	0.0	.	39	.	.	Atlas-SNP
GLB1L3	112937	hgsc.bcm.edu	hg19	11	134188589	134188589	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	GLB1L3	NM_001080407	exon19	c.C1844A	p.P615H	TTGGGCCTCAGAA	.	84.0	37.0	120.0	0.0	.	102	.	.	Atlas-SNP
DENND5B	160518	hgsc.bcm.edu	hg19	12	31576572	31576572	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	DENND5B	NM_144973	exon11	c.A2429T	p.Q810L	CTGTCCTGAAATT	.	134.0	85.0	134.0	0.0	.	114	.	.	Atlas-SNP
ZCRB1	85437	hgsc.bcm.edu	hg19	12	42711634	42711634	+	Silent	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ZCRB1	NM_033114	exon4	c.T180C	p.D60D	GTCTTTATCCAAA	.	98.0	62.0	133.0	0.0	.	20	.	.	Atlas-SNP
COL2A1	1280	hgsc.bcm.edu	hg19	12	48370680	48370680	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	COL2A1	NM_001844	exon48	c.A3350T	p.D1117V	CCTTTGTCACCTC	.	41.0	17.0	55.0	0.0	.	368	.	.	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	hg19	12	49433836	49433836	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	MLL2	NM_003482	exon31	c.G7717A	p.G2573S	GCTTGCCCAAGGT	.	53.0	8.0	60.0	0.0	.	1173	.	.	Atlas-SNP
CSAD	51380	hgsc.bcm.edu	hg19	12	53553988	53553988	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CSAD	NM_015989	exon14	c.A1163C	p.D388A	AGACAGTCCACAC	.	33.0	5.0	29.0	0.0	.	66	.	.	Atlas-SNP
OR6C2	341416	hgsc.bcm.edu	hg19	12	55846722	55846722	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	OR6C2	NM_054105	exon1	c.A725T	p.H242L	CATCCCACATGAT	.	134.0	47.0	175.0	0.0	.	39	.	.	Atlas-SNP
MDM2	4193	hgsc.bcm.edu	hg19	12	69233083	69233083	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	MDM2	NM_002392	exon11	c.A948C	p.E316D	CAATGAAATGAAT	.	33.0	16.0	45.0	0.0	.	92	.	.	Atlas-SNP
MPHOSPH9	10198	hgsc.bcm.edu	hg19	12	123702951	123702951	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	MPHOSPH9	NM_022782	exon2	c.A512T	p.E171V	CTTTGCTCATTTC	.	312.0	76.0	349.0	0.0	.	75	.	.	Atlas-SNP
KTN1	3895	hgsc.bcm.edu	hg19	14	56122805	56122805	+	Silent	SNP	A	A	G	rs143735954		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	KTN1	NM_004986	exon29	c.A2847G	p.L949L	CATGCTAAAAGAG	.	278.0	127.0	249.0	1.0	.	147	.	A|1.000;G|0.000	Atlas-SNP
KCNK10	54207	hgsc.bcm.edu	hg19	14	88652001	88652001	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	KCNK10	NM_138318	exon7	c.T1510A	p.S504T	TGCTGGAGTTGTC	.	254.0	122.0	219.0	1.0	.	273	.	.	Atlas-SNP
BCL11B	64919	hgsc.bcm.edu	hg19	14	99641711	99641711	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	BCL11B	NM_138576	exon4	c.T1462A	p.S488T	CGTCGGAGCGGCC	.	27.0	13.0	28.0	0.0	.	108	.	.	Atlas-SNP
RTL1	388015	hgsc.bcm.edu	hg19	14	101350239	101350239	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	RTL1	NM_001134888	exon1	c.A887T	p.Q296L	CCGCCCTGCCTGA	.	33.0	16.0	34.0	0.0	.	120	.	.	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	hg19	14	105414443	105414443	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	AHNAK2	NM_138420	exon7	c.G7345T	p.V2449L	CCTCCACGCTGGG	.	57.0	20.0	60.0	0.0	.	719	.	.	Atlas-SNP
TUBGCP5	114791	hgsc.bcm.edu	hg19	15	22848918	22848918	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	TUBGCP5	NM_052903	exon10	c.A965T	p.Q322L	ATGGCCAGGTTGT	.	52.0	27.0	62.0	0.0	.	82	.	.	Atlas-SNP
FAM189A1	23359	hgsc.bcm.edu	hg19	15	29429300	29429300	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	FAM189A1	NM_015307	exon6	c.C728T	p.P243L	GGGAGTGGGGGGA	.	21.0	8.0	28.0	0.0	.	20	.	.	Atlas-SNP
MGA	23269	hgsc.bcm.edu	hg19	15	42052625	42052625	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	MGA	NM_001164273	exon20	c.G7296T	p.E2432D	CAATGAGCGGCGG	.	77.0	4.0	98.0	0.0	.	264	.	.	Atlas-SNP
TGM7	116179	hgsc.bcm.edu	hg19	15	43574767	43574767	+	Silent	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	TGM7	NM_052955	exon8	c.A1056T	p.P352P	GTATCCTGGTGGG	.	41.0	23.0	41.0	0.0	.	86	.	.	Atlas-SNP
SMAD3	4088	hgsc.bcm.edu	hg19	15	67477190	67477190	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	SMAD3	NM_005902	exon7	c.A997G	p.K333E	GTCTGCAAGATCC	.	43.0	24.0	57.0	0.0	.	119	.	.	Atlas-SNP
HCN4	10021	hgsc.bcm.edu	hg19	15	73615218	73615218	+	Silent	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	HCN4	NM_005477	exon8	c.C3216T	p.P1072P	GAGCGGGGGTGTG	.	21.0	14.0	29.0	0.0	.	150	.	.	Atlas-SNP
TRAP1	10131	hgsc.bcm.edu	hg19	16	3716009	3716009	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	TRAP1	NM_016292	exon12	c.G1346A	p.R449Q	CCCTCCCGCATGA	.	95.0	41.0	88.0	0.0	.	53	.	.	Atlas-SNP
KIAA0556	23247	hgsc.bcm.edu	hg19	16	27751968	27751968	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	KIAA0556	NM_015202	exon15	c.T2350A	p.W784R	CTGGCCTGGAAGG	.	26.0	12.0	26.0	0.0	.	348	.	.	Atlas-SNP
RNF40	9810	hgsc.bcm.edu	hg19	16	30779293	30779293	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	RNF40	NM_014771	exon12	c.G1508A	p.R503Q	CCCAGCGATACAA	.	49.0	17.0	51.0	0.0	.	83	.	.	Atlas-SNP
SALL1	6299	hgsc.bcm.edu	hg19	16	51174758	51174758	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	SALL1	NM_002968	exon2	c.G1375A	p.G459R	CACTCCCAAAGAC	.	52.0	26.0	57.0	0.0	.	301	.	.	Atlas-SNP
CES1	1066	hgsc.bcm.edu	hg19	16	55850865	55850865	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CES1	NM_001025195	exon8	c.T916C	p.S306P	CCAGAGATAAGAA	.	60.0	9.0	53.0	0.0	.	78	.	.	Atlas-SNP
PLEKHG4	25894	hgsc.bcm.edu	hg19	16	67320230	67320230	+	Silent	SNP	T	T	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	PLEKHG4	NM_001129728	exon15	c.T2496C	p.D832D	CTCCGATGCCCTG	.	63.0	27.0	45.0	0.0	.	94	.	.	Atlas-SNP
MTSS1L	92154	hgsc.bcm.edu	hg19	16	70698128	70698128	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	MTSS1L	NM_138383	exon15	c.C1696T	p.R566C	GTGTGCGGCGGAT	.	41.0	21.0	30.0	0.0	.	22	.	.	Atlas-SNP
ATMIN	23300	hgsc.bcm.edu	hg19	16	81076059	81076059	+	Silent	SNP	T	T	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ATMIN	NM_015251	exon3	c.T636C	p.T212T	CCGAACTGGGCAC	.	31.0	14.0	32.0	0.0	.	50	.	.	Atlas-SNP
PMP22	5376	hgsc.bcm.edu	hg19	17	15162456	15162456	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	PMP22	NM_153322	exon2	c.T133C	p.S45P	AGGAAGAGGTGCT	.	51.0	46.0	74.0	0.0	.	18	.	.	Atlas-SNP
ULK2	9706	hgsc.bcm.edu	hg19	17	19698995	19698995	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ULK2	NM_001142610	exon20	c.C2041A	p.P681T	ATATAGGAGTCTT	.	116.0	109.0	204.0	0.0	.	142	.	.	Atlas-SNP
RHBDL3	162494	hgsc.bcm.edu	hg19	17	30621329	30621329	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	RHBDL3	NM_138328	exon5	c.A536G	p.Y179C	TCCTCTACAATGG	.	118.0	55.0	112.0	0.0	.	49	.	.	Atlas-SNP
UNC45B	146862	hgsc.bcm.edu	hg19	17	33504605	33504605	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	UNC45B	NM_173167	exon17	c.T2237A	p.L746Q	CCAACCTGTCTGG	.	47.0	24.0	31.0	0.0	.	133	.	.	Atlas-SNP
KRT31	3881	hgsc.bcm.edu	hg19	17	39550414	39550414	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	KRT31	NM_002277	exon7	c.A1105T	p.S369C	GATTGCTGGGCAG	.	53.0	27.0	44.0	0.0	.	158	.	.	Atlas-SNP
ADAM11	4185	hgsc.bcm.edu	hg19	17	42854925	42854925	+	Silent	SNP	C	C	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ADAM11	NM_002390	exon22	c.C1857T	p.I619I	AGACATCAGTAGT	.	64.0	28.0	63.0	0.0	.	118	.	.	Atlas-SNP
KIF18B	146909	hgsc.bcm.edu	hg19	17	43010040	43010040	+	Splice_Site	SNP	C	C	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	KIF18B	NM_001264573	exon10	c.1238+1G>T	.	AACTCACTGTTCT	.	27.0	11.0	22.0	0.0	.	63	.	.	Atlas-SNP
OSBPL7	114881	hgsc.bcm.edu	hg19	17	45890656	45890656	+	Silent	SNP	T	T	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	OSBPL7	NM_145798	exon16	c.A1713G	p.R571R	GAAGCCTCGGTCA	.	30.0	13.0	26.0	0.0	.	65	.	.	Atlas-SNP
CD300LB	124599	hgsc.bcm.edu	hg19	17	72519756	72519756	+	Silent	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CD300LB	NM_174892	exon3	c.C516T	p.T172T	GCTGTTGGTAGGT	.	87.0	34.0	77.0	0.0	.	38	.	.	Atlas-SNP
UNK	85451	hgsc.bcm.edu	hg19	17	73805856	73805856	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	UNK	NM_001080419	exon2	c.C120A	p.F40L	AGAATTCCGCACA	.	54.0	21.0	45.0	0.0	.	87	.	.	Atlas-SNP
NETO1	81832	hgsc.bcm.edu	hg19	18	70417483	70417483	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	NETO1	NM_001201465	exon9	c.C1355A	p.A452D	ATAGAAGCATCTC	.	202.0	117.0	170.0	0.0	.	178	.	.	Atlas-SNP
FUT5	2527	hgsc.bcm.edu	hg19	19	5866696	5866696	+	Silent	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	FUT5	NM_002034	exon2	c.A1041T	p.A347A	AGCCAGTGCCCAG	.	115.0	41.0	115.0	0.0	.	29	.	.	Atlas-SNP
VAV1	7409	hgsc.bcm.edu	hg19	19	6773000	6773000	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	VAV1	NM_005428	exon1	c.A182T	p.N61I	AGGTCAACCTGCG	.	67.0	29.0	78.0	0.0	.	140	.	.	Atlas-SNP
LYL1	4066	hgsc.bcm.edu	hg19	19	13211833	13211833	+	Silent	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	LYL1	NM_005583	exon2	c.C153T	p.S51S	GGGCGAGGAGCCT	.	32.0	8.0	45.0	0.0	.	17	.	.	Atlas-SNP
UNC13A	23025	hgsc.bcm.edu	hg19	19	17716933	17716933	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	UNC13A	NM_001080421	exon42	c.C5042A	p.A1681D	TCCTTGGCCACCT	.	53.0	16.0	76.0	0.0	.	299	.	.	Atlas-SNP
CRLF1	9244	hgsc.bcm.edu	hg19	19	18710417	18710417	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	CRLF1,colon,carcinoma,0,1	CRLF1	NM_004750	exon2	c.C355A	p.R119S	CGTCACGGGCGTG	.	45.0	18.0	39.0	0.0	.	32	.	.	Atlas-SNP
SUGP2	10147	hgsc.bcm.edu	hg19	19	19136956	19136956	+	Silent	SNP	T	T	A	rs144099788	alternate_allele	TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	SUGP2	NM_014884	exon3	c.A201T	p.G67G	TACAGATCCACTG	.	23.0	8.0	27.0	0.0	.	107	.	T|1.000;C|0.000	Atlas-SNP
PAK4	10298	hgsc.bcm.edu	hg19	19	39664257	39664257	+	Silent	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	PAK4	NM_001014832	exon4	c.G705T	p.G235G	AGCGGGGGGCCTG	.	28.0	17.0	24.0	0.0	.	40	.	.	Atlas-SNP
CARD8	22900	hgsc.bcm.edu	hg19	19	48734142	48734142	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CARD8	NM_001184900	exon6	c.C664G	p.L222V	GCTGCAGGTCCAG	.	28.0	8.0	27.0	0.0	.	53	.	.	Atlas-SNP
GRIN2D	2906	hgsc.bcm.edu	hg19	19	48925128	48925128	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	GRIN2D	NM_000836	exon10	c.T2178A	p.Y726X	CAACTATCCCGAC	.	87.0	28.0	93.0	0.0	.	76	.	.	Atlas-SNP
SHANK1	50944	hgsc.bcm.edu	hg19	19	51169670	51169670	+	Silent	SNP	T	T	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	SHANK1	NM_016148	exon22	c.A5547G	p.P1849P	CAGAGGTGGTGGC	.	53.0	27.0	56.0	0.0	.	210	.	.	Atlas-SNP
ZNF665	79788	hgsc.bcm.edu	hg19	19	53668959	53668959	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ZNF665	NM_024733	exon4	c.T784A	p.Y262N	ACTTGTAAGGTTT	.	85.0	27.0	67.0	0.0	.	136	.	.	Atlas-SNP
TGM6	343641	hgsc.bcm.edu	hg19	20	2384055	2384055	+	Silent	SNP	C	C	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	TGM6	NM_198994	exon8	c.C1002G	p.V334V	CCATGTCTGGAAT	.	72.0	35.0	60.0	0.0	.	126	.	.	Atlas-SNP
PHF20	51230	hgsc.bcm.edu	hg19	20	34451299	34451299	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	PHF20	NM_016436	exon6	c.G785A	p.R262K	GAGGCAGACCCCC	.	78.0	31.0	76.0	0.0	.	94	.	.	Atlas-SNP
PI3	5266	hgsc.bcm.edu	hg19	20	43804641	43804641	+	Silent	SNP	T	T	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	PI3	NM_002638	exon2	c.T219G	p.P73P	TAAGCCTGGCTCC	.	89.0	48.0	69.0	0.0	.	21	.	.	Atlas-SNP
DOPEY2	9980	hgsc.bcm.edu	hg19	21	37618611	37618611	+	Silent	SNP	C	C	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	DOPEY2	NM_005128	exon19	c.C4333T	p.L1445L	AAGCTGCTGCAGG	.	49.0	14.0	30.0	0.0	.	184	.	.	Atlas-SNP
COL18A1	80781	hgsc.bcm.edu	hg19	21	46911137	46911137	+	Splice_Site	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	COL18A1	NM_130445	exon22	c.2068-2A>T	.	TCTTCCAGGGAGA	.	165.0	69.0	146.0	0.0	.	129	.	.	Atlas-SNP
P2RX6	9127	hgsc.bcm.edu	hg19	22	21369505	21369505	+	Silent	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	.	NM_001159554	exon1	c.A42T	p.P14P	CTCCCCAGGGGCT	.	40.0	18.0	35.0	0.0	.	.	.	.	Atlas-SNP
NHS	4810	hgsc.bcm.edu	hg19	X	17745541	17745541	+	Silent	SNP	T	T	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	NHS	NM_198270	exon6	c.T3252C	p.R1084R	CCACCGTCATCCA	.	143.0	75.0	143.0	0.0	.	302	.	.	Atlas-SNP
EFHC2	80258	hgsc.bcm.edu	hg19	X	44109644	44109644	+	Silent	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	EFHC2	NM_025184	exon5	c.C654A	p.T218T	TTTCAGGGTGTCG	.	85.0	33.0	91.0	0.0	.	81	.	.	Atlas-SNP
ITIH6	347365	hgsc.bcm.edu	hg19	X	54783459	54783459	+	Silent	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	.	NM_198510	exon8	c.C3048T	p.S1016S	GAACTTGGATTCC	.	47.0	22.0	37.0	0.0	.	.	.	.	Atlas-SNP
HMGN5	79366	hgsc.bcm.edu	hg19	X	80370663	80370663	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	HMGN5	NM_030763	exon7	c.G334T	p.G112X	CTCCTCCCTTTTC	.	532.0	257.0	547.0	0.0	.	29	.	.	Atlas-SNP
POU3F4	5456	hgsc.bcm.edu	hg19	X	82764109	82764109	+	Silent	SNP	G	G	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	POU3F4	NM_000307	exon1	c.G777T	p.A259A	GGAGGCGGATTCG	.	127.0	54.0	114.0	0.0	.	136	.	.	Atlas-SNP
APOOL	139322	hgsc.bcm.edu	hg19	X	84301522	84301522	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	APOOL	NM_198450	exon2	c.A86G	p.E29G	AACAAGAGGAATC	.	505.0	250.0	560.0	0.0	.	20	.	.	Atlas-SNP
NOX1	27035	hgsc.bcm.edu	hg19	X	100104832	100104832	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	NOX1	NM_013955	exon10	c.C1225G	p.P409A	CAAAGGGGGTGAC	.	293.0	163.0	241.0	0.0	.	79	.	.	Atlas-SNP
IL1RAPL2	26280	hgsc.bcm.edu	hg19	X	105011034	105011034	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	IL1RAPL2	NM_017416	exon11	c.A1441T	p.R481X	ATTCTCAGACGGG	.	236.0	112.0	227.0	0.0	.	105	.	.	Atlas-SNP
COL4A6	1288	hgsc.bcm.edu	hg19	X	107423750	107423750	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	COL4A6	NM_001847	exon25	c.T2129A	p.L710X	CCTGGTAATTCAG	.	120.0	53.0	114.0	0.0	.	270	.	.	Atlas-SNP
RGAG1	57529	hgsc.bcm.edu	hg19	X	109693862	109693862	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	RGAG1	NM_020769	exon3	c.A17G	p.H6R	CCTTACATTCACT	.	65.0	29.0	61.0	0.0	.	168	.	.	Atlas-SNP
MAGEA8	4107	hgsc.bcm.edu	hg19	X	149013280	149013280	+	Silent	SNP	T	T	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	MAGEA8	NM_005364	exon3	c.T234A	p.T78T	CAGCACTCTGTGG	.	62.0	27.0	56.0	0.0	.	40	.	.	Atlas-SNP
ZNF185	7739	hgsc.bcm.edu	hg19	X	152110314	152110314	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	ZNF185	NM_001178115	exon1	c.C62A	p.A21D	TGCCGGCCGCCAG	.	108.0	46.0	91.0	0.0	.	92	.	.	Atlas-SNP
COX3	5742	hgsc.bcm.edu	hg19	MT	9915	9915	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	.	ENST00000362079	exon1	c.G709A	p.A237T	TTCGAAGCCGCCG	.	531.0	486.0	22.0	0.0	.	.	.	.	Atlas-SNP
IRF2BPL	64207	hgsc.bcm.edu	hg19	14	77493776	77493777	+	In_Frame_Ins	INS	-	-	TGCTGCTGCTGT	rs71125518	alternate_allele	TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	IRF2BPL	NM_024496	exon1	c.360_361insACAGCAGCAGCA	p.Q120delinsQQQQQ	.	.	29.0	17.0	30.0	0.0	.	40	.	CTG|1.000;|0.000	Atlas-INDEL
ZKSCAN7	55888	hgsc.bcm.edu	hg19	3	44612664	44612665	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	.	NM_018651	exon6	c.2062_2063insA	p.E688fs	.	.	56.0	21.0	65.0	0.0	.	.	.	.	Atlas-Indel,Pindel
CHRM2	1129	hgsc.bcm.edu	hg19	7	136700608	136700608	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-RC-A6M4-01A-11D-A32G-10	TCGA-RC-A6M4-10A-01D-A32G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	559b7362-9b75-4be3-b8bc-5f3e28b71cd8	eb1e50b4-ccfb-4b5d-8180-a19d2e42b2a2	.	CHRM2	NM_001006630	exon4	c.995delC	p.P332fs	.	.	75.0	40.0	73.0	0.0	.	167	.	.	Atlas-Indel,Pindel
