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
PRAMEF12	390999	hgsc.bcm.edu	hg19	1	12837407	12837407	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	PRAMEF12	NM_001080830	exon3	c.A1117T	p.S373C	GCCCTGAGCCGCT	.	737.0	215.0	505.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
SPEN	23013	hgsc.bcm.edu	hg19	1	16257911	16257911	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	SPEN	NM_015001	exon11	c.G5176A	p.D1726N	TCAGGTGACCAGC	.	152.0	16.0	149.0	0.0	.	374	.	.	.	none	.	.	PASS	Atlas-SNP
CADM3	57863	hgsc.bcm.edu	hg19	1	159170698	159170698	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	CADM3,NS,malignant_melanoma,0,1	CADM3	NM_021189	exon10	c.G1285T	p.E429X	AAGAAGGAATATT	.	239.0	25.0	183.0	0.0	.	118	.	.	.	none	.	.	PASS	Atlas-SNP
MROH9	80133	hgsc.bcm.edu	hg19	1	170965712	170965712	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	.	NM_025063	exon14	c.C1402G	p.L468V	ATTACTCTAATGA	.	138.0	32.0	128.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
LYST	1130	hgsc.bcm.edu	hg19	1	235872510	235872510	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	LYST	NM_000081	exon44	c.C10024T	p.R3342W	CCTGCCGATGGAT	.	291.0	82.0	275.0	0.0	.	370	.	.	.	none	.	.	PASS	Atlas-SNP
NCOA1	8648	hgsc.bcm.edu	hg19	2	24929447	24929447	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	NCOA1	NM_147223	exon11	c.G1108A	p.G370R	CACAGTGGGCTTT	.	70.0	24.0	71.0	0.0	.	210	.	.	.	none	.	.	PASS	Atlas-SNP
C2orf81	388963	hgsc.bcm.edu	hg19	2	74642884	74642884	+	Silent	SNP	G	G	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	C2orf81	NM_001145054	exon3	c.C429T	p.P143P	CAGCACGGGCACT	.	169.0	55.0	82.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
FN1	2335	hgsc.bcm.edu	hg19	2	216274676	216274676	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	FN1	NM_212476	exon14	c.C2103A	p.S701R	GCTGGTGCTGGTG	.	506.0	121.0	398.0	0.0	.	521	.	.	.	none	.	.	PASS	Atlas-SNP
PDCD6IP	10015	hgsc.bcm.edu	hg19	3	33840351	33840351	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	PDCD6IP	NM_013374	exon1	c.A131C	p.E44A	CGGCGGAGGAGCT	.	111.0	28.0	61.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGEF3	50650	hgsc.bcm.edu	hg19	3	56766301	56766301	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	ARHGEF3	NM_001128615	exon12	c.G1289T	p.G430V	AGGGAGCCACCCA	.	202.0	46.0	133.0	0.0	.	128	.	.	.	none	.	.	PASS	Atlas-SNP
SPON2	10417	hgsc.bcm.edu	hg19	4	1164263	1164263	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	SPON2	NM_012445	exon5	c.G738T	p.Q246H	GGGGCTCTGTCGC	.	124.0	46.0	58.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1239	57495	hgsc.bcm.edu	hg19	4	37447380	37447380	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	KIAA1239	NM_001144990	exon7	c.T3770G	p.F1257C	CTGTGTTTTTTTG	.	261.0	22.0	232.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
KLB	152831	hgsc.bcm.edu	hg19	4	39435931	39435931	+	Silent	SNP	G	G	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	KLB	NM_175737	exon2	c.G927T	p.R309R	AAACCGGTCGGAA	.	373.0	119.0	307.0	0.0	.	95	.	.	.	none	.	.	PASS	Atlas-SNP
GABRG1	2565	hgsc.bcm.edu	hg19	4	46043272	46043272	+	Splice_Site	SNP	C	C	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	GABRG1	NM_173536	exon10	c.1132-1G>A	.	AGTCATCTGAGCA	.	70.0	17.0	66.0	0.0	.	172	.	.	.	none	.	.	PASS	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	hg19	4	126239108	126239108	+	Silent	SNP	T	T	C	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	FAT4	NM_024582	exon1	c.T1542C	p.I514I	CAGCATTGTCTCT	.	147.0	55.0	150.0	0.0	.	1752	.	.	.	none	.	.	PASS	Atlas-SNP
HAND2	9464	hgsc.bcm.edu	hg19	4	174450317	174450317	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	HAND2	NM_021973	exon1	c.T124A	p.Y42N	GGAAGTAGGGGTT	.	29.0	7.0	17.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
WDR17	116966	hgsc.bcm.edu	hg19	4	177056301	177056301	+	Missense_Mutation	SNP	G	G	A	rs140987021		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	WDR17	NM_170710	exon9	c.G1213A	p.D405N	CCTGACGATCCTA	.	190.0	62.0	213.0	0.0	.	198	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
ANKHD1	54882	hgsc.bcm.edu	hg19	5	139876316	139876316	+	Silent	SNP	A	A	G	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	ANKHD1	NM_017747	exon15	c.A2457G	p.E819E	AGAAGAACTTAAA	.	61.0	29.0	80.0	0.0	.	233	.	.	.	none	.	.	PASS	Atlas-SNP
FAT2	2196	hgsc.bcm.edu	hg19	5	150921871	150921871	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	FAT2	NM_001447	exon9	c.C8817A	p.N2939K	CTGCCTGTTCTGC	.	104.0	30.0	91.0	0.0	.	465	.	.	.	none	.	.	PASS	Atlas-SNP
KIF4B	285643	hgsc.bcm.edu	hg19	5	154395501	154395501	+	Silent	SNP	G	G	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	KIF4B	NM_001099293	exon1	c.G2082A	p.Q694Q	CTTCCAGAAACAA	.	320.0	79.0	302.0	0.0	.	307	.	.	.	none	.	.	PASS	Atlas-SNP
CASP8AP2	9994	hgsc.bcm.edu	hg19	6	90577520	90577520	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	CASP8AP2	NM_001137667	exon8	c.G4511T	p.S1504I	CAAGCAGTAAATC	.	156.0	44.0	142.0	0.0	.	108	.	.	.	none	.	.	PASS	Atlas-SNP
FBXO30	84085	hgsc.bcm.edu	hg19	6	146126628	146126628	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	FBXO30,NS,carcinoma,0,1	FBXO30	NM_032145	exon2	c.G914A	p.G305D	GAATCACCATGTA	.	84.0	16.0	77.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
ABCB4	5244	hgsc.bcm.edu	hg19	7	87037472	87037472	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	ABCB4	NM_018849	exon25	c.G3160A	p.G1054R	TCAGCCCCTGAAG	.	150.0	30.0	93.0	0.0	.	177	.	.	.	none	.	.	PASS	Atlas-SNP
LRRD1	401387	hgsc.bcm.edu	hg19	7	91794441	91794441	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	LRRD1	NM_001161528	exon1	c.T76A	p.S26T	TCATTGACTGTGA	.	72.0	37.0	48.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
TECPR1	25851	hgsc.bcm.edu	hg19	7	97847037	97847037	+	Silent	SNP	C	C	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	TECPR1	NM_015395	exon25	c.G3351A	p.E1117E	CTTGGGCTCGTGA	.	68.0	20.0	15.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
MEPCE	56257	hgsc.bcm.edu	hg19	7	100030705	100030705	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	MEPCE	NM_019606	exon2	c.T1835A	p.I612N	GGGGCATCCTGGT	.	367.0	83.0	219.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
ELP3	55140	hgsc.bcm.edu	hg19	8	28047190	28047190	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	ELP3	NM_018091	exon15	c.G1592C	p.R531T	ATTATAGAAAGAT	.	82.0	28.0	78.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	hg19	8	113516202	113516202	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	CSMD3	NM_198123	exon30	c.A4900G	p.S1634G	CTATGCTAAAACT	.	32.0	10.0	51.0	0.0	.	2325	.	.	.	none	.	.	PASS	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	hg19	8	113516207	113516207	+	Splice_Site	SNP	C	C	G	rs76670724	bycluster;alternate_allele	TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	CSMD3	NM_052900	exon30	c.4584-1G>C	.	CTAAAACTGAAAA	.	25.0	9.0	42.0	0.0	.	2325	.	.	.	alt	.	.	PASS	Atlas-SNP
ZNF79	7633	hgsc.bcm.edu	hg19	9	130206739	130206739	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	ZNF79	NM_007135	exon5	c.T760C	p.C254R	AGTGAATGTGGAA	.	129.0	35.0	93.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
ACBD5	91452	hgsc.bcm.edu	hg19	10	27529275	27529275	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	ACBD5	NM_145698	exon2	c.A154C	p.K52Q	TCACCTTCACGGC	.	136.0	39.0	127.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	hg19	11	1264092	1264092	+	Silent	SNP	C	C	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	MUC5B	NM_002458	exon31	c.C5982T	p.R1994R	GACCCGCCTATCA	.	1304.0	383.0	785.0	0.0	.	473	.	.	.	none	.	.	PASS	Atlas-SNP
NAV2	89797	hgsc.bcm.edu	hg19	11	19890497	19890497	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	NAV2	NM_145117	exon4	c.T465A	p.N155K	CTTGAATTTCCTG	.	53.0	16.0	59.0	0.0	.	255	.	.	.	none	.	.	PASS	Atlas-SNP
GAS2	2620	hgsc.bcm.edu	hg19	11	22759307	22759307	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	GAS2	NM_177553	exon5	c.G466A	p.A156T	CGGATTGCAGCCA	.	210.0	60.0	143.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
SLC43A3	29015	hgsc.bcm.edu	hg19	11	57182446	57182446	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	SLC43A3	NM_017611	exon10	c.C903G	p.N301K	CAAGGAGTTGAGA	.	69.0	21.0	55.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
KBTBD3	143879	hgsc.bcm.edu	hg19	11	105925034	105925034	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	KBTBD3	NM_152433	exon3	c.T382A	p.L128M	ATGACAACTGGAA	.	107.0	34.0	95.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
ESAM	90952	hgsc.bcm.edu	hg19	11	124623587	124623587	+	Silent	SNP	C	C	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	ESAM	NM_138961	exon7	c.G1128A	p.V376V	CACAGGCACAGCA	.	84.0	7.0	55.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
NTM	50863	hgsc.bcm.edu	hg19	11	132180102	132180102	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	NTM	NM_001144059	exon5	c.T758C	p.F253S	CAGAATTCCAGTG	.	307.0	91.0	229.0	0.0	.	253	.	.	.	none	.	.	PASS	Atlas-SNP
EXOSC8	11340	hgsc.bcm.edu	hg19	13	37583387	37583387	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	EXOSC8	NM_181503	exon11	c.A782G	p.E261G	ACAAAGAAGTTAA	.	138.0	29.0	146.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
VWA8	23078	hgsc.bcm.edu	hg19	13	42293875	42293875	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	KIAA0564,rectum,carcinoma,+2,1	.	NM_015058	exon26	c.T2968C	p.F990L	TCGGAAATTTCTG	.	62.0	30.0	62.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
TIMM9	26520	hgsc.bcm.edu	hg19	14	58878635	58878635	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	TIMM9	NM_012460	exon4	c.A29G	p.Q10R	TTTATCTGATCAG	.	75.0	35.0	121.0	0.0	.	7	.	.	.	none	.	.	PASS	Atlas-SNP
PLEKHD1	400224	hgsc.bcm.edu	hg19	14	69994009	69994009	+	Silent	SNP	G	G	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	PLEKHD1	NM_001161498	exon11	c.G1161A	p.E387E	TAAGGAGAAGGAG	.	174.0	52.0	158.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
WDR72	256764	hgsc.bcm.edu	hg19	15	53815462	53815462	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	WDR72	NM_182758	exon19	c.T3206C	p.V1069A	TCCTCCACGTCTT	.	70.0	14.0	57.0	0.0	.	177	.	.	.	none	.	.	PASS	Atlas-SNP
TLN2	83660	hgsc.bcm.edu	hg19	15	63097959	63097959	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	TLN2	NM_015059	exon48	c.T6638A	p.V2213E	AAGCCGTGTCAGA	.	196.0	56.0	154.0	0.0	.	253	.	.	.	none	.	.	PASS	Atlas-SNP
MEGF11	84465	hgsc.bcm.edu	hg19	15	66190397	66190397	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	MEGF11	NM_032445	exon23	c.C3010T	p.H1004Y	AGTTATGACCGCA	.	139.0	34.0	142.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
IL21R	50615	hgsc.bcm.edu	hg19	16	27459983	27459983	+	Silent	SNP	G	G	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	IL21R_ENST00000395754,NS,carcinoma,0,1	IL21R	NM_181079	exon10	c.G1062T	p.T354T	GCTCACGGAGCTA	.	259.0	65.0	94.0	1.0	.	95	.	.	.	none	.	.	PASS	Atlas-SNP
POLR2C	5432	hgsc.bcm.edu	hg19	16	57503976	57503976	+	Silent	SNP	G	G	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	POLR2C	NM_032940	exon7	c.G543A	p.G181G	TGCAGGGGTGGCT	.	337.0	182.0	185.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
KLHDC4	54758	hgsc.bcm.edu	hg19	16	87760467	87760467	+	Silent	SNP	C	C	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	KLHDC4	NM_017566	exon7	c.G663A	p.L221L	CGGGGACAGCTTG	.	269.0	142.0	102.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF469	84627	hgsc.bcm.edu	hg19	16	88496091	88496091	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	ZNF469	NM_001127464	exon1	c.G2213T	p.R738L	GTGACCGCAACTA	.	58.0	4.0	13.0	0.0	.	121	.	.	.	none	.	.	PASS	Atlas-SNP
WDR81	124997	hgsc.bcm.edu	hg19	17	1630178	1630178	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	WDR81	NM_001163809	exon1	c.C1925G	p.P642R	CCACTCCCTGTGA	.	99.0	42.0	61.0	0.0	.	180	.	.	.	none	.	.	PASS	Atlas-SNP
C17orf104	284071	hgsc.bcm.edu	hg19	17	42744034	42744034	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	C17orf104	NM_001145080	exon5	c.C755T	p.T252I	TTCAGACAAATGA	.	190.0	12.0	112.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
PPM1E	22843	hgsc.bcm.edu	hg19	17	56833454	56833454	+	Silent	SNP	G	G	A	rs77856248		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	PPM1E,colon,carcinoma,0,1	PPM1E	NM_014906	exon1	c.G96A	p.E32E	GCCGGAGCCGGAA	.	39.0	9.0	17.0	0.0	.	97	.	.	.	weak	.	.	PASS	Atlas-SNP
PPM1E	22843	hgsc.bcm.edu	hg19	17	56833457	56833457	+	Silent	SNP	G	G	C	rs74256772		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	PPM1E,colon,carcinoma,0,1	PPM1E	NM_014906	exon1	c.G99C	p.P33P	GGAGCCGGAACCC	.	44.0	16.0	17.0	0.0	.	97	.	.	.	weak	.	.	PASS	Atlas-SNP
RNF152	220441	hgsc.bcm.edu	hg19	18	59483369	59483369	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	RNF152	NM_173557	exon2	c.C328G	p.R110G	GCGCACGCTCCTT	.	78.0	26.0	28.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
PSG11	5680	hgsc.bcm.edu	hg19	19	43519496	43519496	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	PSG11	NM_002785	exon4	c.C736A	p.P246T	CTGAAGGGAAAAT	.	102.0	46.0	102.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF415	55786	hgsc.bcm.edu	hg19	19	53612760	53612760	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	ZNF415	NM_018355	exon4	c.A538T	p.I180L	AAATTATTTGGGG	.	80.0	29.0	87.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
SEL1L2	80343	hgsc.bcm.edu	hg19	20	13868446	13868446	+	Silent	SNP	G	G	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	SEL1L2	NM_001271539	exon8	c.C714A	p.A238A	ACTTAGGGCAACT	.	83.0	21.0	98.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
TRPC4AP	26133	hgsc.bcm.edu	hg19	20	33623074	33623074	+	Silent	SNP	A	A	C	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	TRPC4AP	NM_199368	exon8	c.T903G	p.L301L	TTTGCAAAGCCGC	.	90.0	26.0	115.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
TRPC4AP	26133	hgsc.bcm.edu	hg19	20	33623099	33623099	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	TRPC4AP	NM_199368	exon8	c.G878T	p.S293I	GGAATGCTGAGAA	.	75.0	20.0	93.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
PCK1	5105	hgsc.bcm.edu	hg19	20	56140806	56140806	+	Silent	SNP	C	C	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	PCK1	NM_002591	exon10	c.C1815A	p.P605P	CCTCCCCTGTGAA	.	151.0	50.0	114.0	0.0	.	95	.	.	.	none	.	.	PASS	Atlas-SNP
ZGPAT	84619	hgsc.bcm.edu	hg19	20	62366740	62366740	+	Silent	SNP	T	T	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	ZGPAT	NM_032527	exon6	c.T1281A	p.P427P	GGCTCCTGGGGCC	.	61.0	20.0	58.0	0.0	.	57	.	.	.	none	.	.	PASS	Atlas-SNP
LGALS2	3957	hgsc.bcm.edu	hg19	22	37966307	37966307	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	LGALS2	NM_006498	exon4	c.G362A	p.G121D	AACCCGCCCCTTA	.	174.0	10.0	138.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
PNPLA3	80339	hgsc.bcm.edu	hg19	22	44333050	44333050	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	PNPLA3	NM_025225	exon6	c.G877A	p.A293T	GCCTTGGCTGTGA	.	133.0	44.0	106.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
RGMB	285704	hgsc.bcm.edu	hg19	5	98115590	98115591	+	Frame_Shift_Del	DEL	GG	GG	-	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	GG	GG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	RGMB	NM_001012761	exon4	c.565_566del	p.189_189del	.	.	204.0	65.0	174.0	0.0	.	29	.	0.318627	0	none	.	.	PASS	Atlas-Indel,Pindel
ATP13A1	57130	hgsc.bcm.edu	hg19	19	19762514	19762515	+	Frame_Shift_Ins	INS	-	-	TGCAGGA	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	ATP13A1,NS,carcinoma,0,1	ATP13A1	NM_020410	exon17	c.2319_2320insTCCTGCA	p.Q773fs	.	.	241.0	36.0	169.0	0.0	.	82	.	0.149378	0	none	.	.	PASS	Atlas-Indel,Pindel
TTL	150465	hgsc.bcm.edu	hg19	2	113260589	113260589	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	TTL	NM_153712	exon5	c.705delC	p.D235fs	.	.	126.0	31.0	130.0	0.0	.	27	.	0.246032	0	none	.	.	PASS	Atlas-Indel,Pindel
NEFH	4744	hgsc.bcm.edu	hg19	22	29885400	29885417	+	In_Frame_Del	DEL	GAGGCAAAGTCACCGGCT	GAGGCAAAGTCACCGGCT	-	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	GAGGCAAAGTCACCGGCT	GAGGCAAAGTCACCGGCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	NEFH	NM_021076	exon4	c.1770_1787del	p.590_596del	.	.	264.0	22.0	182.0	0.0	.	178	.	0.0833333	0	none	.	.	PASS	Atlas-INDEL
NUP88	4927	hgsc.bcm.edu	hg19	17	5312151	5312152	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	NUP88	NM_002532	exon5	c.759_760insT	p.L253fs	.	.	254.0	61.0	162.0	0.0	.	47	.	0.240157	0	none	.	.	PASS	Atlas-Indel,Pindel
TUT1	64852	hgsc.bcm.edu	hg19	11	62343357	62343370	+	Frame_Shift_Del	DEL	GTAAAGGGATCGGC	GTAAAGGGATCGGC	-	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	GTAAAGGGATCGGC	GTAAAGGGATCGGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	TUT1	NM_022830	exon9	c.1936_1949del	p.646_650del	.	.	130.0	27.0	145.0	0.0	.	122	.	0.207692	0	none	.	.	PASS	Atlas-Indel,Pindel
SEL1L3	23231	hgsc.bcm.edu	hg19	4	25819805	25819806	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	SEL1L3	NM_015187	exon9	c.1519_1520insA	p.H507fs	.	.	198.0	49.0	175.0	0.0	.	62	.	0.247475	0	none	.	.	PASS	Atlas-Indel,Pindel
TRIM55	84675	hgsc.bcm.edu	hg19	8	67064722	67064722	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	TRIM55	NM_033058	exon8	c.1095delG	p.E365fs	.	.	44.0	17.0	55.0	0.0	.	91	.	0.386364	0	none	.	.	PASS	Atlas-Indel,Pindel
SLC25A40	55972	hgsc.bcm.edu	hg19	7	87466048	87466048	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	SLC25A40	NM_018843	exon11	c.902delC	p.S301X	.	.	112.0	21.0	103.0	0.0	.	32	.	0.1875	0	none	.	.	PASS	Atlas-Indel,Pindel
GAD1	2571	hgsc.bcm.edu	hg19	2	171705820	171705820	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-HE-A5NL-01A-11D-A26P-10	TCGA-HE-A5NL-10A-01D-A26P-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a441697c-4ca0-4eab-9b01-b9cb50223ce2	49cd5084-c2b5-47d4-b921-2f2316afe33a	.	GAD1	NM_000817	exon12	c.1143delC	p.L381fs	.	.	138.0	50.0	128.0	0.0	.	79	.	0.362319	0	none	.	.	PASS	Atlas-Indel,Pindel
