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
MTOR	2475	hgsc.bcm.edu	hg19	1	11273603	11273603	+	Silent	SNP	G	G	C	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	MTOR	NM_004958	exon21	c.C3138G	p.T1046T	AATTGAGGTGTTC	.	187.0	71.0	129.0	0.0	.	327	.	.	.	none	.	.	PASS	Atlas-SNP
UBR4	23352	hgsc.bcm.edu	hg19	1	19490300	19490300	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	UBR4	NM_020765	exon34	c.G4722C	p.K1574N	TACATTCTTCTGT	.	175.0	70.0	214.0	0.0	.	415	.	.	.	none	.	.	PASS	Atlas-SNP
EPHA8	2046	hgsc.bcm.edu	hg19	1	22927186	22927186	+	Silent	SNP	A	A	T	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	EPHA8	NM_020526	exon14	c.A2421T	p.P807P	GGCCCCAGAGGCC	.	225.0	82.0	249.0	0.0	.	221	.	.	.	none	.	.	PASS	Atlas-SNP
MCOLN3	55283	hgsc.bcm.edu	hg19	1	85487988	85487988	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	MCOLN3	NM_018298	exon10	c.G1191T	p.K397N	GTTGTACTTTGCA	.	52.0	19.0	27.0	0.0	.	74	.	.	.	none	.	.	PASS	Atlas-SNP
CD46	4179	hgsc.bcm.edu	hg19	1	207940508	207940508	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	CD46	NM_172352	exon6	c.C824A	p.T275N	ACAGTACTTGGGA	.	60.0	23.0	80.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
RBM34	23029	hgsc.bcm.edu	hg19	1	235318245	235318245	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	RBM34	NM_001161533	exon4	c.A548T	p.N183I	CTCTCATTCTTTA	.	266.0	90.0	288.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
HADHA	3030	hgsc.bcm.edu	hg19	2	26459821	26459821	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	HADHA	NM_000182	exon4	c.C216G	p.F72L	TTCTGAGAACTCT	.	246.0	82.0	180.0	0.0	.	87	.	.	.	none	.	.	PASS	Atlas-SNP
GTF3C2	2976	hgsc.bcm.edu	hg19	2	27565920	27565920	+	Silent	SNP	G	G	T	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	GTF3C2	NM_001521	exon4	c.T342A	p.V114V	CTGTTGGGGCCTT	.	227.0	78.0	331.0	1.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
HAAO	23498	hgsc.bcm.edu	hg19	2	42994588	42994588	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	HAAO	NM_012205	exon10	c.C850G	p.P284A	CCAGGGGCTTCTT	.	67.0	11.0	61.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
BIN1	274	hgsc.bcm.edu	hg19	2	127818193	127818193	+	Missense_Mutation	SNP	C	C	G	rs117721706	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	BIN1	NM_139346	exon10	c.G788C	p.R263P	CGCAGCCGCGAAA	.	143.0	47.0	183.0	0.0	.	85	.	.	.	alt	C|0.992;T|0.008	.	PASS	Atlas-SNP
TRNT1	51095	hgsc.bcm.edu	hg19	3	3189651	3189651	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	TRNT1	NM_182916	exon8	c.G1118C	p.C373S	AGCACTGTCTCCT	.	20.0	8.0	38.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
OSBPL10	114884	hgsc.bcm.edu	hg19	3	31774841	31774841	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	OSBPL10	NM_017784	exon6	c.C1003T	p.L335F	AGCCAAGTGTCCC	.	285.0	80.0	318.0	0.0	.	160	.	.	.	none	.	.	PASS	Atlas-SNP
ATR	545	hgsc.bcm.edu	hg19	3	142274792	142274792	+	Silent	SNP	A	A	T	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	ATR	NM_001184	exon10	c.T2268A	p.S756S	TAGTTGAGAAGAT	.	128.0	42.0	178.0	0.0	.	285	.	.	.	none	.	.	PASS	Atlas-SNP
SLC26A1	10861	hgsc.bcm.edu	hg19	4	985220	985220	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	SLC26A1	NM_022042	exon2	c.C272T	p.S91L	AGCAATGAGTAGG	.	228.0	82.0	257.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
ACOX3	8310	hgsc.bcm.edu	hg19	4	8417674	8417674	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	ACOX3	NM_001101667	exon3	c.G197A	p.G66E	TCGGCTCCAGGGG	.	197.0	74.0	231.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
AASDH	132949	hgsc.bcm.edu	hg19	4	57248668	57248668	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	AASDH	NM_181806	exon3	c.T326A	p.I109N	ACAAGGATATACT	.	45.0	16.0	72.0	0.0	.	101	.	.	.	none	.	.	PASS	Atlas-SNP
ABCG2	9429	hgsc.bcm.edu	hg19	4	89039327	89039327	+	Silent	SNP	A	A	G	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	ABCG2	NM_004827	exon7	c.T775C	p.L259L	AGGCCAATAAGGT	.	86.0	32.0	99.0	0.0	.	151	.	.	.	none	.	.	PASS	Atlas-SNP
NDST4	64579	hgsc.bcm.edu	hg19	4	115767018	115767018	+	Silent	SNP	G	G	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	NDST4	NM_022569	exon10	c.C2076T	p.I692I	AATGAGGATGGTG	.	128.0	51.0	135.0	0.0	.	193	.	.	.	none	.	.	PASS	Atlas-SNP
ASB5	140458	hgsc.bcm.edu	hg19	4	177136796	177136796	+	Silent	SNP	T	T	C	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	ASB5	NM_080874	exon7	c.A945G	p.Q315Q	CTGGAGTTGTGGG	.	56.0	16.0	68.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
FAM149A	25854	hgsc.bcm.edu	hg19	4	187077186	187077186	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	FAM149A	NM_001006655	exon6	c.A416G	p.Q139R	CAGCTCAGCCCGG	.	114.0	41.0	132.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
LIFR	3977	hgsc.bcm.edu	hg19	5	38504185	38504185	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	LIFR	NM_002310	exon10	c.A1330G	p.I444V	AATTAATATCCTT	.	57.0	18.0	66.0	0.0	.	348	.	.	.	none	.	.	PASS	Atlas-SNP
SLC36A3	285641	hgsc.bcm.edu	hg19	5	150660717	150660717	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	SLC36A3	NM_001145017	exon10	c.C1125A	p.Y375X	GATAGAGTACATC	.	198.0	75.0	186.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
RGS14	10636	hgsc.bcm.edu	hg19	5	176797996	176797996	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	RGS14	NM_006480	exon11	c.G1218T	p.K406N	GGAGAAGCACGGC	.	49.0	16.0	72.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
OR11A1	26531	hgsc.bcm.edu	hg19	6	29395381	29395381	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	OR11A1	NM_013937	exon1	c.A38C	p.E13A	ACAAATTCAGTAA	.	98.0	34.0	130.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
SEPT7	989	hgsc.bcm.edu	hg19	7	35912377	35912377	+	Splice_Site	SNP	G	G	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	SEPT7	NM_001011553	exon4	c.374+1G>A	.	TAATTGGTAAGAA	.	35.0	13.0	34.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
PRKRIP1	79706	hgsc.bcm.edu	hg19	7	102040095	102040095	+	Silent	SNP	G	G	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	PRKRIP1	NM_024653	exon3	c.G306A	p.K102K	TGAGAAGGTCAGT	.	366.0	147.0	224.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
PRKRIP1	79706	hgsc.bcm.edu	hg19	7	102040096	102040096	+	Splice_Site	SNP	G	G	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	PRKRIP1	NM_024653	exon3	c.306+1G>A	.	GAGAAGGTCAGTG	.	360.0	147.0	223.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF777	27153	hgsc.bcm.edu	hg19	7	149129443	149129443	+	Silent	SNP	C	C	T	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	ZNF777	NM_015694	exon6	c.G1920A	p.E640E	GTCGCACTCGGGG	.	515.0	202.0	366.0	1.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
ZFHX4	79776	hgsc.bcm.edu	hg19	8	77776650	77776650	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	ZFHX4	NM_024721	exon11	c.C10700A	p.S3567X	AAACCTCACTACC	.	106.0	5.0	51.0	0.0	.	878	.	.	.	none	.	.	PASS	Atlas-SNP
CA9	768	hgsc.bcm.edu	hg19	9	35674197	35674197	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	CA9	NM_001216	exon1	c.G241T	p.E81X	GGAGAGGAGGATC	.	84.0	23.0	112.0	0.0	.	48	.	.	.	none	.	.	PASS	Atlas-SNP
ECD	11319	hgsc.bcm.edu	hg19	10	74896486	74896486	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	ECD	NM_001135752	exon14	c.A1779C	p.K593N	GAAACTTTTGCTG	.	179.0	75.0	225.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
COX15	1355	hgsc.bcm.edu	hg19	10	101491791	101491791	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	COX15	NM_078470	exon1	c.T16G	p.F6V	GCGGAAAGAGCAA	.	56.0	18.0	56.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
E2F8	79733	hgsc.bcm.edu	hg19	11	19251275	19251275	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	E2F8	NM_001256372	exon10	c.T1619A	p.L540Q	GGGCTCAGGCCTT	.	410.0	146.0	448.0	0.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
QSER1	79832	hgsc.bcm.edu	hg19	11	32954930	32954930	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	QSER1	NM_001076786	exon4	c.C1739A	p.S580X	TTGAGTCATCAAC	.	48.0	14.0	47.0	0.0	.	153	.	.	.	none	.	.	PASS	Atlas-SNP
MADD	8567	hgsc.bcm.edu	hg19	11	47304129	47304129	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	MADD	NM_130474	exon9	c.T1667G	p.L556R	GGATCCTTAACCC	.	137.0	50.0	138.0	0.0	.	172	.	.	.	none	.	.	PASS	Atlas-SNP
HSPA8	3312	hgsc.bcm.edu	hg19	11	122931912	122931912	+	Missense_Mutation	SNP	A	A	G	rs75739900	bycluster	TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	HSPA8	NM_006597	exon2	c.T121C	p.Y41H	CGACATAGCTTGG	.	150.0	6.0	204.0	0.0	.	168	.	.	.	weak	.	.	PASS	Atlas-SNP
PIK3C2G	5288	hgsc.bcm.edu	hg19	12	18658292	18658292	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	PIK3C2G	NM_004570	exon23	c.G3097A	p.D1033N	GTATGTGACCGTC	.	11.0	7.0	16.0	0.0	.	315	.	.	.	none	.	.	PASS	Atlas-SNP
PDZRN4	29951	hgsc.bcm.edu	hg19	12	41585335	41585335	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	PDZRN4	NM_001164595	exon2	c.C724T	p.R242X	GGAGGTCGACCAA	.	105.0	34.0	56.0	0.0	.	346	.	.	.	none	.	.	PASS	Atlas-SNP
ACAD10	80724	hgsc.bcm.edu	hg19	12	112184083	112184083	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	ACAD10	NM_001136538	exon15	c.C2344A	p.P782T	TATGCCCCCGAGG	.	339.0	89.0	265.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM132D	121256	hgsc.bcm.edu	hg19	12	130184819	130184819	+	Silent	SNP	C	C	G	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	TMEM132D	NM_133448	exon2	c.G504C	p.L168L	GACCCTCAGGCAC	.	103.0	57.0	96.0	0.0	.	299	.	.	.	none	.	.	PASS	Atlas-SNP
SLC46A3	283537	hgsc.bcm.edu	hg19	13	29287510	29287510	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	SLC46A3	NM_181785	exon3	c.T367C	p.Y123H	CAAAATAGCAAAG	.	54.0	13.0	68.0	0.0	.	86	.	.	.	none	.	.	PASS	Atlas-SNP
ATP7B	540	hgsc.bcm.edu	hg19	13	52548108	52548108	+	Silent	SNP	A	A	T	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	ATP7B	NM_000053	exon2	c.T1248A	p.A416A	TTCTATAGCAGCT	.	245.0	90.0	201.0	0.0	.	123	.	.	.	none	.	.	PASS	Atlas-SNP
RNF219	79596	hgsc.bcm.edu	hg19	13	79190506	79190506	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	RNF219	NM_024546	exon6	c.A1390T	p.T464S	ATCCTGTCTTTGG	.	58.0	25.0	34.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
SDR39U1	56948	hgsc.bcm.edu	hg19	14	24910963	24910963	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	SDR39U1,colon,carcinoma,0,1	SDR39U1	NM_020195	exon4	c.G245C	p.R82P	TCTAGGCGGCTGC	.	74.0	6.0	84.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
SPINT1	6692	hgsc.bcm.edu	hg19	15	41146021	41146021	+	Silent	SNP	C	C	T	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	SPINT1	NM_181642	exon5	c.C855T	p.G285G	CTTGGGCAACAAG	.	317.0	106.0	391.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
TP53BP1	7158	hgsc.bcm.edu	hg19	15	43724401	43724401	+	Silent	SNP	G	G	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	TP53BP1	NM_001141980	exon17	c.C3666T	p.L1222L	GCTATGGAGCGAC	.	37.0	13.0	48.0	0.0	.	157	.	.	.	none	.	.	PASS	Atlas-SNP
CGNL1	84952	hgsc.bcm.edu	hg19	15	57730838	57730838	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	CGNL1	NM_001252335	exon3	c.C641G	p.T214R	GTGTGACAGCTAT	.	467.0	169.0	625.0	1.0	.	125	.	.	.	none	.	.	PASS	Atlas-SNP
MCTP2	55784	hgsc.bcm.edu	hg19	15	94841734	94841734	+	Silent	SNP	C	C	T	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	MCTP2	NM_001159643	exon1	c.C240T	p.S80S	GCCCAGCAGTCTG	.	261.0	80.0	359.0	0.0	.	122	.	.	.	none	.	.	PASS	Atlas-SNP
ATAD5	79915	hgsc.bcm.edu	hg19	17	29220728	29220728	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	ATAD5	NM_024857	exon21	c.T4857G	p.N1619K	AAACAATCCAGAG	.	126.0	28.0	120.0	0.0	.	150	.	.	.	none	.	.	PASS	Atlas-SNP
TANC2	26115	hgsc.bcm.edu	hg19	17	61466867	61466867	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	TANC2	NM_025185	exon15	c.C2791A	p.L931M	GGGTACCTGAGCA	.	57.0	28.0	29.0	0.0	.	266	.	.	.	none	.	.	PASS	Atlas-SNP
SALL3	27164	hgsc.bcm.edu	hg19	18	76754972	76754972	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	SALL3	NM_171999	exon2	c.T2981C	p.I994T	TGGAAATCCACTA	.	86.0	33.0	148.0	0.0	.	162	.	.	.	none	.	.	PASS	Atlas-SNP
DOT1L	84444	hgsc.bcm.edu	hg19	19	2191111	2191111	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	DOT1L	NM_032482	exon5	c.C365G	p.P122R	CCGACCCCGAGAA	.	116.0	41.0	122.0	0.0	.	205	.	.	.	none	.	.	PASS	Atlas-SNP
CASP14	23581	hgsc.bcm.edu	hg19	19	15164633	15164633	+	Silent	SNP	C	C	T	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	CASP14	NM_012114	exon4	c.C267T	p.H89H	GGCTCACGGGAGG	.	244.0	35.0	281.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
NWD1	284434	hgsc.bcm.edu	hg19	19	16918705	16918705	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	NWD1	NM_001007525	exon18	c.G4045A	p.E1349K	CTGCCCGAGACCC	.	404.0	153.0	475.0	0.0	.	303	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF285	26974	hgsc.bcm.edu	hg19	19	44896570	44896570	+	Missense_Mutation	SNP	C	C	G	rs144077949	bycluster;byfrequency;alternate_allele	TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	ZNF285	NM_152354	exon3	c.G76C	p.D26H	CTTTATCCAATAG	.	74.0	33.0	67.0	0.0	.	86	.	.	.	alt	C|0.997;T|0.003	.	PASS	Atlas-SNP
ZNF665	79788	hgsc.bcm.edu	hg19	19	53669370	53669370	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	ZNF665	NM_024733	exon4	c.G373C	p.A125P	GTTGAGCTCTTCT	.	196.0	64.0	271.0	0.0	.	136	.	.	.	none	.	.	PASS	Atlas-SNP
HELZ2	85441	hgsc.bcm.edu	hg19	20	62193087	62193087	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	.	NM_001037335	exon13	c.A6703G	p.R2235G	TCCTTCTCAGGAG	.	63.0	23.0	88.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
LSS	4047	hgsc.bcm.edu	hg19	21	47626684	47626684	+	Splice_Site	SNP	T	T	G	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	LSS	NM_001001438	exon17	c.1468-2A>C	.	AGCAGCTGAAATC	.	154.0	59.0	175.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
LONRF3	79836	hgsc.bcm.edu	hg19	X	118109101	118109101	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	LONRF3	NM_001031855	exon1	c.G358T	p.A120S	GGCGAGGCGCTGG	.	8.0	7.0	7.0	0.0	.	138	.	.	.	none	.	.	PASS	Atlas-SNP
A2ML1	144568	hgsc.bcm.edu	hg19	12	9006738	9006738	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	A2ML1	NM_144670	exon21	c.2604delT	p.F868fs	.	.	134.0	72.0	75.0	0.0	.	199	.	0.537313	0	none	.	.	PASS	Atlas-INDEL
PTPRM	5797	hgsc.bcm.edu	hg19	18	7567846	7567846	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	PTPRM	NM_001105244	exon1	c.29delC	p.T10fs	.	.	129.0	46.0	172.0	0.0	.	185	.	0.356589	0	none	.	.	PASS	Atlas-INDEL
TOP3B	8940	hgsc.bcm.edu	hg19	22	22319734	22319735	+	In_Frame_Ins	INS	-	-	TTG	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	TOP3B	NM_003935	exon9	c.866_867insCAA	p.S289delinsTS	.	.	55.0	14.0	68.0	0.0	.	107	.	0.254545	0	none	.	.	PASS	Atlas-INDEL
XRCC5	7520	hgsc.bcm.edu	hg19	2	216981563	216981564	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	XRCC5	NM_021141	exon3	c.317_318insC	p.D106fs	.	.	75.0	24.0	96.0	0.0	.	64	.	0.32	0	none	.	.	PASS	Atlas-INDEL
PCDHGA4	56111	hgsc.bcm.edu	hg19	5	140735217	140735218	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	PCDHGA4	NM_032053	exon1	c.450_451insG	p.A150fs	.	.	77.0	22.0	110.0	0.0	.	150	.	0.285714	0	none	.	.	PASS	Atlas-INDEL
GTF3C2	2976	hgsc.bcm.edu	hg19	2	27565919	27565920	+	Frame_Shift_Ins	INS	-	-	TGGCCTTT	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	GTF3C2,NS,malignant_melanoma,0,1	GTF3C2	NM_001035521	exon3	c.343_344insAAAGGCCA	p.P115fs	.	.	225.0	28.0	332.0	0.0	.	73	.	0.124444	0	none	.	.	PASS	Atlas-INDEL
COL5A1	1289	hgsc.bcm.edu	hg19	9	137593045	137593045	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	COL5A1	NM_000093	exon4	c.519delC	p.H173fs	.	.	78.0	28.0	89.0	0.0	.	323	.	0.358974	0	none	.	.	PASS	Atlas-INDEL
HECA	51696	hgsc.bcm.edu	hg19	6	139495590	139495590	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	HECA	NM_016217	exon3	c.1380delC	p.I460fs	.	.	180.0	59.0	156.0	0.0	.	45	.	0.327778	0	none	.	.	PASS	Atlas-INDEL
CYP2D6	1565	hgsc.bcm.edu	hg19	22	42523507	42523516	+	Frame_Shift_Del	DEL	AGGGGGACGA	AGGGGGACGA	-	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	AGGGGGACGA	AGGGGGACGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	CYP2D6	NM_000106	exon7	c.1107_1116del	p.369_372del	.	.	147.0	14.0	205.0	0.0	.	104	.	0.0952381	0	none	.	.	PASS	Atlas-INDEL
GTF3C2	2976	hgsc.bcm.edu	hg19	2	27565929	27565930	+	Frame_Shift_Del	DEL	GG	GG	-	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	GG	GG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	GTF3C2,NS,carcinoma,0,1	GTF3C2	NM_001035521	exon3	c.333_334del	p.111_112del	.	.	232.0	15.0	316.0	0.0	.	73	.	0.0646552	0	none	.	.	PASS	Atlas-INDEL
ZMYM6	9204	hgsc.bcm.edu	hg19	1	35457962	35457962	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-B9-4113-01A-01D-1252-08	TCGA-B9-4113-11A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	527ea66a-fb9e-4308-b49d-48226ac05304	881301ff-ec26-46fd-834f-93d9b3ec8da0	.	ZMYM6	NM_007167	exon15	c.2020delT	p.F674fs	.	.	165.0	54.0	196.0	0.0	.	110	.	0.327273	0	none	.	.	PASS	Atlas-INDEL
