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	TVarRat	NVarRat	dbSNP_Strength	dbSNP_AF	dbSNP_PopFreq	Confidence	Algorithm
TNFRSF18	8784	hgsc.bcm.edu	hg19	1	1141898	1141898	+	Silent	SNP	C	C	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	TNFRSF18	NM_148902	exon1	c.G54T	p.L18L	GCACAGCAGCGCC	.	98.0	48.0	106.0	0.0	.	13	.	.	.	none	.	.	PASS	Atlas-SNP
PTCHD2	57540	hgsc.bcm.edu	hg19	1	11562062	11562062	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	PTCHD2	NM_020780	exon2	c.C1013T	p.S338L	CCAGCTCGCTCAT	.	102.0	45.0	133.0	0.0	.	193	.	.	.	none	.	.	PASS	Atlas-SNP
PTCHD2	57540	hgsc.bcm.edu	hg19	1	11585336	11585336	+	Silent	SNP	G	G	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	PTCHD2	NM_020780	exon12	c.G2580T	p.V860V	GGCTGTGTCGCCT	.	84.0	30.0	95.0	0.0	.	193	.	.	.	none	.	.	PASS	Atlas-SNP
VPS13D	55187	hgsc.bcm.edu	hg19	1	12318000	12318000	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	VPS13D	NM_015378	exon10	c.A950T	p.E317V	GCCGAGAATGGTG	.	82.0	32.0	110.0	0.0	.	316	.	.	.	none	.	.	PASS	Atlas-SNP
MAP3K6	9064	hgsc.bcm.edu	hg19	1	27685320	27685320	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	MAP3K6	NM_004672	exon19	c.G2463T	p.Q821H	TGGGCCCTGGTCA	.	69.0	33.0	73.0	0.0	.	134	.	.	.	none	.	.	PASS	Atlas-SNP
SFPQ	6421	hgsc.bcm.edu	hg19	1	35657092	35657092	+	Silent	SNP	T	T	C	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	SFPQ	NM_005066	exon2	c.A867G	p.G289G	TTTCTCTCCAGGC	.	125.0	49.0	136.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
AKIRIN1	79647	hgsc.bcm.edu	hg19	1	39469081	39469081	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	AKIRIN1	NM_024595	exon4	c.C559A	p.P187T	ACAAGGCCAACAA	.	44.0	16.0	73.0	0.0	.	7	.	.	.	none	.	.	PASS	Atlas-SNP
USP24	23358	hgsc.bcm.edu	hg19	1	55604356	55604356	+	Silent	SNP	A	A	G	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	USP24	NM_015306	exon26	c.T2853C	p.H951H	GGCACCATGAGGT	.	92.0	46.0	144.0	0.0	.	323	.	.	.	none	.	.	PASS	Atlas-SNP
ZRANB2	9406	hgsc.bcm.edu	hg19	1	71532486	71532486	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	ZRANB2	NM_005455	exon9	c.G902C	p.R301T	GTTCGTCTTTTTT	.	176.0	59.0	139.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
ATP8B2	57198	hgsc.bcm.edu	hg19	1	154315937	154315937	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	ATP8B2	NM_020452	exon17	c.C1750G	p.P584A	CGGAATCCAGAGG	.	66.0	28.0	64.0	0.0	.	158	.	.	.	none	.	.	PASS	Atlas-SNP
ADI1	55256	hgsc.bcm.edu	hg19	2	3523139	3523139	+	Silent	SNP	C	C	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	ADI1	NM_018269	exon1	c.G120A	p.K40K	GCGTACCTTCCAG	.	59.0	28.0	51.0	0.0	.	12	.	.	.	none	.	.	PASS	Atlas-SNP
PPP1R21	129285	hgsc.bcm.edu	hg19	2	48738524	48738524	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	PPP1R21	NM_001135629	exon21	c.A2230C	p.M744L	TTAAGTATGATGA	.	134.0	58.0	143.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
USP34	9736	hgsc.bcm.edu	hg19	2	61417473	61417473	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	USP34	NM_014709	exon78	c.A9806C	p.Y3269S	TTCTGATACTGGC	.	143.0	63.0	137.0	0.0	.	334	.	.	.	none	.	.	PASS	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179391818	179391818	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	TTN	NM_001267550	exon363	c.G107897T	p.G35966V	AGTCCACCATCTT	.	100.0	46.0	106.0	0.0	.	18412	.	.	.	none	.	.	PASS	Atlas-SNP
SLC23A3	151295	hgsc.bcm.edu	hg19	2	220027074	220027074	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	SLC23A3	NM_001144890	exon11	c.A1508G	p.Q503R	ATGGGCTGTGTCA	.	62.0	30.0	65.0	0.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
PPARG	5468	hgsc.bcm.edu	hg19	3	12447494	12447494	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	PPARG	NM_015869	exon5	c.C733T	p.H245Y	GCAAAACATTTGT	.	137.0	32.0	126.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
MYD88	4615	hgsc.bcm.edu	hg19	3	38180443	38180443	+	Silent	SNP	C	C	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	MYD88	NM_002468	exon1	c.C291A	p.A97A	TGGCGCCTCTGTA	.	98.0	24.0	54.0	0.0	.	900	.	.	.	none	.	.	PASS	Atlas-SNP
TPRA1	131601	hgsc.bcm.edu	hg19	3	127298938	127298938	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	TPRA1	NM_001142646	exon2	c.C52T	p.P18S	GGGGTGGGGGTAG	.	69.0	23.0	64.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
HGFAC	3083	hgsc.bcm.edu	hg19	4	3443800	3443800	+	Silent	SNP	G	G	C	rs372137428		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	HGFAC	NM_001528	exon1	c.G72C	p.L24L	CCTCCTGCTGCTG	.	54.0	4.0	56.0	0.0	.	69	.	.	.	weak	.	.	PASS	Atlas-SNP
AASDH	132949	hgsc.bcm.edu	hg19	4	57215435	57215435	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	AASDH	NM_181806	exon11	c.G2482A	p.V828M	CCACCACAATAAA	.	91.0	43.0	122.0	0.0	.	101	.	.	.	none	.	.	PASS	Atlas-SNP
NKX6-1	4825	hgsc.bcm.edu	hg19	4	85418816	85418816	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	NKX6-1	NM_006168	exon1	c.G566A	p.R189Q	GGGTACCGGCCCA	.	80.0	34.0	82.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
EDIL3	10085	hgsc.bcm.edu	hg19	5	83402477	83402477	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	EDIL3	NM_005711	exon6	c.C641T	p.P214L	ATCCACGGCCATC	.	93.0	39.0	113.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
COMMD10	51397	hgsc.bcm.edu	hg19	5	115428295	115428295	+	Silent	SNP	T	T	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	COMMD10	NM_016144	exon4	c.T297A	p.I99I	GAACATTCATCTT	.	85.0	42.0	67.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHGA2	56113	hgsc.bcm.edu	hg19	5	140719649	140719649	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	PCDHGA2	NM_018915	exon1	c.G1111A	p.V371I	TTTAATGTACATG	.	86.0	41.0	79.0	0.0	.	205	.	.	.	none	.	.	PASS	Atlas-SNP
SPARC	6678	hgsc.bcm.edu	hg19	5	151043688	151043688	+	Silent	SNP	G	G	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	SPARC	NM_003118	exon9	c.C843A	p.I281I	CAGGGCGATGTAC	.	84.0	4.0	87.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
BTN2A1	11120	hgsc.bcm.edu	hg19	6	26459730	26459730	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	BTN2A1	NM_001197234	exon3	c.C104A	p.P35H	TGGGGCCCACTGA	.	87.0	39.0	132.0	0.0	.	118	.	.	.	none	.	.	PASS	Atlas-SNP
TREML1	340205	hgsc.bcm.edu	hg19	6	41119115	41119115	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	TREML1	NM_178174	exon3	c.A384T	p.E128D	CTCTTCTTCTTCC	.	75.0	35.0	87.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	hg19	6	51890829	51890829	+	Missense_Mutation	SNP	G	G	A	rs112182862		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	PKHD1	NM_170724	exon32	c.C3779T	p.A1260V	GCGCCCGCATCGG	.	77.0	25.0	105.0	0.0	.	927	.	.	.	weak	G|0.500;A|0.500	0.500	PASS	Atlas-SNP
PNRC1	10957	hgsc.bcm.edu	hg19	6	89793815	89793815	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	PNRC1	NM_006813	exon2	c.A884T	p.K295M	TTCCAAAGCCTCC	.	251.0	105.0	321.0	1.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
SESN1	27244	hgsc.bcm.edu	hg19	6	109315799	109315799	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	SESN1	NM_014454	exon6	c.T986C	p.F329S	TCAAAGAAAGAAT	.	66.0	26.0	91.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1244	57221	hgsc.bcm.edu	hg19	6	138657620	138657620	+	Silent	SNP	G	G	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	KIAA1244	NM_020340	exon34	c.G6531T	p.V2177V	CATTGTGTAGCCG	.	75.0	27.0	113.0	0.0	.	236	.	.	.	none	.	.	PASS	Atlas-SNP
SP8	221833	hgsc.bcm.edu	hg19	7	20824956	20824956	+	Silent	SNP	C	C	G	rs201180283		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	SP8	NM_182700	exon2	c.G480C	p.G160G	GCCGCCCCCGCCG	.	154.0	13.0	85.0	0.0	.	43	.	.	.	weak	.	.	PASS	Atlas-SNP
CYP51A1	1595	hgsc.bcm.edu	hg19	7	91761140	91761140	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	CYP51A1	NM_000786	exon2	c.C239A	p.A80D	GCTATGGCATGCC	.	569.0	183.0	446.0	1.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
LAMB4	22798	hgsc.bcm.edu	hg19	7	107746348	107746348	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	LAMB4,colon,carcinoma,0,3	LAMB4	NM_007356	exon8	c.C784T	p.R262W	TTCCCCGAACAAT	.	127.0	78.0	100.0	0.0	.	253	.	.	.	none	.	.	PASS	Atlas-SNP
DNAJB9	4189	hgsc.bcm.edu	hg19	7	108213747	108213747	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	DNAJB9	NM_012328	exon3	c.C622T	p.Q208X	GTCACTCAACGAA	.	83.0	20.0	62.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
LUC7L2	51631	hgsc.bcm.edu	hg19	7	139056209	139056209	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	LUC7L2	NM_001244585	exon2	c.G52T	p.G18X	AGAATGGGTAAAG	.	109.0	31.0	87.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
SLC10A5	347051	hgsc.bcm.edu	hg19	8	82606176	82606176	+	Silent	SNP	A	A	G	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	SLC10A5	NM_001010893	exon1	c.T1032C	p.P344P	CAAAGCAGGAACT	.	68.0	36.0	112.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
ZFAT	57623	hgsc.bcm.edu	hg19	8	135614212	135614212	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	ZFAT	NM_020863	exon6	c.T1750C	p.S584P	CTGAGGAGGAGAC	.	62.0	35.0	46.0	0.0	.	265	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC166	100130274	hgsc.bcm.edu	hg19	8	144790026	144790026	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	CCDC166	NM_001162914	exon1	c.A254G	p.Q85R	CAGCGCTGGGCGC	.	30.0	15.0	51.0	0.0	.	1	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC166	100130274	hgsc.bcm.edu	hg19	8	144790027	144790027	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	CCDC166	NM_001162914	exon1	c.C253A	p.Q85K	AGCGCTGGGCGCG	.	31.0	16.0	50.0	0.0	.	1	.	.	.	none	.	.	PASS	Atlas-SNP
EPPK1	83481	hgsc.bcm.edu	hg19	8	144947044	144947044	+	Nonsense_Mutation	SNP	G	G	T	rs377574983	alternate_allele	TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	EPPK1,bladder,carcinoma,0,1	EPPK1	NM_031308	exon1	c.C378A	p.Y126X	ACCGCCGTAGGGG	.	139.0	60.0	136.0	0.0	.	199	.	.	.	alt	.	.	PASS	Atlas-SNP
DDX58	23586	hgsc.bcm.edu	hg19	9	32467857	32467857	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	DDX58	NM_014314	exon15	c.C2088T	p.A696A	TGAGGTGGCAATC	.	136.0	61.0	107.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
RUSC2	9853	hgsc.bcm.edu	hg19	9	35548396	35548396	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	RUSC2	NM_014806	exon2	c.C1878A	p.H626Q	ACCCCACTCCAGT	.	47.0	17.0	57.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
CEL	1056	hgsc.bcm.edu	hg19	9	135939799	135939799	+	Silent	SNP	C	C	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	CEL	NM_001807	exon2	c.C84T	p.A28A	GGGCGCCGTGTAC	.	74.0	5.0	66.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
CACNA1B	774	hgsc.bcm.edu	hg19	9	141016005	141016005	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	CACNA1B	NM_000718	exon46	c.C6574T	p.Q2192X	CTCCCCCAGACGC	.	73.0	34.0	93.0	0.0	.	266	.	.	.	none	.	.	PASS	Atlas-SNP
PITRM1	10531	hgsc.bcm.edu	hg19	10	3193438	3193438	+	Splice_Site	SNP	C	C	G	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	PITRM1	NM_014889	exon16	c.1738+1G>C	.	CAGTGACCTGTCA	.	121.0	60.0	145.0	0.0	.	109	.	.	.	none	.	.	PASS	Atlas-SNP
C10orf68	79741	hgsc.bcm.edu	hg19	10	33017895	33017895	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	C10orf68	NM_024688	exon9	c.C670G	p.Q224E	AAGAAACAAATAA	.	304.0	31.0	348.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
FAM21C	253725	hgsc.bcm.edu	hg19	10	46264959	46264959	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	FAM21C,NS,carcinoma,0,1	FAM21C	NM_015262	exon20	c.A1932T	p.E644D	AGGAGAACCCAGG	.	474.0	168.0	546.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
CDK1	983	hgsc.bcm.edu	hg19	10	62551998	62551998	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	CDK1	NM_001786	exon7	c.T746C	p.L249P	GAAGCCTAGCATC	.	103.0	39.0	107.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
NEUROG3	50674	hgsc.bcm.edu	hg19	10	71332599	71332599	+	Silent	SNP	T	T	C	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	NEUROG3	NM_020999	exon2	c.A201G	p.G67G	GCTGCGTCCCCCG	.	78.0	4.0	57.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
PHRF1	57661	hgsc.bcm.edu	hg19	11	605692	605692	+	Silent	SNP	C	C	T	rs374393458		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	PHRF1	NM_020901	exon12	c.C1419T	p.P473P	CCAGCCCGTGGCC	.	51.0	21.0	37.0	0.0	.	188	.	.	.	weak	.	.	PASS	Atlas-SNP
OSBPL5	114879	hgsc.bcm.edu	hg19	11	3111822	3111822	+	Silent	SNP	G	G	C	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	OSBPL5	NM_020896	exon20	c.C2364G	p.L788L	GTCTGAGAGCTCT	.	204.0	109.0	178.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
MRGPRG	386746	hgsc.bcm.edu	hg19	11	3239681	3239681	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	MRGPRG	NM_001164377	exon1	c.C363T	p.A121A	GGCCGAGGCGTGT	.	80.0	38.0	76.0	0.0	.	6	.	.	.	none	.	.	PASS	Atlas-SNP
RRM1	6240	hgsc.bcm.edu	hg19	11	4143450	4143450	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	RRM1	NM_001033	exon11	c.G1118C	p.S373T	ATGCAAGGTATGG	.	72.0	28.0	79.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
TCP11L1	55346	hgsc.bcm.edu	hg19	11	33083259	33083259	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	TCP11L1	NM_001145541	exon7	c.G959T	p.R320M	TCCAGAGGCCGTT	.	155.0	68.0	151.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
MMP27	64066	hgsc.bcm.edu	hg19	11	102562558	102562558	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	MMP27	NM_022122	exon10	c.G1481C	p.S494T	CTTAAACTCTTAT	.	107.0	17.0	136.0	0.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
IFT46	56912	hgsc.bcm.edu	hg19	11	118416523	118416523	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	IFT46	NM_020153	exon11	c.A871C	p.I291L	TGTCAATGTACTC	.	112.0	8.0	125.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
CAND1	55832	hgsc.bcm.edu	hg19	12	67696393	67696393	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	CAND1	NM_018448	exon8	c.C1291A	p.Q431K	CAGAGTCAGGTGG	.	99.0	39.0	119.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
NAV3	89795	hgsc.bcm.edu	hg19	12	78593299	78593299	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	NAV3	NM_014903	exon36	c.G6637T	p.D2213Y	TCTTCTGACGTTA	.	128.0	47.0	178.0	0.0	.	506	.	.	.	none	.	.	PASS	Atlas-SNP
RBM19	9904	hgsc.bcm.edu	hg19	12	114377884	114377884	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	RBM19	NM_001146699	exon15	c.T1819A	p.F607I	GGCCGAAGGTCTC	.	78.0	11.0	86.0	0.0	.	117	.	.	.	none	.	.	PASS	Atlas-SNP
KNTC1	9735	hgsc.bcm.edu	hg19	12	123052914	123052914	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	KNTC1	NM_014708	exon21	c.C1711T	p.H571Y	CTTCGACATCGGG	.	158.0	73.0	212.0	0.0	.	182	.	.	.	none	.	.	PASS	Atlas-SNP
HSPH1	10808	hgsc.bcm.edu	hg19	13	31728852	31728852	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	HSPH1	NM_006644	exon4	c.A347G	p.Q116R	GTTATCTGCTCCA	.	77.0	37.0	92.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
HNRNPC	3183	hgsc.bcm.edu	hg19	14	21679430	21679430	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	HNRNPC	NM_031314	exon9	c.G873T	p.E291D	TCCTTCCTCAGCC	.	102.0	42.0	124.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
WDR20	91833	hgsc.bcm.edu	hg19	14	102675867	102675867	+	Missense_Mutation	SNP	A	A	G	rs374240865		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	WDR20	NM_001242417	exon4	c.A1453G	p.I485V	GGGGCCATTGCTT	.	126.0	70.0	134.0	0.0	.	35	.	.	.	weak	.	.	PASS	Atlas-SNP
AQR	9716	hgsc.bcm.edu	hg19	15	35196623	35196623	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	AQR	NM_014691	exon19	c.A1915C	p.T639P	TATTGGTCATATC	.	138.0	70.0	181.0	0.0	.	139	.	.	.	none	.	.	PASS	Atlas-SNP
RTF1	23168	hgsc.bcm.edu	hg19	15	41709461	41709461	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	RTF1	NM_015138	exon1	c.G148C	p.V50L	CGCGTCGTGATCG	.	172.0	78.0	243.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
CA12	771	hgsc.bcm.edu	hg19	15	63632589	63632589	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	CA12,NS,carcinoma,0,1	CA12	NM_206925	exon7	c.C645T	p.T215T	TTCAGCGGTCCTC	.	138.0	33.0	160.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
SLC24A1	9187	hgsc.bcm.edu	hg19	15	65943145	65943145	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	SLC24A1	NM_004727	exon7	c.G2658A	p.E886E	GGAGGAGGAAGAG	.	84.0	4.0	77.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
GNG13	51764	hgsc.bcm.edu	hg19	16	849062	849062	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	GNG13	NM_016541	exon2	c.G16A	p.V6M	GTGGCACGTCCCA	.	58.0	33.0	30.0	0.0	.	8	.	.	.	none	.	.	PASS	Atlas-SNP
NLRC3	197358	hgsc.bcm.edu	hg19	16	3594306	3594306	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	NLRC3	NM_178844	exon17	c.A2795G	p.D932G	CCGTCATCCCCGA	.	113.0	69.0	87.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
C16orf96	342346	hgsc.bcm.edu	hg19	16	4637082	4637082	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	C16orf96	NM_001145011	exon8	c.A2395T	p.N799Y	AAGGTGAATAAGA	.	144.0	91.0	101.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
C16orf72	29035	hgsc.bcm.edu	hg19	16	9196862	9196862	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	C16orf72	NM_014117	exon3	c.G329A	p.R110Q	ATCAACGAAGTTT	.	153.0	51.0	86.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
SNX29	92017	hgsc.bcm.edu	hg19	16	12571579	12571579	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	SNX29	NM_032167	exon19	c.T2041A	p.Y681N	CAGGTCTACATCC	.	295.0	173.0	273.0	1.0	.	60	.	.	.	none	.	.	PASS	Atlas-SNP
APOBR	55911	hgsc.bcm.edu	hg19	16	28507402	28507402	+	Missense_Mutation	SNP	C	C	T	rs62034314		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	APOBR	NM_018690	exon2	c.C1040T	p.T347I	CTGGGACAGCCTC	.	40.0	6.0	27.0	0.0	.	89	.	.	.	weak	C|0.500;T|0.500	0.500	PASS	Atlas-SNP
SPAG7	9552	hgsc.bcm.edu	hg19	17	4871090	4871090	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	SPAG7	NM_004890	exon1	c.C10T	p.L4L	CCAGTAGGTCCGC	.	74.0	20.0	45.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
MYH10	4628	hgsc.bcm.edu	hg19	17	8404183	8404183	+	Silent	SNP	G	G	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	MYH10	NM_001256012	exon29	c.C3705A	p.A1235A	CTCCAGGGCTGTT	.	42.0	15.0	39.0	0.0	.	148	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	hg19	17	11672607	11672607	+	Missense_Mutation	SNP	G	G	C	rs61744697	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	DNAH9	NM_001372	exon38	c.G7513C	p.V2505L	AAAAACGTGCCAT	.	98.0	58.0	74.0	0.0	.	695	.	.	.	alt	G|0.901;T|0.099	.	PASS	Atlas-SNP
NF1	4763	hgsc.bcm.edu	hg19	17	29654742	29654742	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	NF1	NM_001042492	exon38	c.G5494A	p.E1832K	CGCTGGGAACTGT	.	262.0	70.0	159.0	0.0	.	1586	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP4-3	85290	hgsc.bcm.edu	hg19	17	39324382	39324382	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	KRTAP4-3,colon,carcinoma,0,1	KRTAP4-3	NM_033187	exon1	c.T43A	p.C15S	GACCACAGCTCTG	.	152.0	106.0	109.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
ATP6V0A1	535	hgsc.bcm.edu	hg19	17	40629677	40629677	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	ATP6V0A1	NM_001130020	exon6	c.G444T	p.Q148H	TCAGCAGATGGCG	.	139.0	77.0	98.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
RNF213	57674	hgsc.bcm.edu	hg19	17	78356798	78356798	+	Silent	SNP	A	A	G	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	RNF213	NM_001256071	exon58	c.A13998G	p.T4666T	TGACACAGAATTG	.	161.0	99.0	97.0	0.0	.	766	.	.	.	none	.	.	PASS	Atlas-SNP
SERPINB3	6317	hgsc.bcm.edu	hg19	18	61324647	61324647	+	Splice_Site	SNP	C	C	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	SERPINB3	NM_006919	exon7	c.470-1G>A	.	TTTTTTCTGCAAG	.	291.0	105.0	359.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
ARID3A	1820	hgsc.bcm.edu	hg19	19	932539	932539	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	ARID3A	NM_005224	exon3	c.C490T	p.P164S	CCAGGCCCTGCCA	.	128.0	62.0	114.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
TLE2	7089	hgsc.bcm.edu	hg19	19	3019295	3019295	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	TLE2	NM_001144761	exon8	c.C578A	p.A193D	CCCTCGGCCTCCA	.	43.0	19.0	66.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
DPP9	91039	hgsc.bcm.edu	hg19	19	4700253	4700253	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	DPP9	NM_139159	exon10	c.A1049C	p.E350A	TGGAACTCAGCCA	.	67.0	32.0	87.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
MYO1F	4542	hgsc.bcm.edu	hg19	19	8615148	8615148	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	MYO1F,NS,carcinoma,0,1	MYO1F	NM_012335	exon10	c.C997G	p.R333G	CGCTGCGCCCGCC	.	87.0	36.0	90.0	2.0	.	128	.	.	.	none	.	.	PASS	Atlas-SNP
FCHO1	23149	hgsc.bcm.edu	hg19	19	17881335	17881335	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	FCHO1	NM_001161358	exon7	c.G438C	p.M146I	TTGCATGGACCAG	.	68.0	28.0	78.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF146	7705	hgsc.bcm.edu	hg19	19	36727964	36727964	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	ZNF146	NM_001099638	exon3	c.G622T	p.G208C	CATTCAGGTGATA	.	90.0	32.0	94.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
BTBD3	22903	hgsc.bcm.edu	hg19	20	11898938	11898938	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	BTBD3	NM_014962	exon1	c.G15T	p.K5N	TGACAAGGAAAAG	.	64.0	9.0	42.0	0.0	.	92	.	.	.	none	.	.	PASS	Atlas-SNP
KCNQ2	3785	hgsc.bcm.edu	hg19	20	62038497	62038497	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	KCNQ2,colon,carcinoma,0,2	KCNQ2	NM_172107	exon17	c.G2119A	p.A707T	GGGGCGCGGCCGG	.	372.0	45.0	280.0	0.0	.	201	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP10-7	386675	hgsc.bcm.edu	hg19	21	46021419	46021419	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	KRTAP10-7	NM_198689	exon2	c.C883T	p.P295S	TGCCAGCCGGCTT	.	23.0	14.0	46.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
LZTR1	8216	hgsc.bcm.edu	hg19	22	21348913	21348913	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	LZTR1	NM_006767	exon15	c.G1682A	p.R561H	TGTGCCGCCTGGA	.	29.0	6.0	42.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
KDELR3	11015	hgsc.bcm.edu	hg19	22	38877266	38877266	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	KDELR3	NM_016657	exon4	c.A401T	p.Q134L	TGCCCCAGCTCTT	.	83.0	49.0	118.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
KDELR3	11015	hgsc.bcm.edu	hg19	22	38877267	38877267	+	Silent	SNP	G	G	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	KDELR3	NM_016657	exon4	c.G402A	p.Q134Q	GCCCCAGCTCTTC	.	83.0	49.0	117.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
MED14	9282	hgsc.bcm.edu	hg19	X	40526005	40526005	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	MED14	NM_004229	exon24	c.A3232G	p.I1078V	GTCCTATTGAGAT	.	138.0	14.0	195.0	0.0	.	108	.	.	.	none	.	.	PASS	Atlas-SNP
PCGF2	7703	hgsc.bcm.edu	hg19	17	36891478	36891482	+	Frame_Shift_Del	DEL	AAGTT	AAGTT	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	AAGTT	AAGTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	PCGF2	NM_007144	exon11	c.1030_1034del	p.344_345del	.	.	225.0	54.0	137.0	0.0	.	24	.	0.24	0	none	.	.	PASS	Atlas-Indel,Pindel
DMC1	11144	hgsc.bcm.edu	hg19	22	38958351	38958351	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	DMC1	NM_007068	exon5	c.268delG	p.E90fs	.	.	122.0	54.0	116.0	0.0	.	33	.	0.442623	0	none	.	.	PASS	Atlas-Indel,Pindel
CYP2C18	1562	hgsc.bcm.edu	hg19	10	96447962	96447962	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	CYP2C18	NM_000772	exon3	c.411delG	p.G137fs	.	.	182.0	70.0	202.0	0.0	.	79	.	0.384615	0	none	.	.	PASS	Atlas-INDEL
YTHDC2	64848	hgsc.bcm.edu	hg19	5	112851004	112851005	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	YTHDC2	NM_022828	exon2	c.222_223del	p.74_75del	.	.	99.0	45.0	137.0	0.0	.	118	.	0.454545	0	none	.	.	PASS	Atlas-Indel,Pindel
HELQ	113510	hgsc.bcm.edu	hg19	4	84376623	84376624	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	HELQ	NM_133636	exon1	c.224_225insC	p.L75fs	.	.	146.0	61.0	165.0	0.0	.	95	.	0.417808	0	none	.	.	PASS	Atlas-Indel,Pindel
TRPM8	79054	hgsc.bcm.edu	hg19	2	234890560	234890561	+	Splice_Site	INS	-	-	TTT	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	TRPM8	NM_024080	exon19	c.2589+1->TTT	.	.	.	111.0	54.0	122.0	0.0	.	146	.	0.486486	0	none	.	.	PASS	Atlas-Indel,Pindel
ACTR8	93973	hgsc.bcm.edu	hg19	3	53914042	53914049	+	Frame_Shift_Del	DEL	TGAGGAAT	TGAGGAAT	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	TGAGGAAT	TGAGGAAT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	ACTR8	NM_022899	exon2	c.212_219del	p.71_73del	.	.	161.0	33.0	118.0	0.0	.	56	.	0.204969	0	none	.	.	PASS	Atlas-INDEL
NOP2	4839	hgsc.bcm.edu	hg19	12	6672800	6672803	+	Frame_Shift_Del	DEL	GGGG	GGGG	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	GGGG	GGGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	NOP2	NM_001258309	exon8	c.765_768del	p.255_256del	.	.	79.0	33.0	81.0	0.0	.	44	.	0.417722	0	none	.	.	PASS	Atlas-Indel,Pindel
CCSER1	401145	hgsc.bcm.edu	hg19	4	91229870	91229871	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	FAM190A_ENST00000509176,rectum,carcinoma,0,1	.	NM_207491	exon2	c.435_436insA	p.K145fs	.	.	157.0	63.0	197.0	0.0	.	.	.	0.401274	0	none	.	.	PASS	Atlas-Indel,Pindel
CNNM2	54805	hgsc.bcm.edu	hg19	10	104679232	104679232	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	CNNM2	NM_199076	exon1	c.994delA	p.I332fs	.	.	40.0	20.0	36.0	0.0	.	119	.	0.5	0	none	.	.	PASS	Atlas-Indel,Pindel
RD3	343035	hgsc.bcm.edu	hg19	1	211654560	211654576	+	Frame_Shift_Del	DEL	TGTGCTGGCCAGCCAGC	TGTGCTGGCCAGCCAGC	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	TGTGCTGGCCAGCCAGC	TGTGCTGGCCAGCCAGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	RD3	NM_183059	exon2	c.183_199del	p.61_67del	.	.	154.0	43.0	154.0	0.0	.	26	.	0.279221	0	none	.	.	PASS	Atlas-Indel,Pindel
ACTR8	93973	hgsc.bcm.edu	hg19	3	53914039	53914040	+	Frame_Shift_Del	DEL	AC	AC	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	ACTR8	NM_022899	exon2	c.221_222del	p.74_74del	.	.	161.0	33.0	122.0	0.0	.	56	.	0.204969	0	none	.	.	PASS	Atlas-INDEL
BRE	9577	hgsc.bcm.edu	hg19	2	28460154	28460155	+	In_Frame_Ins	INS	-	-	TGCTCACCA	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	BRE	NM_199191	exon8	c.766_767insTGCTCACCA	p.L256delinsLLTM	.	.	29.0	11.0	29.0	0.0	.	164	.	0.37931	0	none	.	.	PASS	Atlas-Indel,Pindel
MAN1B1	11253	hgsc.bcm.edu	hg19	9	139996055	139996055	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	MAN1B1	NM_016219	exon8	c.1184delT	p.V395fs	.	.	81.0	32.0	87.0	0.0	.	40	.	0.395062	0	none	.	.	PASS	Atlas-Indel,Pindel
UBN1	29855	hgsc.bcm.edu	hg19	16	4927063	4927068	+	In_Frame_Del	DEL	CATCGT	CATCGT	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	CATCGT	CATCGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	UBN1	NM_001079514	exon16	c.3215_3220del	p.1072_1074del	.	.	82.0	35.0	73.0	0.0	.	88	.	0.426829	0	none	.	.	PASS	Atlas-Indel,Pindel
MPND	84954	hgsc.bcm.edu	hg19	19	4357350	4357351	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	MPND	NM_032868	exon9	c.1096_1097del	p.366_366del	.	.	92.0	33.0	76.0	0.0	.	28	.	0.358696	0	none	.	.	PASS	Atlas-INDEL
CPNE2	221184	hgsc.bcm.edu	hg19	16	57147302	57147317	+	Frame_Shift_Del	DEL	CTCTTTGACCAGGACA	CTCTTTGACCAGGACA	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	CTCTTTGACCAGGACA	CTCTTTGACCAGGACA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	CPNE2	NM_152727	exon3	c.282_297del	p.94_99del	.	.	126.0	15.0	99.0	0.0	.	48	.	0.119048	0	none	.	.	PASS	Atlas-Indel,Pindel
CHST2	9435	hgsc.bcm.edu	hg19	3	142840750	142840750	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	CHST2	NM_004267	exon2	c.1091delA	p.H364fs	.	.	120.0	38.0	72.0	0.0	.	67	.	0.316667	0	none	.	.	PASS	Atlas-Indel,Pindel
TRIP12	9320	hgsc.bcm.edu	hg19	2	230656737	230656737	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	TRIP12	NM_004238	exon28	c.4036delT	p.F1346fs	.	.	205.0	79.0	235.0	0.0	.	207	.	0.385366	0	none	.	.	PASS	Atlas-Indel,Pindel
PER3	8863	hgsc.bcm.edu	hg19	1	7845028	7845028	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	PER3	NM_016831	exon1	c.90delG	p.E30fs	.	.	209.0	96.0	221.0	0.0	.	95	.	0.45933	0	none	.	.	PASS	Atlas-Indel,Pindel
KCNJ15	3772	hgsc.bcm.edu	hg19	21	39671467	39671468	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	KCNJ15	NM_170736	exon3	c.284_285insA	p.I95fs	.	.	50.0	30.0	90.0	0.0	.	43	.	0.6	0	none	.	.	PASS	Atlas-Indel,Pindel
C10orf71	118461	hgsc.bcm.edu	hg19	10	50532215	50532217	+	In_Frame_Del	DEL	TCA	TCA	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	TCA	TCA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	C10orf71	NM_001135196	exon3	c.1624_1626del	p.542_542del	.	.	109.0	41.0	150.0	0.0	.	179	.	0.376147	0	none	.	.	PASS	Atlas-Indel,Pindel
PPCDC	60490	hgsc.bcm.edu	hg19	15	75341008	75341009	+	Frame_Shift_Del	DEL	TT	TT	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	PPCDC	NM_021823	exon5	c.474_475del	p.158_159del	.	.	62.0	22.0	129.0	0.0	.	12	.	0.354839	0	none	.	.	PASS	Atlas-Indel,Pindel
CYP2C18	1562	hgsc.bcm.edu	hg19	10	96447965	96447965	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	CYP2C18	NM_000772	exon3	c.414delG	p.K138fs	.	.	180.0	71.0	206.0	0.0	.	79	.	0.394444	0	none	.	.	PASS	Atlas-INDEL
MPND	84954	hgsc.bcm.edu	hg19	19	4357354	4357354	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	MPND	NM_032868	exon9	c.1100delT	p.M367fs	.	.	88.0	34.0	77.0	0.0	.	28	.	0.386364	0	none	.	.	PASS	Atlas-INDEL
IKBKAP	8518	hgsc.bcm.edu	hg19	9	111642434	111642434	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	IKBKAP	NM_003640	exon32	c.3359delA	p.Y1120fs	.	.	105.0	49.0	110.0	0.0	.	122	.	0.466667	0	none	.	.	PASS	Atlas-Indel,Pindel
MPND	84954	hgsc.bcm.edu	hg19	19	4357351	4357354	+	Frame_Shift_Del	DEL	GATG	GATG	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	GATG	GATG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	MPND	NM_032868	exon9	c.1097_1100del	p.366_367del	.	.	92.0	25.0	77.0	0.0	.	28	.	0.272	.	none	.	.	PASS	Pindel
CYP2C18	1562	hgsc.bcm.edu	hg19	10	96447963	96447965	+	In_Frame_Del	DEL	AGA	AGA	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	CYP2C18	NM_000772	exon3	c.412_414del	p.138_138del	.	.	182.0	54.0	207.0	0.0	.	79	.	0.297	.	none	.	.	PASS	Pindel
TMEM242	729515	hgsc.bcm.edu	hg19	6	157739882	157739887	+	In_Frame_Del	DEL	AGCCCC	AGCCCC	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	AGCCCC	AGCCCC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	.	NM_018452	exon3	c.255_260del	p.85_87del	.	.	228.0	67.0	237.0	0.0	.	.	.	0.294	.	none	.	.	PASS	Pindel
ABCC5	10057	hgsc.bcm.edu	hg19	3	183695342	183695342	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	ABCC5	NM_005688	exon10	c.1368delC	p.S456fs	.	.	163.0	21.0	134.0	0.0	.	142	.	0.129	.	none	.	.	PASS	Pindel
CMBL	134147	hgsc.bcm.edu	hg19	5	10286542	10286543	+	Frame_Shift_Del	DEL	TC	TC	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	CMBL	NM_138809	exon4	c.390_391del	p.130_131del	.	.	63.0	23.0	91.0	0.0	.	24	.	0.365	.	none	.	.	PASS	Pindel
ANO8	57719	hgsc.bcm.edu	hg19	19	17440636	17440637	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	ANO8	NM_020959	exon12	c.1334_1335del	p.445_445del	.	.	129.0	36.0	133.0	0.0	.	67	.	0.279	.	none	.	.	PASS	Pindel
SNX7	51375	hgsc.bcm.edu	hg19	1	99127306	99127307	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	SNX7	NM_015976	exon1	c.19_20insC	p.A7fs	.	.	35.0	10.0	36.0	0.0	.	76	.	0.286	.	none	.	.	PASS	Pindel
RIMBP3C	150221	hgsc.bcm.edu	hg19	22	21741340	21741341	+	In_Frame_Ins	INS	-	-	TGCAGG	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	RIMBP3C	NM_001128633	exon1	c.3193_3194insTGCAGG	p.L1065delinsLQV	.	.	19.0	19.0	0.0	0.0	.	6	.	1.000	.	none	.	.	PASS	Pindel
ACTR8	93973	hgsc.bcm.edu	hg19	3	53914039	53914049	+	Frame_Shift_Del	DEL	ACGTGAGGAAT	ACGTGAGGAAT	-	novel		TCGA-5P-A9JY-01A-11D-A42J-10	TCGA-5P-A9JY-10A-01D-A42M-10	ACGTGAGGAAT	ACGTGAGGAAT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d3702abb-947d-4b7c-93d3-30102121f09b	f6bea4da-a48b-4082-b9aa-e19d3af1ac5c	.	ACTR8	NM_022899	exon2	c.212_222del	p.71_74del	.	.	170.0	31.0	121.0	0.0	.	56	.	0.182	.	none	.	.	PASS	Pindel
