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
EBNA1BP2	10969	hgsc.bcm.edu	hg19	1	43637311	43637311	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	EBNA1BP2	NM_001159936	exon4	c.G327A	p.K109K	ACATTGCTTCAGG	.	101.0	37.0	75.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
NRD1	4898	hgsc.bcm.edu	hg19	1	52277743	52277743	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	NRD1	NM_002525	exon17	c.A1906G	p.M636V	CACACATGTTTTC	.	89.0	31.0	85.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
LRRC8D	55144	hgsc.bcm.edu	hg19	1	90399387	90399387	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	LRRC8D	NM_018103	exon3	c.A760C	p.I254L	CCAATGATCAATA	.	52.0	20.0	48.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
PTBP2	58155	hgsc.bcm.edu	hg19	1	97278858	97278858	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	PTBP2	NM_021190	exon14	c.T1493C	p.M498T	TTCAGATGGCAAC	.	247.0	79.0	251.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
MAGI3	260425	hgsc.bcm.edu	hg19	1	114184618	114184618	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	MAGI3	NM_152900	exon10	c.C1446T	p.V482V	ACCTGTCAATCAG	.	79.0	29.0	69.0	0.0	.	181	.	.	.	none	.	.	PASS	Atlas-SNP
ITGA10	8515	hgsc.bcm.edu	hg19	1	145525111	145525111	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	ITGA10	NM_003637	exon1	c.C46A	p.L16M	GTGTTCCTGACAG	.	109.0	24.0	105.0	0.0	.	131	.	.	.	none	.	.	PASS	Atlas-SNP
SNX27	81609	hgsc.bcm.edu	hg19	1	151611491	151611491	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	SNX27	NM_030918	exon2	c.G439C	p.D147H	CCCAGTGACGACT	.	84.0	30.0	62.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
TDRD10	126668	hgsc.bcm.edu	hg19	1	154520167	154520167	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	TDRD10	NM_182499	exon13	c.A1037T	p.K346M	TCCTAAAGTTTGA	.	173.0	68.0	148.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
SLC30A1	7779	hgsc.bcm.edu	hg19	1	211751453	211751453	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	SLC30A1	NM_021194	exon1	c.A502G	p.T168A	GGCGGGTGCTCTT	.	43.0	18.0	34.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
NSL1	25936	hgsc.bcm.edu	hg19	1	212960912	212960912	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	NSL1	NM_015471	exon2	c.A302G	p.N101S	AAACAATTATCTG	.	272.0	92.0	219.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
OR2L5	81466	hgsc.bcm.edu	hg19	1	248186098	248186098	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	.	NM_001258284	exon1	c.G849T	p.M283I	CCCAATGCTCAAC	.	62.0	19.0	53.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
GRHL1	29841	hgsc.bcm.edu	hg19	2	10140748	10140748	+	Silent	SNP	T	T	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	GRHL1	NM_198182	exon16	c.T1770C	p.I590I	CAACATTGTGAAG	.	52.0	22.0	45.0	0.0	.	95	.	.	.	none	.	.	PASS	Atlas-SNP
NBAS	51594	hgsc.bcm.edu	hg19	2	15415752	15415752	+	Silent	SNP	A	A	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	NBAS,rectum,NS,0,1	NBAS	NM_015909	exon44	c.T5580A	p.P1860P	GAGATGAGGGTCT	.	93.0	43.0	84.0	1.0	.	246	.	.	.	none	.	.	PASS	Atlas-SNP
SMC6	79677	hgsc.bcm.edu	hg19	2	17881504	17881504	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	SMC6	NM_001142286	exon21	c.C2365T	p.Q789X	ATAGTTGATTAAT	.	290.0	123.0	279.0	1.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
SRBD1	55133	hgsc.bcm.edu	hg19	2	45645662	45645662	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	SRBD1	NM_018079	exon18	c.T2175G	p.N725K	GTTGGCATTGAGT	.	140.0	54.0	93.0	0.0	.	107	.	.	.	none	.	.	PASS	Atlas-SNP
SPTBN1	6711	hgsc.bcm.edu	hg19	2	54874386	54874386	+	Missense_Mutation	SNP	G	G	C	rs200274009	by1000genomes;alternate_allele	TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	SPTBN1	NM_003128	exon24	c.G4985C	p.S1662T	CCGACAGCCATCC	.	31.0	14.0	23.0	0.0	.	378	.	.	.	alt	G|1.000;A|0.000	.	PASS	Atlas-SNP
ITGA6	3655	hgsc.bcm.edu	hg19	2	173349951	173349951	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	ITGA6	NM_000210	exon13	c.C1813T	p.P605S	GTTCTTCCAATTC	.	157.0	68.0	154.0	0.0	.	171	.	.	.	none	.	.	PASS	Atlas-SNP
NAB1	4664	hgsc.bcm.edu	hg19	2	191524460	191524460	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	NAB1	NM_005966	exon4	c.G558T	p.E186D	AAAGGAGAGCAGT	.	77.0	33.0	79.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
TMBIM1	64114	hgsc.bcm.edu	hg19	2	219140208	219140208	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	TMBIM1	NM_022152	exon12	c.A926G	p.D309G	TTGCGATCCCCCA	.	36.0	14.0	25.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
TRIP12	9320	hgsc.bcm.edu	hg19	2	230659907	230659907	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	TRIP12	NM_004238	exon25	c.G3731A	p.G1244E	CCTGTCCCATTTC	.	55.0	16.0	71.0	0.0	.	207	.	.	.	none	.	.	PASS	Atlas-SNP
KLHL30	377007	hgsc.bcm.edu	hg19	2	239057702	239057702	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	KLHL30_ENST00000409223,right_upper_lobe,carcinoma,0,2	KLHL30	NM_198582	exon7	c.G1394C	p.R465P	CGCCTCGCTGTGC	.	29.0	13.0	15.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
XYLB	9942	hgsc.bcm.edu	hg19	3	38408332	38408332	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	XYLB	NM_005108	exon7	c.C541A	p.Q181K	ATTTACCAGCAGA	.	61.0	22.0	32.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
QRICH1	54870	hgsc.bcm.edu	hg19	3	49114324	49114324	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	QRICH1	NM_198880	exon2	c.C127T	p.Q43X	ACTCCTGAAGGGC	.	87.0	34.0	75.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
CHST13	166012	hgsc.bcm.edu	hg19	3	126260730	126260730	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	CHST13	NM_152889	exon3	c.T335C	p.V112A	GCTACGTGCCCAA	.	67.0	22.0	108.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
WDFY3	23001	hgsc.bcm.edu	hg19	4	85758174	85758174	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	WDFY3	NM_014991	exon7	c.G484C	p.D162H	GAAGGTCAAAAAA	.	239.0	88.0	213.0	0.0	.	314	.	.	.	none	.	.	PASS	Atlas-SNP
FHDC1	85462	hgsc.bcm.edu	hg19	4	153897841	153897841	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	FHDC1	NM_033393	exon11	c.C3398T	p.T1133M	GGACCACGCTGGG	.	38.0	14.0	39.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
IQGAP2	10788	hgsc.bcm.edu	hg19	5	75970433	75970433	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	IQGAP2	NM_006633	exon27	c.C3426T	p.A1142A	AGTGGCCAAGGTT	.	99.0	37.0	78.0	0.0	.	186	.	.	.	none	.	.	PASS	Atlas-SNP
FEM1C	56929	hgsc.bcm.edu	hg19	5	114860103	114860103	+	Silent	SNP	A	A	G	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	FEM1C	NM_020177	exon3	c.T1756C	p.L586L	ACTGCAATGTGGT	.	147.0	57.0	102.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHA13	56136	hgsc.bcm.edu	hg19	5	140263609	140263609	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	PCDHA13,NS,carcinoma,0,1	PCDHA13	NM_031865	exon1	c.G1756T	p.G586C	TCGGTGGGTGCAG	.	59.0	20.0	54.0	0.0	.	213	.	.	.	none	.	.	PASS	Atlas-SNP
CLK4	57396	hgsc.bcm.edu	hg19	5	178045754	178045754	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	CLK4	NM_020666	exon3	c.A187G	p.N63D	GCTCATTCAAGGA	.	65.0	26.0	67.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
SLC22A7	10864	hgsc.bcm.edu	hg19	6	43269967	43269967	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	SLC22A7	NM_153320	exon7	c.T1091C	p.L364P	ACGGCCTGAGTCT	.	56.0	18.0	50.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	hg19	6	51924726	51924726	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	PKHD1	NM_170724	exon15	c.G1233T	p.K411N	GAATACCTTAGTC	.	33.0	8.0	33.0	0.0	.	927	.	.	.	none	.	.	PASS	Atlas-SNP
SMAP1	60682	hgsc.bcm.edu	hg19	6	71377783	71377783	+	Silent	SNP	C	C	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	SMAP1_ENST00000370455,NS,carcinoma,0,2	SMAP1	NM_001044305	exon1	c.C57A	p.L19L	CCAGCTCATCCTA	.	81.0	35.0	71.0	0.0	.	77	.	.	.	none	.	.	PASS	Atlas-SNP
EEF1A1	1915	hgsc.bcm.edu	hg19	6	74228567	74228567	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	EEF1A1	NM_001402	exon5	c.C626A	p.P209H	AACCAAGGCATCT	.	85.0	38.0	86.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
QRSL1	55278	hgsc.bcm.edu	hg19	6	107111042	107111042	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	QRSL1	NM_018292	exon10	c.C1348A	p.Q450K	TTTACACAAGCTG	.	59.0	13.0	57.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
RAET1E	135250	hgsc.bcm.edu	hg19	6	150211134	150211134	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	RAET1E	NM_139165	exon2	c.G233A	p.G78E	TTCTTCCCCAGGA	.	133.0	45.0	100.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
MLXIPL	51085	hgsc.bcm.edu	hg19	7	73038696	73038696	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	MLXIPL	NM_032954	exon1	c.C127T	p.R43C	GCGAGCGGAGCAA	.	49.0	20.0	20.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
TRRAP	8295	hgsc.bcm.edu	hg19	7	98506430	98506430	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	TRRAP_ENST00000359863,NS,carcinoma,0,4	TRRAP	NM_001244580	exon14	c.G1195C	p.V399L	CTCGCCGTCCAGC	.	97.0	42.0	49.0	0.0	.	863	.	.	.	none	.	.	PASS	Atlas-SNP
ZKSCAN5	23660	hgsc.bcm.edu	hg19	7	99117529	99117529	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	ZKSCAN5	NM_145102	exon4	c.C633T	p.S211S	TGGGTCCCAGGTG	.	67.0	35.0	39.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF282	8427	hgsc.bcm.edu	hg19	7	148892698	148892698	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	ZNF282	NM_003575	exon1	c.C17A	p.T6K	TGTCAACACGGCC	.	54.0	22.0	27.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
RP1	6101	hgsc.bcm.edu	hg19	8	55537660	55537660	+	Silent	SNP	G	G	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	RP1,colon,carcinoma,0,1	RP1	NM_006269	exon4	c.G1218A	p.E406E	GGCAGAGGAGATA	.	93.0	35.0	86.0	0.0	.	429	.	.	.	none	.	.	PASS	Atlas-SNP
ARFGEF1	10565	hgsc.bcm.edu	hg19	8	68200291	68200291	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	ARFGEF1	NM_006421	exon7	c.A926G	p.K309R	TCATTTTTAGATA	.	101.0	38.0	82.0	0.0	.	196	.	.	.	none	.	.	PASS	Atlas-SNP
CLTA	1211	hgsc.bcm.edu	hg19	9	36204095	36204095	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	CLTA	NM_001184761	exon4	c.G404A	p.W135X	CAGAGTGGAAAGA	.	66.0	21.0	59.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
KIF27	55582	hgsc.bcm.edu	hg19	9	86518501	86518501	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	KIF27	NM_017576	exon4	c.A932G	p.K311R	ACAGTCTTAGCAC	.	130.0	49.0	143.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
ANKS6	203286	hgsc.bcm.edu	hg19	9	101498890	101498890	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	ANKS6	NM_173551	exon15	c.A2527C	p.I843L	GTAAAATTTGTCT	.	59.0	11.0	55.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
STX17	55014	hgsc.bcm.edu	hg19	9	102730737	102730737	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	STX17	NM_017919	exon8	c.G691A	p.A231T	CTGGCAGCTCTGC	.	61.0	22.0	52.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
ENTPD8	377841	hgsc.bcm.edu	hg19	9	140332422	140332422	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	ENTPD8	NM_198585	exon3	c.G241T	p.E81X	AACCTTCCACCTG	.	20.0	10.0	31.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
DIP2C	22982	hgsc.bcm.edu	hg19	10	375429	375429	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	DIP2C	NM_014974	exon30	c.T3697C	p.Y1233H	CGGAGTAGGAGCA	.	24.0	8.0	35.0	0.0	.	195	.	.	.	none	.	.	PASS	Atlas-SNP
ASB13	79754	hgsc.bcm.edu	hg19	10	5683908	5683908	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	ASB13	NM_024701	exon5	c.G534A	p.A178A	CTTTGCCGCATTC	.	84.0	28.0	78.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
IPMK	253430	hgsc.bcm.edu	hg19	10	59986850	59986850	+	Silent	SNP	A	A	G	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	IPMK	NM_152230	exon3	c.T327C	p.Y109Y	TGGCAAATATTTT	.	49.0	15.0	52.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
CCAR1	55749	hgsc.bcm.edu	hg19	10	70547942	70547942	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	CCAR1	NM_018237	exon23	c.C3044T	p.S1015L	AGGAATCAAAGGA	.	290.0	118.0	241.0	0.0	.	118	.	.	.	none	.	.	PASS	Atlas-SNP
SEC24C	9632	hgsc.bcm.edu	hg19	10	75529171	75529171	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	SEC24C	NM_198597	exon18	c.T2491G	p.C831G	CTGAACTGCTGCA	.	95.0	45.0	85.0	0.0	.	86	.	.	.	none	.	.	PASS	Atlas-SNP
AFAP1L2	84632	hgsc.bcm.edu	hg19	10	116062118	116062118	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	AFAP1L2	NM_032550	exon12	c.T1410A	p.S470R	GGCCGCACTCACA	.	48.0	4.0	56.0	0.0	.	90	.	.	.	none	.	.	PASS	Atlas-SNP
BCCIP	56647	hgsc.bcm.edu	hg19	10	127515167	127515167	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	BCCIP	NM_016567	exon2	c.A173T	p.N58I	AAGTGAATATTGA	.	78.0	16.0	72.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
NAV2	89797	hgsc.bcm.edu	hg19	11	20065595	20065595	+	Silent	SNP	A	A	G	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	NAV2	NM_001244963	exon14	c.A3045G	p.S1015S	GAAATCAGACGGA	.	50.0	17.0	33.0	0.0	.	255	.	.	.	none	.	.	PASS	Atlas-SNP
SLC5A12	159963	hgsc.bcm.edu	hg19	11	26720062	26720062	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	SLC5A12	NM_178498	exon7	c.T842C	p.L281P	AGACCCAGCAAGT	.	76.0	34.0	55.0	0.0	.	134	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF408	79797	hgsc.bcm.edu	hg19	11	46724728	46724728	+	Missense_Mutation	SNP	A	A	C	rs376220307	bycluster	TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	ZNF408,caecum,carcinoma,0,1	ZNF408	NM_024741	exon4	c.A587C	p.E196A	TGACAGAAGTGGA	.	37.0	4.0	31.0	0.0	.	70	.	.	.	weak	.	.	PASS	Atlas-SNP
C11orf73	51501	hgsc.bcm.edu	hg19	11	86048421	86048421	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	C11orf73	NM_016401	exon3	c.G269C	p.G90A	TTGCAGGAGAAGG	.	90.0	32.0	76.0	0.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
ITPR2	3709	hgsc.bcm.edu	hg19	12	26810815	26810815	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	ITPR2	NM_002223	exon18	c.A2017G	p.M673V	CTTGCATTGAGAC	.	132.0	50.0	126.0	0.0	.	270	.	.	.	none	.	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	hg19	12	49445630	49445630	+	Silent	SNP	A	A	G	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	MLL2	NM_003482	exon10	c.T1836C	p.P612P	CTCCTCAGGTGGA	.	45.0	14.0	39.0	0.0	.	1173	.	.	.	none	.	.	PASS	Atlas-SNP
KERA	11081	hgsc.bcm.edu	hg19	12	91445296	91445296	+	Splice_Site	SNP	C	C	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	KERA	NM_007035	exon4	c.887-1G>A	.	TCACACCTACAGT	.	26.0	12.0	23.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
MTERFD3	80298	hgsc.bcm.edu	hg19	12	107371849	107371849	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	MTERFD3	NM_001033050	exon3	c.A644T	p.Q215L	GGGTTTTGGCTTA	.	102.0	38.0	79.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
ALDH2	217	hgsc.bcm.edu	hg19	12	112220989	112220989	+	Missense_Mutation	SNP	G	G	A	rs375845001		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	ALDH2	NM_000690	exon3	c.G247A	p.A83T	AAGGCCGCCCGGG	.	36.0	14.0	31.0	0.0	.	91	.	.	.	weak	.	.	PASS	Atlas-SNP
ALDH2	217	hgsc.bcm.edu	hg19	12	112220990	112220990	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	ALDH2	NM_000690	exon3	c.C248A	p.A83D	AGGCCGCCCGGGC	.	36.0	14.0	32.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
C12orf43	64897	hgsc.bcm.edu	hg19	12	121441960	121441960	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	C12orf43	NM_022895	exon6	c.A785G	p.N262S	GTTCAGTTTGCAG	.	121.0	38.0	96.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
KNTC1	9735	hgsc.bcm.edu	hg19	12	123089162	123089162	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	KNTC1	NM_014708	exon49	c.G5153A	p.W1718X	AGAGATGGCTACA	.	77.0	23.0	88.0	0.0	.	182	.	.	.	none	.	.	PASS	Atlas-SNP
KNTC1	9735	hgsc.bcm.edu	hg19	12	123089163	123089163	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	KNTC1	NM_014708	exon49	c.G5154T	p.W1718C	GAGATGGCTACAG	.	77.0	23.0	88.0	0.0	.	182	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC62	84660	hgsc.bcm.edu	hg19	12	123285813	123285813	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	CCDC62	NM_201435	exon9	c.G1120A	p.D374N	TCTTGCGATGAAT	.	122.0	46.0	101.0	0.0	.	119	.	.	.	none	.	.	PASS	Atlas-SNP
PCDH20	64881	hgsc.bcm.edu	hg19	13	61986120	61986120	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	PCDH20_ENST00000409186,NS,carcinoma,0,2	PCDH20	NM_022843	exon2	c.G2112A	p.Q704Q	GCTTTGCTGCTCT	.	85.0	25.0	82.0	0.0	.	265	.	.	.	none	.	.	PASS	Atlas-SNP
RAB20	55647	hgsc.bcm.edu	hg19	13	111213813	111213813	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	RAB20	NM_017817	exon1	c.G54C	p.K18N	CGACGTCTTCCCC	.	107.0	22.0	61.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
CEBPE	1053	hgsc.bcm.edu	hg19	14	23586764	23586764	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	CEBPE	NM_001805	exon2	c.C778T	p.L260F	TGCGGAGGGTGTC	.	39.0	16.0	36.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
SDR39U1	56948	hgsc.bcm.edu	hg19	14	24911432	24911432	+	Missense_Mutation	SNP	T	T	C	rs201052867	bycluster;alternate_allele	TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	SDR39U1	NM_020195	exon3	c.A158G	p.D53G	GCGGCATCGCAGC	.	35.0	17.0	34.0	0.0	.	19	.	.	.	alt	.	.	PASS	Atlas-SNP
SERPINA3	12	hgsc.bcm.edu	hg19	14	95089993	95089993	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	SERPINA3	NM_001085	exon5	c.G1114A	p.A372T	ACAGAAGCATCTG	.	86.0	24.0	98.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
SYNE3	161176	hgsc.bcm.edu	hg19	14	95942145	95942145	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	SYNE3	NM_152592	exon1	c.C14T	p.P5L	TCCTGGGGCTGCT	.	32.0	12.0	29.0	0.0	.	130	.	.	.	none	.	.	PASS	Atlas-SNP
NARG2	79664	hgsc.bcm.edu	hg19	15	60741577	60741577	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	NARG2	NM_024611	exon10	c.T1589A	p.M530K	ATAGTCATATCAT	.	93.0	38.0	87.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
RORA	6095	hgsc.bcm.edu	hg19	15	60803577	60803577	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	RORA	NM_134260	exon6	c.T767C	p.L256P	ATGTCCAGGTAGA	.	207.0	73.0	148.0	0.0	.	114	.	.	.	none	.	.	PASS	Atlas-SNP
AKAP13	11214	hgsc.bcm.edu	hg19	15	86122646	86122646	+	Silent	SNP	C	C	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	AKAP13	NM_007200	exon7	c.C1347T	p.D449D	GAGAGACTTGGTC	.	79.0	31.0	78.0	0.0	.	394	.	.	.	none	.	.	PASS	Atlas-SNP
HMOX2	3163	hgsc.bcm.edu	hg19	16	4557964	4557964	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	HMOX2	NM_001127205	exon4	c.A455G	p.H152R	TGGCCCATGCATA	.	90.0	41.0	50.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
CES1	1066	hgsc.bcm.edu	hg19	16	55846940	55846940	+	Missense_Mutation	SNP	C	C	T	rs138161688		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	CES1	NM_001025195	exon9	c.G961A	p.G321S	CAGTGCCCAGAAG	.	48.0	30.0	32.0	0.0	.	78	.	.	.	weak	C|1.000;T|0.000	0.000	PASS	Atlas-SNP
E2F4	1874	hgsc.bcm.edu	hg19	16	67226690	67226690	+	Silent	SNP	G	G	A	rs143700278		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	E2F4	NM_001950	exon2	c.G162A	p.Q54Q	ACGCCAGAAGCGG	.	72.0	37.0	63.0	0.0	.	25	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
AARS	16	hgsc.bcm.edu	hg19	16	70316587	70316587	+	Missense_Mutation	SNP	T	T	C	rs77753666	bycluster;alternate_allele	TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	AARS	NM_001605	exon2	c.A80G	p.H27R	GACGAGTGAACAT	.	100.0	60.0	74.0	0.0	.	62	.	.	.	alt	.	.	PASS	Atlas-SNP
FAM92B	339145	hgsc.bcm.edu	hg19	16	85144008	85144008	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	FAM92B	NM_198491	exon2	c.C79G	p.Q27E	AGAACTGCCCAAA	.	78.0	23.0	60.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
PIK3R5	23533	hgsc.bcm.edu	hg19	17	8794161	8794161	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	PIK3R5	NM_001142633	exon7	c.C551T	p.T184M	CCGGGCGTACTCA	.	48.0	23.0	35.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
SMCR8	140775	hgsc.bcm.edu	hg19	17	18220533	18220533	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	SMCR8	NM_144775	exon1	c.C1430T	p.T477M	TGGGCACGGAGAA	.	52.0	14.0	39.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
KSR1	8844	hgsc.bcm.edu	hg19	17	25919618	25919618	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	KSR1	NM_014238	exon9	c.A854G	p.H285R	AACCCCATTTTGG	.	91.0	34.0	68.0	0.0	.	151	.	.	.	none	.	.	PASS	Atlas-SNP
NR1D1	9572	hgsc.bcm.edu	hg19	17	38249443	38249443	+	Silent	SNP	A	A	G	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	NR1D1	NM_021724	exon8	c.T1738C	p.L580L	TCTCCAAGGGCCG	.	81.0	57.0	60.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
AZI1	22994	hgsc.bcm.edu	hg19	17	79166382	79166382	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	AZI1	NM_014984	exon20	c.A2441G	p.E814G	TCCAGCTCCGCCC	.	64.0	18.0	54.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
TGIF1	7050	hgsc.bcm.edu	hg19	18	3457644	3457644	+	Silent	SNP	T	T	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	TGIF1	NM_170695	exon3	c.T912C	p.H304H	CTGCCATACCACT	.	81.0	25.0	85.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
GADD45B	4616	hgsc.bcm.edu	hg19	19	2477521	2477521	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	GADD45B	NM_015675	exon4	c.G405C	p.L135F	CGGCTTGGTGGAG	.	35.0	17.0	20.0	0.0	.	6	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF283	284349	hgsc.bcm.edu	hg19	19	44341266	44341266	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	ZNF283	NM_181845	exon6	c.A272T	p.D91V	GCCTGGACCCTGC	.	92.0	33.0	82.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
SYMPK	8189	hgsc.bcm.edu	hg19	19	46355636	46355636	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	SYMPK	NM_004819	exon5	c.T233C	p.I78T	AATGCGATGATCT	.	101.0	37.0	112.0	0.0	.	104	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF649	65251	hgsc.bcm.edu	hg19	19	52394350	52394350	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	ZNF649	NM_023074	exon5	c.G1039T	p.G347X	TGCATCCATAAGG	.	79.0	30.0	71.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
CTCFL	140690	hgsc.bcm.edu	hg19	20	56098332	56098332	+	Silent	SNP	G	G	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	CTCFL	NM_001269044	exon2	c.C546T	p.L182L	TTCCTCGAGCTAA	.	163.0	67.0	146.0	0.0	.	97	.	.	.	none	.	.	PASS	Atlas-SNP
THOC2	57187	hgsc.bcm.edu	hg19	X	122766884	122766884	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	THOC2	NM_001081550	exon21	c.A2144G	p.Y715C	CCAAAATAACCAC	.	64.0	49.0	59.0	0.0	.	310	.	.	.	none	.	.	PASS	Atlas-SNP
SMCR8	140775	hgsc.bcm.edu	hg19	17	18220521	18220521	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	SMCR8	NM_144775	exon1	c.1417delG	p.E473fs	.	.	51.0	15.0	49.0	0.0	.	62	.	0.294118	0	none	.	.	PASS	Atlas-Indel,Pindel
SLC9A4	389015	hgsc.bcm.edu	hg19	2	103120119	103120119	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	SLC9A4	NM_001011552	exon3	c.932delA	p.Y311fs	.	.	227.0	68.0	211.0	0.0	.	115	.	0.299559	0	none	.	.	PASS	Atlas-Indel,Pindel
HNRNPAB	3182	hgsc.bcm.edu	hg19	5	177632987	177632988	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	HNRNPAB	NM_004499	exon3	c.354_355insA	p.F118fs	.	.	124.0	54.0	124.0	0.0	.	24	.	0.435484	0	none	.	.	PASS	Atlas-Indel,Pindel
GUCY2C	2984	hgsc.bcm.edu	hg19	12	14822676	14822676	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	GUCY2C	NM_004963	exon10	c.1263delT	p.P421fs	.	.	62.0	20.0	58.0	0.0	.	126	.	0.322581	0	none	.	.	PASS	Atlas-Indel,Pindel
VPS52	6293	hgsc.bcm.edu	hg19	6	33231610	33231610	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	VPS52	NM_022553	exon16	c.1668delA	p.S556fs	.	.	70.0	22.0	55.0	0.0	.	56	.	0.314286	0	none	.	.	PASS	Atlas-Indel,Pindel
DIEXF	27042	hgsc.bcm.edu	hg19	1	210010373	210010380	+	Frame_Shift_Del	DEL	CTACCCGG	CTACCCGG	-	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	CTACCCGG	CTACCCGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	DIEXF	NM_014388	exon6	c.878_885del	p.293_295del	.	.	65.0	28.0	77.0	0.0	.	97	.	0.430769	0	none	.	.	PASS	Atlas-Indel,Pindel
EPS8L1	54869	hgsc.bcm.edu	hg19	19	55593489	55593489	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	EPS8L1	NM_133180	exon10	c.930delG	p.P310fs	.	.	109.0	42.0	111.0	0.0	.	122	.	0.385321	0	none	.	.	PASS	Atlas-Indel,Pindel
LRRC8D	55144	hgsc.bcm.edu	hg19	1	90399389	90399389	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	LRRC8D	NM_018103	exon3	c.761delT	p.I254fs	.	.	51.0	19.0	47.0	0.0	.	78	.	0.372549	0	none	.	.	PASS	Atlas-INDEL
SPAG17	200162	hgsc.bcm.edu	hg19	1	118509280	118509281	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	SPAG17	NM_206996	exon47	c.6484_6485insT	p.I2162fs	.	.	148.0	58.0	115.0	0.0	.	263	.	0.391892	0	none	.	.	PASS	Atlas-Indel,Pindel
C1orf173	127254	hgsc.bcm.edu	hg19	1	75072484	75072484	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	C1orf173	NM_001002912	exon10	c.1291delG	p.V431X	.	.	424.0	157.0	334.0	0.0	.	380	.	0.370283	0	none	.	.	PASS	Atlas-Indel,Pindel
LRRC8D	55144	hgsc.bcm.edu	hg19	1	90399387	90399390	+	Frame_Shift_Del	DEL	ATCA	ATCA	-	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	ATCA	ATCA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	LRRC8D	NM_018103	exon3	c.759_762del	p.253_254del	.	.	55.0	10.0	50.0	0.0	.	78	.	0.182	.	none	.	.	PASS	Pindel
MZT2B	80097	hgsc.bcm.edu	hg19	2	130948157	130948157	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-SX-A7SN-01A-11D-A34Z-10	TCGA-SX-A7SN-10A-01D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d71c98f8-db62-494f-8677-8997e476ee98	7b35d4fc-dac8-427e-b9c4-1acb0a501501	.	MZT2B	NM_025029	exon3	c.434delA	p.K145fs	.	.	132.0	36.0	115.0	0.0	.	5	.	0.273	.	none	.	.	PASS	Pindel
