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
ZMYM6	9204	hgsc.bcm.edu	hg19	1	35453206	35453206	+	Silent	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	ZMYM6	NM_007167	exon16	c.A3477G	p.Q1159Q	ATTCTCTTGTGTG	.	266.0	91.0	325.0	0.0	.	110	.	.	.	none	.	.	PASS	Atlas-SNP
SZT2	23334	hgsc.bcm.edu	hg19	1	43907699	43907699	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	SZT2	NM_015284	exon55	c.T7600C	p.C2534R	GGCCCTTGTTCCC	.	100.0	39.0	96.0	0.0	.	383	.	.	.	none	.	.	PASS	Atlas-SNP
AGBL4	84871	hgsc.bcm.edu	hg19	1	49100226	49100226	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	AGBL4	NM_032785	exon9	c.C890T	p.P297L	ACCCATGGAGAGG	.	103.0	5.0	34.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
ALG14	199857	hgsc.bcm.edu	hg19	1	95448663	95448663	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	ALG14	NM_144988	exon4	c.C620A	p.P207H	GATTTGGGATACT	.	97.0	36.0	62.0	0.0	.	13	.	.	.	none	.	.	PASS	Atlas-SNP
COL11A1	1301	hgsc.bcm.edu	hg19	1	103461460	103461460	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	COL11A1_ENST00000370096,NS,carcinoma,0,2	COL11A1	NM_080629	exon28	c.C2336G	p.A779G	CCATCTGCTCCCT	.	184.0	10.0	115.0	0.0	.	972	.	.	.	none	.	.	PASS	Atlas-SNP
LRIG2	9860	hgsc.bcm.edu	hg19	1	113661942	113661942	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	LRIG2	NM_014813	exon17	c.A2768G	p.Y923C	ACACCTATATTGC	.	118.0	8.0	103.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
FLG2	388698	hgsc.bcm.edu	hg19	1	152324407	152324407	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	FLG2	NM_001014342	exon3	c.G5855A	p.G1952E	CCAGATCCCCTTC	.	69.0	31.0	31.0	0.0	.	431	.	.	.	none	.	.	PASS	Atlas-SNP
ADAM15	8751	hgsc.bcm.edu	hg19	1	155028274	155028274	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	ADAM15	NM_001261464	exon7	c.T651G	p.D217E	GCGGGATGTGGTA	.	86.0	32.0	96.0	0.0	.	92	.	.	.	none	.	.	PASS	Atlas-SNP
EFNA1	1942	hgsc.bcm.edu	hg19	1	155106478	155106478	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	EFNA1	NM_004428	exon5	c.C553A	p.P185T	GCTGCCCCACGCC	.	47.0	14.0	64.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
FDPS	2224	hgsc.bcm.edu	hg19	1	155279709	155279709	+	Silent	SNP	C	C	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	FDPS	NM_001135821	exon2	c.C129T	p.A43A	CCTGGCCTGGCAC	.	75.0	33.0	87.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
OR10K2	391107	hgsc.bcm.edu	hg19	1	158390085	158390085	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	OR10K2	NM_001004476	exon1	c.A572G	p.H191R	TGGTTATGGTGAG	.	127.0	8.0	57.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	hg19	1	158592846	158592846	+	Missense_Mutation	SNP	C	C	T	rs199993378	bycluster	TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	SPTA1,colon,carcinoma,0,2	SPTA1	NM_003126	exon43	c.G6047A	p.R2016H	TCCCAGCGCTTCA	.	124.0	40.0	74.0	0.0	.	720	.	.	.	weak	.	.	PASS	Atlas-SNP
MAPKAPK2	9261	hgsc.bcm.edu	hg19	1	206905963	206905963	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	MAPKAPK2	NM_032960	exon10	c.A1103G	p.E368G	ACTACGAGCAGAT	.	199.0	64.0	232.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	hg19	1	225445671	225445671	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	DNAH14	NM_001373	exon45	c.T6857C	p.L2286S	CTTCATTACTAAC	.	64.0	31.0	64.0	0.0	.	300	.	.	.	none	.	.	PASS	Atlas-SNP
OR2T34	127068	hgsc.bcm.edu	hg19	1	248737994	248737994	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	OR2T34	NM_001001821	exon1	c.T65C	p.L22P	GCAAAGAGTCCCG	.	429.0	111.0	223.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
OR2T34	127068	hgsc.bcm.edu	hg19	1	248737995	248737995	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	OR2T34	NM_001001821	exon1	c.C64A	p.L22I	CAAAGAGTCCCGT	.	429.0	110.0	219.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
OR2T34	127068	hgsc.bcm.edu	hg19	1	248738035	248738035	+	Silent	SNP	A	A	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	OR2T34	NM_001001821	exon1	c.T24G	p.S8S	ATTCTGAGAAGTC	.	391.0	118.0	204.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
GREB1	9687	hgsc.bcm.edu	hg19	2	11758487	11758487	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	GREB1	NM_014668	exon22	c.G3486A	p.Q1162Q	GCCCCAGCCCCGT	.	113.0	38.0	224.0	0.0	.	308	.	.	.	none	.	.	PASS	Atlas-SNP
DNAJC5G	285126	hgsc.bcm.edu	hg19	2	27500849	27500849	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	DNAJC5G	NM_173650	exon4	c.G341C	p.R114T	GCGTCAGATACTA	.	149.0	53.0	120.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
AQP12B	653437	hgsc.bcm.edu	hg19	2	241622206	241622206	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	AQP12B	NM_001102467	exon1	c.C49A	p.L17I	CACAGAGGGTGAA	.	64.0	44.0	109.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
BAP1	8314	hgsc.bcm.edu	hg19	3	52437657	52437657	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	BAP1	NM_004656	exon13	c.G1504C	p.A502P	TGAAAGCACTGCC	.	50.0	41.0	108.0	0.0	.	371	.	.	.	none	.	.	PASS	Atlas-SNP
CACNA1D	776	hgsc.bcm.edu	hg19	3	53684852	53684852	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	CACNA1D	NM_001128840	exon4	c.T530G	p.F177C	AGACATTTTTGAA	.	66.0	57.0	44.0	0.0	.	324	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC39	339829	hgsc.bcm.edu	hg19	3	180334122	180334122	+	Silent	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	CCDC39	NM_181426	exon19	c.A2616G	p.T872T	GCCTTTTGTGCTA	.	102.0	70.0	45.0	0.0	.	242	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF141	7700	hgsc.bcm.edu	hg19	4	366865	366865	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	ZNF141	NM_003441	exon4	c.A639G	p.I213M	TTTAATATTTAAT	.	77.0	33.0	59.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
LOC650293	0	hgsc.bcm.edu	hg19	4	8951827	8951827	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	.	NM_001040071	exon1	c.C351G	p.F117L	CTTTTTCCTTAGC	.	8.0	4.0	5.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1239	57495	hgsc.bcm.edu	hg19	4	37445619	37445619	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	KIAA1239	NM_001144990	exon7	c.T2009C	p.M670T	CCAAAATGGGTCT	.	143.0	54.0	81.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
N4BP2	55728	hgsc.bcm.edu	hg19	4	40121601	40121601	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	N4BP2	NM_018177	exon9	c.T1870C	p.S624P	ATTTTATCTTTAT	.	257.0	92.0	182.0	0.0	.	166	.	.	.	none	.	.	PASS	Atlas-SNP
SHROOM3	57619	hgsc.bcm.edu	hg19	4	77660481	77660481	+	Silent	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	SHROOM3	NM_020859	exon5	c.T1155C	p.P385P	CCTGCCTCCAGCT	.	91.0	33.0	113.0	0.0	.	134	.	.	.	none	.	.	PASS	Atlas-SNP
IL6ST	3572	hgsc.bcm.edu	hg19	5	55247359	55247359	+	Silent	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	IL6ST	NM_002184	exon14	c.A1773G	p.R591R	TGCCATTCGTACC	.	51.0	17.0	36.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
GFM2	84340	hgsc.bcm.edu	hg19	5	74017604	74017604	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	GFM2	NM_032380	exon21	c.A2216G	p.Y739C	GTTGAATAACCCT	.	65.0	32.0	36.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHGB2	56103	hgsc.bcm.edu	hg19	5	140741837	140741837	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	PCDHGB2	NM_018923	exon1	c.C2135T	p.S712F	CAATCTCCCTGCG	.	92.0	10.0	163.0	0.0	.	196	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHGB6	56100	hgsc.bcm.edu	hg19	5	140788766	140788766	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	PCDHGB6	NM_032100	exon1	c.G997T	p.V333L	TGTAAAGTAATCA	.	131.0	54.0	263.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGAP26	23092	hgsc.bcm.edu	hg19	5	142281604	142281604	+	Missense_Mutation	SNP	C	C	A	rs142837036	alternate_allele	TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	ARHGAP26,colon,carcinoma,+1,1	ARHGAP26	NM_015071	exon7	c.C702A	p.N234K	ACAGAACGTGAGT	.	119.0	40.0	47.0	0.0	.	57	.	.	.	alt	C|1.000;T|0.000	.	PASS	Atlas-SNP
FAXDC2	10826	hgsc.bcm.edu	hg19	5	154200926	154200926	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	.	NM_032385	exon8	c.A739G	p.I247V	TGGTGATGGAGGA	.	139.0	52.0	61.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
DOCK2	1794	hgsc.bcm.edu	hg19	5	169127100	169127100	+	Silent	SNP	C	C	A	rs141406325	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	DOCK2	NM_004946	exon13	c.C1215A	p.T405T	GACCACCGTGGTG	.	74.0	25.0	20.0	0.0	.	389	.	.	.	alt	C|0.999;T|0.001	.	PASS	Atlas-SNP
PGC	5225	hgsc.bcm.edu	hg19	6	41712458	41712458	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	PGC	NM_002630	exon2	c.C148G	p.P50A	AAGCAGGATCATA	.	79.0	33.0	62.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
CUL7	9820	hgsc.bcm.edu	hg19	6	43020188	43020188	+	Missense_Mutation	SNP	G	G	C	rs4711738	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes;alternate_allele	TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	CUL7	NM_001168370	exon2	c.C495G	p.D165E	CTTCACGTCGGTT	.	51.0	19.0	74.0	0.0	.	133	.	.	.	alt	G|0.755;A|0.245	.	PASS	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	hg19	6	51523921	51523921	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	PKHD1	NM_138694	exon61	c.A11003T	p.D3668V	GGCGAATCACCAA	.	69.0	25.0	21.0	0.0	.	927	.	.	.	none	.	.	PASS	Atlas-SNP
COL19A1	1310	hgsc.bcm.edu	hg19	6	70850849	70850849	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	COL19A1	NM_001858	exon20	c.G1450C	p.E484Q	TAGGGAGAGCCTT	.	91.0	28.0	32.0	0.0	.	232	.	.	.	none	.	.	PASS	Atlas-SNP
EEF1A1	1915	hgsc.bcm.edu	hg19	6	74227637	74227637	+	Missense_Mutation	SNP	T	T	C	rs9718686	bycluster	TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	EEF1A1	NM_001402	exon8	c.A1285G	p.M429V	GTCTCATATCACG	.	339.0	134.0	335.0	0.0	.	56	.	.	.	weak	.	.	PASS	Atlas-SNP
LATS1	9113	hgsc.bcm.edu	hg19	6	150004253	150004253	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	LATS1	NM_001270519	exon4	c.C1972G	p.L658V	GATGTAGACGCTG	.	80.0	24.0	58.0	0.0	.	241	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1324L	222223	hgsc.bcm.edu	hg19	7	86568242	86568242	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	KIAA1324L	NM_001142749	exon7	c.G882T	p.K294N	GCCTGGCTTGCAA	.	78.0	40.0	28.0	0.0	.	225	.	.	.	none	.	.	PASS	Atlas-SNP
PON1	5444	hgsc.bcm.edu	hg19	7	94931604	94931604	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	PON1	NM_000446	exon8	c.T822A	p.D274E	CTCAGGATCCACA	.	86.0	15.0	45.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM139	135932	hgsc.bcm.edu	hg19	7	142983809	142983809	+	Silent	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	TMEM139	NM_001242773	exon4	c.T538C	p.L180L	CAGAGCTTGGCGG	.	128.0	39.0	102.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
CLCN1	1180	hgsc.bcm.edu	hg19	7	143047464	143047464	+	Splice_Site	SNP	G	G	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	CLCN1	NM_000083	exon21	c.2404-1G>T	.	CTGACAGATTGAG	.	77.0	46.0	59.0	0.0	.	141	.	.	.	none	.	.	PASS	Atlas-SNP
MTUS1	57509	hgsc.bcm.edu	hg19	8	17613134	17613134	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	MTUS1	NM_001001924	exon2	c.C183G	p.D61E	AGCAGGGTCAGTT	.	105.0	13.0	100.0	0.0	.	144	.	.	.	none	.	.	PASS	Atlas-SNP
SNAI2	6591	hgsc.bcm.edu	hg19	8	49831524	49831524	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	SNAI2	NM_003068	exon3	c.C649A	p.H217N	TGCAGTGAGGGCA	.	38.0	10.0	33.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
CRH	1392	hgsc.bcm.edu	hg19	8	67089639	67089639	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	CRH	NM_000756	exon2	c.T74C	p.L25P	CTCAGGAGCGCCC	.	50.0	19.0	100.0	0.0	.	8	.	.	.	none	.	.	PASS	Atlas-SNP
ESRP1	54845	hgsc.bcm.edu	hg19	8	95653652	95653652	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	ESRP1	NM_001122827	exon1	c.A106T	p.K36X	TTCTGGAAAGTCG	.	57.0	28.0	88.0	0.0	.	148	.	.	.	none	.	.	PASS	Atlas-SNP
OXR1	55074	hgsc.bcm.edu	hg19	8	107670240	107670240	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	OXR1	NM_181354	exon1	c.A26G	p.E9G	TCACCGAGAAGAG	.	217.0	89.0	413.0	0.0	.	190	.	.	.	none	.	.	PASS	Atlas-SNP
EBAG9	9166	hgsc.bcm.edu	hg19	8	110567083	110567083	+	Missense_Mutation	SNP	G	G	T	rs370306388	alternate_allele	TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	EBAG9	NM_004215	exon4	c.G288T	p.K96N	TTTTAAGGACATG	.	114.0	5.0	36.0	0.0	.	23	.	.	.	alt	.	.	PASS	Atlas-SNP
ZFAT	57623	hgsc.bcm.edu	hg19	8	135521962	135521962	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	ZFAT	NM_020863	exon15	c.T3392C	p.I1131T	TGCAGGATGTTCA	.	40.0	15.0	53.0	0.0	.	265	.	.	.	none	.	.	PASS	Atlas-SNP
PTK2	5747	hgsc.bcm.edu	hg19	8	141685559	141685559	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	PTK2	NM_005607	exon28	c.G2668A	p.D890N	CTTTACCTGGTTT	.	86.0	32.0	85.0	0.0	.	311	.	.	.	none	.	.	PASS	Atlas-SNP
GPT	2875	hgsc.bcm.edu	hg19	8	145732381	145732381	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	GPT	NM_005309	exon11	c.T1489C	p.X497R	TACTCCTGAGCAC	.	86.0	32.0	135.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
SMARCA2	6595	hgsc.bcm.edu	hg19	9	2115822	2115822	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	SMARCA2	NM_139045	exon25	c.G3457C	p.D1153H	AAACAGGATCTGC	.	236.0	84.0	130.0	0.0	.	313	.	.	.	none	.	.	PASS	Atlas-SNP
TLN1	7094	hgsc.bcm.edu	hg19	9	35706215	35706215	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	TLN1	NM_006289	exon40	c.A5339G	p.K1780R	GCCTCCTTGGCAG	.	32.0	7.0	29.0	0.0	.	185	.	.	.	none	.	.	PASS	Atlas-SNP
TJP2	9414	hgsc.bcm.edu	hg19	9	71855017	71855017	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	TJP2	NM_001170416	exon17	c.T2613G	p.F871L	GTTATTTGATCAA	.	74.0	14.0	50.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM245	23731	hgsc.bcm.edu	hg19	9	111849612	111849612	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	.	NM_032012	exon6	c.C1161T	p.L387L	CTTTTTGAGTATC	.	64.0	23.0	35.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
DENND1A	57706	hgsc.bcm.edu	hg19	9	126143930	126143930	+	Silent	SNP	C	C	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	DENND1A	NM_020946	exon22	c.G2811A	p.K937K	CCCCTGCTTGGTC	.	91.0	24.0	176.0	0.0	.	112	.	.	.	none	.	.	PASS	Atlas-SNP
ABL1	25	hgsc.bcm.edu	hg19	9	133748374	133748374	+	Silent	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	ABL1	NM_007313	exon6	c.T1092C	p.T364T	GGCCACTCAGATC	.	105.0	34.0	71.0	0.0	.	1632	.	.	.	none	.	.	PASS	Atlas-SNP
PPP1R26	9858	hgsc.bcm.edu	hg19	9	138379517	138379517	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	.	NM_014811	exon4	c.G3161C	p.G1054A	GGGGGGGCGTCGG	.	49.0	18.0	101.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
SEC16A	9919	hgsc.bcm.edu	hg19	9	139369535	139369535	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	SEC16A	NM_014866	exon3	c.T2533C	p.F845L	CAGAAAAGTTAAT	.	57.0	18.0	101.0	0.0	.	249	.	.	.	none	.	.	PASS	Atlas-SNP
ATP5C1	509	hgsc.bcm.edu	hg19	10	7842038	7842038	+	Silent	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	ATP5C1	NM_001001973	exon6	c.T621C	p.N207N	CCTTAATACCGTT	.	67.0	18.0	67.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
ARID5B	84159	hgsc.bcm.edu	hg19	10	63851119	63851119	+	Silent	SNP	C	C	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	ARID5B	NM_032199	exon10	c.C1897T	p.L633L	GACCAGCTGGGCA	.	140.0	53.0	53.0	0.0	.	125	.	.	.	none	.	.	PASS	Atlas-SNP
PDZD8	118987	hgsc.bcm.edu	hg19	10	119044910	119044910	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	PDZD8	NM_173791	exon5	c.A1334G	p.Y445C	CTTTCATAGTACA	.	82.0	34.0	62.0	0.0	.	85	.	.	.	none	.	.	PASS	Atlas-SNP
SFXN4	119559	hgsc.bcm.edu	hg19	10	120919242	120919242	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	SFXN4	NM_213649	exon6	c.A358T	p.T120S	TCACCGTGGGTGC	.	89.0	50.0	61.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
ACADSB	36	hgsc.bcm.edu	hg19	10	124793964	124793964	+	Silent	SNP	A	A	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	ACADSB	NM_001609	exon2	c.A135C	p.T45T	TATAACAAATAAT	.	26.0	10.0	29.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
RRP8	23378	hgsc.bcm.edu	hg19	11	6624661	6624661	+	Silent	SNP	A	A	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	RRP8	NM_015324	exon1	c.T72A	p.P24P	AGGCGGAGGTCGT	.	76.0	27.0	154.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
GLYAT	10249	hgsc.bcm.edu	hg19	11	58482795	58482795	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	GLYAT	NM_005838	exon3	c.G183T	p.Q61H	CTGCTCCTGAGGG	.	29.0	8.0	5.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
PLA2G16	11145	hgsc.bcm.edu	hg19	11	63342507	63342507	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	PLA2G16	NM_001128203	exon5	c.C399T	p.V133V	GATGATGACATCT	.	41.0	16.0	23.0	0.0	.	12	.	.	.	none	.	.	PASS	Atlas-SNP
RTN3	10313	hgsc.bcm.edu	hg19	11	63487846	63487846	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	RTN3	NM_001265589	exon3	c.A1872T	p.E624D	GACAGAATTCTCA	.	75.0	31.0	58.0	0.0	.	104	.	.	.	none	.	.	PASS	Atlas-SNP
SAC3D1	29901	hgsc.bcm.edu	hg19	11	64811959	64811959	+	Silent	SNP	C	C	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	SAC3D1	NM_013299	exon2	c.C837T	p.V279V	CATGGTCAACCTC	.	53.0	26.0	79.0	0.0	.	13	.	.	.	none	.	.	PASS	Atlas-SNP
PPFIA1	8500	hgsc.bcm.edu	hg19	11	70179622	70179622	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	PPFIA1	NM_177423	exon10	c.A1259C	p.E420A	AGATGGAAGCACA	.	200.0	83.0	213.0	0.0	.	114	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1551	55196	hgsc.bcm.edu	hg19	12	32134899	32134899	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	.	NM_018169	exon4	c.T1010A	p.F337Y	GAAATTTCACTAA	.	174.0	62.0	104.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
GXYLT1	283464	hgsc.bcm.edu	hg19	12	42481670	42481670	+	Missense_Mutation	SNP	C	C	T	rs200973030	bycluster	TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	Q8IXV1_HUMAN,NS,carcinoma,-1,2	GXYLT1	NM_173601	exon8	c.G1241A	p.C414Y	TTTCCACAGTATG	.	42.0	5.0	30.0	0.0	.	47	.	.	.	weak	.	.	PASS	Atlas-SNP
GXYLT1	283464	hgsc.bcm.edu	hg19	12	42481671	42481671	+	Missense_Mutation	SNP	A	A	G	rs202200134	bycluster	TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	Q8IXV1_HUMAN,NS,carcinoma,0,2	GXYLT1	NM_173601	exon8	c.T1240C	p.C414R	TTCCACAGTATGT	.	42.0	5.0	31.0	0.0	.	47	.	.	.	weak	.	.	PASS	Atlas-SNP
KRT2	3849	hgsc.bcm.edu	hg19	12	53040651	53040651	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	KRT2,NS,carcinoma,0,1	KRT2	NM_000423	exon7	c.G1342T	p.A448S	GCAGGGCCTCCTC	.	38.0	13.0	30.0	1.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
MTERFD3	80298	hgsc.bcm.edu	hg19	12	107372223	107372223	+	Silent	SNP	A	A	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	MTERFD3	NM_001033050	exon3	c.T270C	p.D90D	AGTCTCATCGGCA	.	48.0	18.0	59.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
CDADC1	81602	hgsc.bcm.edu	hg19	13	49852539	49852539	+	Silent	SNP	T	T	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	CDADC1	NM_030911	exon7	c.T1104A	p.A368A	CAATGCTTTTCCT	.	79.0	31.0	53.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
MYH6	4624	hgsc.bcm.edu	hg19	14	23862152	23862152	+	Missense_Mutation	SNP	C	C	T	rs375169402		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	MYH6,neck,malignant_melanoma,0,1	MYH6	NM_002471	exon24	c.G3220A	p.D1074N	GTTTATCATTTTC	.	42.0	17.0	40.0	1.0	.	274	.	.	.	weak	.	.	PASS	Atlas-SNP
SIPA1L1	26037	hgsc.bcm.edu	hg19	14	72200389	72200389	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	SIPA1L1	NM_015556	exon19	c.T4931C	p.F1644S	GAGAGTTCTCAGC	.	28.0	12.0	28.0	0.0	.	219	.	.	.	none	.	.	PASS	Atlas-SNP
COQ6	51004	hgsc.bcm.edu	hg19	14	74422588	74422588	+	Silent	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	COQ6	NM_182476	exon4	c.T438C	p.D146D	GAATGATGTCATC	.	29.0	12.0	38.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
INO80	54617	hgsc.bcm.edu	hg19	15	41313309	41313309	+	Silent	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	INO80	NM_017553	exon26	c.A3063G	p.P1021P	ATCCAATGGCACT	.	45.0	20.0	35.0	0.0	.	122	.	.	.	none	.	.	PASS	Atlas-SNP
GANC	2595	hgsc.bcm.edu	hg19	15	42640335	42640335	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	GANC	NM_198141	exon21	c.C2339A	p.P780Q	TGATACCAATAAA	.	64.0	29.0	52.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
SLC28A1	9154	hgsc.bcm.edu	hg19	15	85438656	85438656	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	SLC28A1	NM_201651	exon7	c.A509G	p.Q170R	TCCCTCAGATCAC	.	123.0	55.0	104.0	0.0	.	118	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM8A	58986	hgsc.bcm.edu	hg19	16	426371	426371	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	TMEM8A	NM_021259	exon6	c.C989T	p.S330F	CTCGGGGACAGCA	.	57.0	27.0	110.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
RHOT2	89941	hgsc.bcm.edu	hg19	16	720472	720472	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	RHOT2	NM_138769	exon8	c.T455C	p.L152P	AGAACCTGAGGAA	.	56.0	16.0	117.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH3	55567	hgsc.bcm.edu	hg19	16	21147803	21147803	+	Missense_Mutation	SNP	C	C	T	rs200178510		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	DNAH3	NM_017539	exon6	c.G728A	p.R243H	TCTTTGCGAATTC	.	106.0	39.0	59.0	0.0	.	1142	.	.	.	weak	C|0.999;T|0.001	0.001	PASS	Atlas-SNP
E2F4	1874	hgsc.bcm.edu	hg19	16	67226969	67226969	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	E2F4	NM_001950	exon3	c.G303A	p.K101K	GCTCAAGGCAGAG	.	40.0	17.0	64.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	hg19	16	72845510	72845510	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	ZFHX3	NM_006885	exon7	c.T3830C	p.V1277A	GGTGCCACGCTGT	.	43.0	22.0	36.0	0.0	.	404	.	.	.	none	.	.	PASS	Atlas-SNP
DEF8	54849	hgsc.bcm.edu	hg19	16	90021581	90021581	+	Silent	SNP	C	C	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	DEF8	NM_207514	exon4	c.C312A	p.A104A	AGAGGCCCTGCCT	.	34.0	9.0	37.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
SPAG7	9552	hgsc.bcm.edu	hg19	17	4863151	4863151	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	SPAG7	NM_004890	exon6	c.G478T	p.A160S	CGCTGGCAGGGCT	.	54.0	12.0	31.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
CLDN7	1366	hgsc.bcm.edu	hg19	17	7164034	7164034	+	Silent	SNP	A	A	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	CLDN7	NM_001307	exon3	c.T400C	p.L134L	CTACCAAGGCGGC	.	123.0	29.0	124.0	0.0	.	11	.	.	.	none	.	.	PASS	Atlas-SNP
MPRIP	23164	hgsc.bcm.edu	hg19	17	17049353	17049353	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	MPRIP,NS,carcinoma,0,1	MPRIP	NM_015134	exon10	c.G1153A	p.D385N	CAGCCCGACCTGC	.	114.0	35.0	80.0	0.0	.	87	.	.	.	none	.	.	PASS	Atlas-SNP
TSHZ1	10194	hgsc.bcm.edu	hg19	18	72999615	72999615	+	Silent	SNP	C	C	A	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	TSHZ1	NM_005786	exon2	c.C2118A	p.S706S	GCAGTCCATCATG	.	63.0	24.0	91.0	0.0	.	104	.	.	.	none	.	.	PASS	Atlas-SNP
PODNL1	79883	hgsc.bcm.edu	hg19	19	14063934	14063934	+	Silent	SNP	G	G	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	PODNL1	NM_001146255	exon1	c.C15A	p.T5T	TACCTGGGTGGGC	.	58.0	17.0	84.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
LPHN1	22859	hgsc.bcm.edu	hg19	19	14281546	14281546	+	Silent	SNP	G	G	A	rs149098258		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	LPHN1	NM_001008701	exon4	c.C342T	p.P114P	AGGACAGGGGTCA	.	91.0	43.0	104.0	0.0	.	107	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
ZBTB32	27033	hgsc.bcm.edu	hg19	19	36205878	36205878	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	ZBTB32	NM_014383	exon2	c.C350T	p.A117V	ACAGGGCTAAAAA	.	99.0	42.0	92.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
SIPA1L3	23094	hgsc.bcm.edu	hg19	19	38684203	38684203	+	Silent	SNP	G	G	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	SIPA1L3	NM_015073	exon18	c.G4623C	p.R1541R	GCAGCGGACGCTG	.	35.0	12.0	100.0	0.0	.	150	.	.	.	none	.	.	PASS	Atlas-SNP
ATP1A3	478	hgsc.bcm.edu	hg19	19	42492528	42492528	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	ATP1A3	NM_001256214	exon3	c.C134G	p.T45R	TGCTCTGTCTGAG	.	42.0	15.0	73.0	0.0	.	117	.	.	.	none	.	.	PASS	Atlas-SNP
RTN2	6253	hgsc.bcm.edu	hg19	19	45991773	45991773	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	RTN2	NM_005619	exon9	c.G1453A	p.V485M	CAATCACTCCTGT	.	85.0	7.0	83.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
GRIN2D	2906	hgsc.bcm.edu	hg19	19	48945411	48945411	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	GRIN2D	NM_000836	exon12	c.G2445C	p.E815D	AGATGAGATCGAG	.	45.0	14.0	77.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
RIPK4	54101	hgsc.bcm.edu	hg19	21	43164161	43164161	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	RIPK4	NM_020639	exon7	c.A1076G	p.E359G	TTGGACTCAGAGG	.	70.0	28.0	98.0	0.0	.	151	.	.	.	none	.	.	PASS	Atlas-SNP
SLITRK4	139065	hgsc.bcm.edu	hg19	X	142718226	142718226	+	Nonsense_Mutation	SNP	A	A	C	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	SLITRK4	NM_001184750	exon2	c.T699G	p.Y233X	AATGTTATATGGC	.	101.0	78.0	107.0	0.0	.	162	.	.	.	none	.	.	PASS	Atlas-SNP
MSH2	4436	hgsc.bcm.edu	hg19	2	47637500	47637500	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	MSH2	NM_000251	exon3	c.633delG	p.G211fs	.	.	105.0	42.0	80.0	0.0	.	198	.	0.4	0	none	.	.	PASS	Atlas-Indel,Pindel
CASC5	57082	hgsc.bcm.edu	hg19	15	40915982	40915983	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	CASC5	NM_170589	exon11	c.3598_3599insT	p.I1200fs	.	.	99.0	33.0	82.0	0.0	.	269	.	0.333333	0	none	.	.	PASS	Atlas-Indel,Pindel
WDR81	124997	hgsc.bcm.edu	hg19	17	1634093	1634093	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	WDR81	NM_001163809	exon3	c.3819delA	p.P1273fs	.	.	81.0	29.0	88.0	0.0	.	180	.	0.358025	0	none	.	.	PASS	Atlas-Indel,Pindel
PDZK1	5174	hgsc.bcm.edu	hg19	1	145756430	145756430	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	PDZK1	NM_002614	exon7	c.806delA	p.K269fs	.	.	286.0	31.0	167.0	0.0	.	15	.	0.108392	0	none	.	.	PASS	Atlas-Indel,Pindel
FBLN5	10516	hgsc.bcm.edu	hg19	14	92336630	92336630	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	FBLN5	NM_006329	exon11	c.1286delT	p.I429fs	.	.	97.0	33.0	61.0	0.0	.	60	.	0.340206	0	none	.	.	PASS	Atlas-Indel,Pindel
SWI5	375757	hgsc.bcm.edu	hg19	9	131038966	131038966	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	.	NM_001040011	exon2	c.357delT	p.F119fs	.	.	52.0	15.0	60.0	0.0	.	.	.	0.288462	0	none	.	.	PASS	Atlas-Indel,Pindel
PRKAG2	51422	hgsc.bcm.edu	hg19	7	151372596	151372597	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.,4	PRKAG2	NM_016203	exon4	c.594_595insC	p.P198fs	.	.	166.0	85.0	81.0	0.0	.	86	.	0.512048	0	none	.	.	PASS	Atlas-Indel,Pindel
DYNC2LI1	51626	hgsc.bcm.edu	hg19	2	44014392	44014392	+	Splice_Site	DEL	A	A	-	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	DYNC2LI1	NM_016008	exon4	c.231+2A>-	.	.	.	83.0	27.0	53.0	0.0	.	46	.	0.325301	0	none	.	.	PASS	Atlas-Indel,Pindel
EP400	57634	hgsc.bcm.edu	hg19	12	132505838	132505838	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	EP400	NM_015409	exon23	c.4661delT	p.L1554fs	.	.	56.0	20.0	111.0	0.0	.	370	.	0.357143	0	none	.	.	PASS	Atlas-Indel,Pindel
NUGGC	389643	hgsc.bcm.edu	hg19	8	27931921	27931923	+	In_Frame_Del	DEL	CTG	CTG	-	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	CTG	CTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	.	NM_001010906	exon2	c.6_8del	p.2_3del	.	.	59.0	12.0	32.0	0.0	.	.	.	0.20339	0	none	.	.	PASS	Atlas-Indel,Pindel
LDB3	11155	hgsc.bcm.edu	hg19	10	88441289	88441290	+	Frame_Shift_Del	DEL	CC	CC	-	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	LDB3_ENST00000429277,NS,carcinoma,0,3	LDB3	NM_001171611	exon4	c.417_418del	p.139_140del	.	.	79.0	27.0	176.0	0.0	.	164	.	0.341772	0	none	.	.	PASS	Atlas-Indel,Pindel
RERE	473	hgsc.bcm.edu	hg19	1	8425963	8425975	+	Frame_Shift_Del	DEL	CCTACGATGGGCT	CCTACGATGGGCT	-	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	CCTACGATGGGCT	CCTACGATGGGCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	RERE	NM_012102	exon14	c.1345_1357del	p.449_453del	.	.	54.0	14.0	70.0	0.0	.	129	.	0.259259	0	none	.	.	PASS	Atlas-Indel,Pindel
SGK1	6446	hgsc.bcm.edu	hg19	6	134494465	134494467	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	CTT	CTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	SGK1	NM_001143676	exon7	c.648_650del	p.216_217del	.	.	119.0	38.0	141.0	0.0	.	387	.	0.319328	0	none	.	.	PASS	Atlas-Indel,Pindel
BAP1	8314	hgsc.bcm.edu	hg19	3	52437652	52437652	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	BAP1	NM_004656	exon13	c.1510delA	p.N504fs	.	.	50.0	39.0	112.0	0.0	.	371	.	0.78	0	none	.	.	PASS	Atlas-Indel,Pindel
MIR30A	407029	hgsc.bcm.edu	hg19	6	72113259	72113260	+	RNA	INS	-	-	GCAAAC	novel		TCGA-2Z-A9JD-01A-11D-A42J-10	TCGA-2Z-A9JD-10A-01D-A42M-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d0c6a1f3-cb7d-4abc-b7be-b60b373335bb	edf87796-76e3-4a71-8bb0-cb01677c6e77	.	.	.	.	.	.	.	.	51.0	14.0	21.0	0.0	.	.	.	0.275	.	none	.	.	PASS	Pindel
