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
PADI4	23569	hgsc.bcm.edu	hg19	1	17674521	17674521	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	PADI4	NM_012387	exon10	c.A1133T	p.E378V	TGAAGGAGTTTCC	.	83.0	26.0	129.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
RWDD3	25950	hgsc.bcm.edu	hg19	1	95710051	95710051	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	RWDD3,rectum,carcinoma,0,1	RWDD3	NM_015485	exon2	c.A370T	p.S124C	AGTGGCAGTGAAA	.	111.0	32.0	133.0	2.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
LPPR4	0	hgsc.bcm.edu	hg19	1	99764611	99764611	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	LPPR4	NM_001166252	exon4	c.T559C	p.C187R	GGATTATGCTCTA	.	103.0	39.0	97.0	0.0	.	143	.	.	.	none	.	.	PASS	Atlas-SNP
KCNN3	3782	hgsc.bcm.edu	hg19	1	154842253	154842253	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	KCNN3	NM_001204087	exon1	c.C188A	p.P63H	TGCGGAGGCTGAG	.	62.0	15.0	81.0	0.0	.	141	.	.	.	none	.	.	PASS	Atlas-SNP
THBS3	7059	hgsc.bcm.edu	hg19	1	155172114	155172114	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	THBS3	NM_007112	exon9	c.C1036T	p.R346X	ACCCTCGAGGACA	.	151.0	41.0	193.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
PAPPA2	60676	hgsc.bcm.edu	hg19	1	176525851	176525851	+	Silent	SNP	G	G	A	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	PAPPA2	NM_021936	exon2	c.G393A	p.G131G	GGTAGGGGATAGT	.	152.0	12.0	148.0	0.0	.	665	.	.	.	none	.	.	PASS	Atlas-SNP
AHCTF1	25909	hgsc.bcm.edu	hg19	1	247053281	247053281	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	AHCTF1,bladder,carcinoma,0,1	AHCTF1	NM_015446	exon17	c.G2158A	p.E720K	AACGCTCAAACTT	.	47.0	13.0	60.0	0.0	.	187	.	.	.	none	.	.	PASS	Atlas-SNP
ZC3H6	376940	hgsc.bcm.edu	hg19	2	113089251	113089251	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	ZC3H6	NM_198581	exon12	c.G2756C	p.S919T	CAAAAAGTGATCT	.	74.0	26.0	74.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
FAP	2191	hgsc.bcm.edu	hg19	2	163046173	163046173	+	Silent	SNP	A	A	G	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	FAP	NM_004460	exon18	c.T1542C	p.D514D	AATTTCATCTACT	.	84.0	50.0	72.0	0.0	.	122	.	.	.	none	.	.	PASS	Atlas-SNP
FN1	2335	hgsc.bcm.edu	hg19	2	216232592	216232592	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	FN1	NM_212482	exon42	c.T7012C	p.S2338P	TAGATGAATCACA	.	155.0	50.0	131.0	0.0	.	521	.	.	.	none	.	.	PASS	Atlas-SNP
FBXL2	25827	hgsc.bcm.edu	hg19	3	33415410	33415410	+	Silent	SNP	C	C	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	FBXL2	NM_012157	exon9	c.C654T	p.C218C	GTCCTGCTCAGTA	.	139.0	64.0	132.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
PARP14	54625	hgsc.bcm.edu	hg19	3	122437696	122437696	+	Silent	SNP	A	A	G	rs377210300		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	PARP14	NM_017554	exon14	c.A4698G	p.T1566T	AAAAACAGTTGAT	.	150.0	39.0	99.0	0.0	.	242	.	.	.	weak	.	.	PASS	Atlas-SNP
NDUFB5	4711	hgsc.bcm.edu	hg19	3	179322636	179322636	+	Silent	SNP	G	G	A	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	NDUFB5	NM_002492	exon1	c.G33A	p.S11S	GGTTTCGGTTACT	.	107.0	34.0	125.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
KLHL6	89857	hgsc.bcm.edu	hg19	3	183226047	183226047	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	KLHL6	NM_130446	exon3	c.G709A	p.E237K	CGGTCTCAAACAC	.	277.0	69.0	199.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
FAM184B	27146	hgsc.bcm.edu	hg19	4	17710845	17710845	+	Silent	SNP	G	G	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	FAM184B	NM_015688	exon2	c.C564A	p.G188G	GCCCTGGCCTGGC	.	84.0	12.0	92.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
TMPRSS11F	389208	hgsc.bcm.edu	hg19	4	68930403	68930403	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	TMPRSS11F	NM_207407	exon8	c.G1015T	p.G339X	GCTCACCATCATC	.	40.0	14.0	69.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
SLC12A7	10723	hgsc.bcm.edu	hg19	5	1093744	1093744	+	Silent	SNP	C	C	A	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	SLC12A7	NM_006598	exon3	c.G246T	p.V82V	CGAGGACACCATG	.	163.0	47.0	235.0	0.0	.	97	.	.	.	none	.	.	PASS	Atlas-SNP
PROB1	389333	hgsc.bcm.edu	hg19	5	138727939	138727939	+	Silent	SNP	A	A	G	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	.	NM_001161546	exon1	c.T2832C	p.Y944Y	AGGCCCATAGGCG	.	124.0	27.0	193.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
NSD1	64324	hgsc.bcm.edu	hg19	5	176562915	176562915	+	Missense_Mutation	SNP	T	T	G	rs374083142	alternate_allele	TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	NSD1	NM_022455	exon2	c.T811G	p.L271V	GAGCAATTAAACT	.	91.0	31.0	105.0	0.0	.	416	.	.	.	alt	.	.	PASS	Atlas-SNP
MRPS10	55173	hgsc.bcm.edu	hg19	6	42176601	42176601	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	MRPS10	NM_018141	exon6	c.A517T	p.T173S	CCTTTGTTACTTC	.	152.0	45.0	178.0	0.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
EEF1A1	1915	hgsc.bcm.edu	hg19	6	74227601	74227601	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	EEF1A1	NM_001402	exon8	c.G1321A	p.V441M	TGTCCACTGCTTT	.	101.0	25.0	172.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
RIPPLY2	134701	hgsc.bcm.edu	hg19	6	84563845	84563845	+	Silent	SNP	C	C	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	RIPPLY2	NM_001009994	exon3	c.C204T	p.A68A	CGCAGCCTCAGGA	.	132.0	13.0	163.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
GATAD1	57798	hgsc.bcm.edu	hg19	7	92083893	92083893	+	Silent	SNP	A	A	G	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	GATAD1	NM_021167	exon4	c.A513G	p.R171R	AATCAGAGGTTTT	.	136.0	63.0	148.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
PDK4	5166	hgsc.bcm.edu	hg19	7	95217131	95217131	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	PDK4	NM_002612	exon8	c.A778G	p.M260V	CCCGCATTGCATT	.	99.0	4.0	86.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
WHSC1L1	54904	hgsc.bcm.edu	hg19	8	38175506	38175506	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	WHSC1L1	NM_017778	exon10	c.G1906A	p.V636I	CGGAGACGGAGCT	.	79.0	28.0	72.0	0.0	.	137	.	.	.	none	.	.	PASS	Atlas-SNP
JAK2	3717	hgsc.bcm.edu	hg19	9	5126752	5126752	+	Silent	SNP	T	T	C	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	JAK2	NM_004972	exon25	c.T3360C	p.A1120A	TCTAGCTCTTCGA	.	58.0	45.0	76.0	0.0	.	35466	.	.	.	none	.	.	PASS	Atlas-SNP
DAPK1	1612	hgsc.bcm.edu	hg19	9	90321821	90321821	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	DAPK1	NM_004938	exon26	c.T3835G	p.F1279V	GAAAGCTTCAGCA	.	108.0	79.0	132.0	0.0	.	329	.	.	.	none	.	.	PASS	Atlas-SNP
RAPGEF1	2889	hgsc.bcm.edu	hg19	9	134505712	134505712	+	Splice_Site	SNP	C	C	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	RAPGEF1	NM_005312	exon7	c.601-1G>A	.	CAGCTCCTACCCC	.	97.0	9.0	87.0	0.0	.	126	.	.	.	none	.	.	PASS	Atlas-SNP
KIN	22944	hgsc.bcm.edu	hg19	10	7811178	7811178	+	Splice_Site	SNP	C	C	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	KIN	NM_012311	exon9	c.798+1G>A	.	ACTGTACCTCCAT	.	23.0	8.0	21.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
MUC2	4583	hgsc.bcm.edu	hg19	11	1093292	1093292	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	MUC2	NM_002457	exon30	c.C5111T	p.T1704I	CCACCACCACTAC	.	107.0	7.0	97.0	0.0	.	614	.	.	.	none	.	.	PASS	Atlas-SNP
MPEG1	219972	hgsc.bcm.edu	hg19	11	58978564	58978564	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	MPEG1	NM_001039396	exon1	c.G1775A	p.R592K	GGGAGCCTGGCAG	.	104.0	39.0	96.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
PYGM	5837	hgsc.bcm.edu	hg19	11	64517951	64517951	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	PYGM	NM_005609	exon17	c.A2074T	p.T692S	CCATGGTGCCAAT	.	114.0	38.0	156.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
COA4	51287	hgsc.bcm.edu	hg19	11	73584202	73584202	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	.	NM_016565	exon2	c.G222T	p.E74D	CAGCTCCTCTTGC	.	77.0	9.0	85.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
PRCP	5547	hgsc.bcm.edu	hg19	11	82560214	82560214	+	Silent	SNP	T	T	C	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	PRCP	NM_199418	exon7	c.A861G	p.P287P	AGTTAATGGGCTG	.	88.0	18.0	82.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
DDX10	1662	hgsc.bcm.edu	hg19	11	108559718	108559718	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	DDX10	NM_004398	exon7	c.A904G	p.S302G	AAAATAAGTGTGC	.	79.0	4.0	112.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
SLC37A4	2542	hgsc.bcm.edu	hg19	11	118895661	118895661	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	SLC37A4	NM_001164278	exon12	c.A1315G	p.I439V	TGCGGATGTTTCG	.	125.0	41.0	180.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
NCAPD2	9918	hgsc.bcm.edu	hg19	12	6637492	6637492	+	Silent	SNP	T	T	C	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	NCAPD2	NM_014865	exon25	c.T3297C	p.A1099A	GTATGCTCGGTAA	.	134.0	31.0	146.0	0.0	.	99	.	.	.	none	.	.	PASS	Atlas-SNP
A2M	2	hgsc.bcm.edu	hg19	12	9243036	9243036	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	A2M	NM_000014	exon20	c.C2512A	p.P838T	CCACTGGGACAGC	.	93.0	4.0	120.0	0.0	.	180	.	.	.	none	.	.	PASS	Atlas-SNP
LARP4	113251	hgsc.bcm.edu	hg19	12	50847398	50847398	+	Silent	SNP	T	T	C	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	LARP4	NM_001170808	exon9	c.T960C	p.Y320Y	GGTCTATAGTATT	.	178.0	44.0	121.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
NPFF	8620	hgsc.bcm.edu	hg19	12	53900627	53900627	+	Missense_Mutation	SNP	C	C	T	rs199569723		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	NPFF	NM_003717	exon3	c.G275A	p.R92Q	CCAGCCCGGGGAC	.	76.0	10.0	58.0	0.0	.	9	.	.	.	weak	.	.	PASS	Atlas-SNP
ATP5G2	517	hgsc.bcm.edu	hg19	12	54062935	54062935	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	ATP5G2	NM_005176	exon4	c.C479A	p.A160D	TACCTGGCATAAC	.	89.0	4.0	65.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
CEP290	80184	hgsc.bcm.edu	hg19	12	88514780	88514780	+	Nonsense_Mutation	SNP	A	A	C	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	CEP290	NM_025114	exon14	c.T1353G	p.Y451X	CGATTCATAATCT	.	18.0	10.0	12.0	0.0	.	195	.	.	.	none	.	.	PASS	Atlas-SNP
ANKS1B	56899	hgsc.bcm.edu	hg19	12	99640158	99640158	+	Silent	SNP	G	G	A	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	ANKS1B	NM_152788	exon13	c.C2241T	p.S747S	CTCATTGGAAGGA	.	231.0	112.0	198.0	0.0	.	180	.	.	.	none	.	.	PASS	Atlas-SNP
FAM161B	145483	hgsc.bcm.edu	hg19	14	74409353	74409353	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	FAM161B	NM_152445	exon4	c.T1180A	p.S394T	TAGGGGAAGAGGC	.	72.0	18.0	114.0	0.0	.	67	.	.	.	none	.	.	PASS	Atlas-SNP
SYNE3	161176	hgsc.bcm.edu	hg19	14	95906070	95906070	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	SYNE3	NM_152592	exon12	c.G2125A	p.A709T	CCTGCGCTTCCAC	.	137.0	7.0	181.0	0.0	.	130	.	.	.	none	.	.	PASS	Atlas-SNP
TBC1D24	57465	hgsc.bcm.edu	hg19	16	2550436	2550436	+	Silent	SNP	G	G	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	TBC1D24	NM_001199107	exon7	c.G1470T	p.L490L	CAACCTGCCCTCC	.	269.0	58.0	314.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
TCAP	8557	hgsc.bcm.edu	hg19	17	37821723	37821723	+	Splice_Site	SNP	G	G	A	rs113187448	alternate_allele	TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	TCAP	NM_003673	exon1	c.110+1G>A	.	GGAGGGGTGAGTG	.	134.0	32.0	87.0	0.0	.	12	.	.	.	alt	.	.	PASS	Atlas-SNP
RPTOR	57521	hgsc.bcm.edu	hg19	17	78811724	78811724	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	RPTOR	NM_001163034	exon10	c.A1139C	p.Q380P	GCAGGCAAGCCTG	.	174.0	36.0	108.0	0.0	.	122	.	.	.	none	.	.	PASS	Atlas-SNP
RTTN	25914	hgsc.bcm.edu	hg19	18	67863855	67863855	+	Missense_Mutation	SNP	A	A	T	rs2365902		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.,1	RTTN	NM_173630	exon7	c.T723A	p.F241L	ATCTCCAAAGGCC	.	81.0	7.0	110.0	1.0	.	184	.	.	.	weak	.	.	PASS	Atlas-SNP
PRKCSH	5589	hgsc.bcm.edu	hg19	19	11558370	11558370	+	Silent	SNP	G	G	A	rs77563879	bycluster	TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	PRKCSH,caecum,carcinoma,0,1	PRKCSH	NM_001001329	exon11	c.G966A	p.E322E	GGAGGAGGAAGAA	.	115.0	6.0	203.0	0.0	.	55	.	.	.	weak	.	.	PASS	Atlas-SNP
ZNF615	284370	hgsc.bcm.edu	hg19	19	52496371	52496371	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	ZNF615	NM_001199324	exon7	c.C1991T	p.A664V	GTACATGCAAAGG	.	132.0	40.0	144.0	0.0	.	111	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF615	284370	hgsc.bcm.edu	hg19	19	52496372	52496372	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	ZNF615	NM_001199324	exon7	c.G1990A	p.A664T	TACATGCAAAGGA	.	134.0	41.0	144.0	0.0	.	111	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF160	90338	hgsc.bcm.edu	hg19	19	53572249	53572249	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	ZNF160	NM_001102603	exon7	c.A1538G	p.E513G	CCACACTCATTAC	.	49.0	16.0	51.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM230	29058	hgsc.bcm.edu	hg19	20	5086868	5086868	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	.	NM_001009923	exon4	c.G377A	p.G126D	AGGGAGCCTATAA	.	93.0	6.0	178.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
PLCB4	5332	hgsc.bcm.edu	hg19	20	9440354	9440354	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	PLCB4	NM_001172646	exon34	c.G3145A	p.E1049K	GAGCAAGAAATCC	.	71.0	23.0	72.0	0.0	.	204	.	.	.	none	.	.	PASS	Atlas-SNP
APP	351	hgsc.bcm.edu	hg19	21	27328004	27328004	+	Silent	SNP	G	G	C	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	APP	NM_000484	exon12	c.C1524G	p.T508T	CTTTAGGGTGTGC	.	168.0	43.0	202.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
ARVCF	421	hgsc.bcm.edu	hg19	22	19967613	19967613	+	Missense_Mutation	SNP	C	C	A	rs376884775	alternate_allele	TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	ARVCF	NM_001670	exon6	c.G1049T	p.R350L	TCCTTGCGGGCGC	.	34.0	14.0	51.0	0.0	.	54	.	.	.	alt	.	.	PASS	Atlas-SNP
CACNA1I	8911	hgsc.bcm.edu	hg19	22	40055466	40055466	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	CACNA1I	NM_021096	exon13	c.A2359G	p.K787E	GGCTGCAAGTTCA	.	179.0	64.0	222.0	0.0	.	264	.	.	.	none	.	.	PASS	Atlas-SNP
PKDREJ	10343	hgsc.bcm.edu	hg19	22	46654194	46654194	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	PKDREJ	NM_006071	exon1	c.C5026T	p.Q1676X	CGATCTGGTCATG	.	66.0	27.0	68.0	0.0	.	195	.	.	.	none	.	.	PASS	Atlas-SNP
TTC38	55020	hgsc.bcm.edu	hg19	22	46677589	46677589	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	TTC38	NM_017931	exon7	c.A709G	p.M237V	GAATTCATGCAGC	.	88.0	31.0	116.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
WWC3	55841	hgsc.bcm.edu	hg19	X	10062249	10062249	+	Silent	SNP	A	A	T	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	WWC3	NM_015691	exon7	c.A585T	p.V195V	CCATGTAGGCGTG	.	80.0	8.0	92.0	0.0	.	142	.	.	.	none	.	.	PASS	Atlas-SNP
HUWE1	10075	hgsc.bcm.edu	hg19	X	53584383	53584383	+	Silent	SNP	A	A	G	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	HUWE1	NM_031407	exon60	c.T8166C	p.T2722T	AGATGCAGTACAC	.	41.0	31.0	53.0	0.0	.	724	.	.	.	none	.	.	PASS	Atlas-SNP
CNTN4	152330	hgsc.bcm.edu	hg19	3	3080674	3080675	+	Frame_Shift_Ins	INS	-	-	TA	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	CNTN4	NM_175607	exon19	c.2150_2151insTA	p.V717fs	.	.	158.0	10.0	153.0	0.0	.	335	.	0.0632911	0	none	.	.	PASS	Atlas-Indel,Pindel
EFHD1	80303	hgsc.bcm.edu	hg19	2	233498655	233498656	+	Frame_Shift_Ins	INS	-	-	AC	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	EFHD1	NM_025202	exon1	c.241_242insAC	p.Y81fs	.	.	28.0	13.0	22.0	0.0	.	28	.	0.464286	0	none	.	.	PASS	Atlas-Indel,Pindel
NUMA1	4926	hgsc.bcm.edu	hg19	11	71733436	71733436	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	NUMA1	NM_006185	exon7	c.322delA	p.M108X	.	.	68.0	21.0	85.0	0.0	.	142	.	0.308824	0	none	.	.	PASS	Atlas-Indel,Pindel
SYT2	127833	hgsc.bcm.edu	hg19	1	202566051	202566052	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	SYT2	NM_001136504	exon9	c.1094_1095del	p.365_365del	.	.	122.0	32.0	134.0	0.0	.	51	.	0.262295	0	none	.	.	PASS	Atlas-Indel,Pindel
WNT7B	7477	hgsc.bcm.edu	hg19	22	46319111	46319112	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	WNT7B	NM_058238	exon4	c.675_676insG	p.G225fs	.	.	184.0	14.0	164.0	0.0	.	45	.	0.076087	0	none	.	.	PASS	Atlas-INDEL
DNMT3A	1788	hgsc.bcm.edu	hg19	2	25505312	25505312	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	DNMT3A	NM_175630	exon4	c.447delG	p.A149fs	.	.	146.0	67.0	115.0	0.0	.	1807	.	0.458904	0	none	.	.	PASS	Atlas-Indel,Pindel
KIF13B	23303	hgsc.bcm.edu	hg19	8	28984648	28984650	+	In_Frame_Del	DEL	CTC	CTC	-	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	CTC	CTC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	KIF13B	NM_015254	exon25	c.3212_3214del	p.1071_1072del	.	.	97.0	10.0	128.0	0.0	.	192	.	0.103093	0	none	.	.	PASS	Atlas-INDEL
OAT	4942	hgsc.bcm.edu	hg19	10	126100644	126100644	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	OAT	NM_000274	exon2	c.98delC	p.T33fs	.	.	96.0	27.0	99.0	0.0	.	25	.	0.28125	0	none	.	.	PASS	Atlas-Indel,Pindel
NUP210L	91181	hgsc.bcm.edu	hg19	1	154033038	154033049	+	In_Frame_Del	DEL	ATGTAAGTGATG	ATGTAAGTGATG	-	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	ATGTAAGTGATG	ATGTAAGTGATG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	NUP210L	NM_207308	exon20	c.2818_2829del	p.940_943del	.	.	64.0	14.0	99.0	0.0	.	181	.	0.21875	0	none	.	.	PASS	Atlas-Indel,Pindel
KIF13B	23303	hgsc.bcm.edu	hg19	8	28984652	28984654	+	In_Frame_Del	DEL	TGT	TGT	-	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	TGT	TGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	KIF13B	NM_015254	exon25	c.3208_3210del	p.1070_1070del	.	.	99.0	10.0	126.0	0.0	.	192	.	0.10101	0	none	.	.	PASS	Atlas-INDEL
LRP2	4036	hgsc.bcm.edu	hg19	2	170096143	170096143	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	LRP2	NM_004525	exon26	c.4189delC	p.L1397X	.	.	211.0	15.0	196.0	0.0	.	751	.	0.0710901	0	none	.	.	PASS	Atlas-Indel,Pindel
MYH7B	57644	hgsc.bcm.edu	hg19	20	33567508	33567512	+	Frame_Shift_Del	DEL	TCGCT	TCGCT	-	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	TCGCT	TCGCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	MYH7B	NM_020884	exon7	c.368_372del	p.123_124del	.	.	76.0	29.0	81.0	0.0	.	145	.	0.381579	0	none	.	.	PASS	Atlas-Indel,Pindel
KIF13B	23303	hgsc.bcm.edu	hg19	8	28984648	28984654	+	Frame_Shift_Del	DEL	CTCATGT	CTCATGT	-	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	CTCATGT	CTCATGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	KIF13B	NM_015254	exon25	c.3208_3214del	p.1070_1072del	.	.	102.0	13.0	134.0	0.0	.	192	.	0.127	.	none	.	.	PASS	Pindel
DIP2A	23181	hgsc.bcm.edu	hg19	21	47985760	47985761	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	DIP2A	NM_015151	exon36	c.4298_4299del	p.1433_1433del	.	.	117.0	27.0	139.0	0.0	.	332	.	0.231	.	none	.	.	PASS	Pindel
GRWD1	83743	hgsc.bcm.edu	hg19	19	48953775	48953775	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	GRWD1	NM_031485	exon4	c.673delC	p.R225fs	.	.	54.0	12.0	51.0	0.0	.	41	.	0.222	.	none	.	.	PASS	Pindel
IGF2R	3482	hgsc.bcm.edu	hg19	6	160494272	160494272	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	IGF2R	NM_000876	exon34	c.4717delA	p.S1573fs	.	.	226.0	54.0	248.0	0.0	.	251	.	0.239	.	none	.	.	PASS	Pindel
RGSL1	353299	hgsc.bcm.edu	hg19	1	182462175	182462194	+	Frame_Shift_Del	DEL	TTGAGGAGCTTTGCTACAAG	TTGAGGAGCTTTGCTACAAG	-	novel		TCGA-GL-A59T-01A-21D-A28G-10	TCGA-GL-A59T-10A-01D-A28G-10	TTGAGGAGCTTTGCTACAAG	TTGAGGAGCTTTGCTACAAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c895d83d-e672-4e7a-bcd6-d068d309c625	ac797190-ad63-4351-9d7b-129d999487c2	.	RGSL1	NM_001137669	exon9	c.1735_1754del	p.579_585del	.	.	45.0	11.0	84.0	0.0	.	111	.	0.244	.	none	.	.	PASS	Pindel