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
TMEM52	339456	hgsc.bcm.edu	hg19	1	1850654	1850654	+	Silent	SNP	G	G	C	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	TMEM52,NS,carcinoma,0,1	TMEM52	NM_178545	exon1	c.C51G	p.L17L	CGGCAGGAGCGGC	.	3.0	3.0	2.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
PRKCZ	5590	hgsc.bcm.edu	hg19	1	2066777	2066777	+	Silent	SNP	C	C	T	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	PRKCZ	NM_002744	exon5	c.C411T	p.R137R	CAAGCGCTTTAAC	.	32.0	18.0	41.0	0.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF644	84146	hgsc.bcm.edu	hg19	1	91403569	91403569	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	ZNF644	NM_201269	exon4	c.C3161A	p.S1054X	TGATTTGATAATC	.	37.0	16.0	38.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
SUSD4	55061	hgsc.bcm.edu	hg19	1	223536686	223536686	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	SUSD4	NM_017982	exon2	c.A82G	p.R28G	AGAGTCTCTGGGG	.	132.0	44.0	142.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
CLEC4F	165530	hgsc.bcm.edu	hg19	2	71036918	71036918	+	Silent	SNP	G	G	A	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	CLEC4F	NM_173535	exon6	c.C1611T	p.S537S	GCGCCAGGAGCCC	.	88.0	25.0	57.0	0.0	.	95	.	.	.	none	.	.	PASS	Atlas-SNP
KIF1A	547	hgsc.bcm.edu	hg19	2	241696843	241696843	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	KIF1A	NM_001244008	exon27	c.G2751T	p.E917D	CTCATCCTCCTCC	.	98.0	5.0	74.0	0.0	.	152	.	.	.	none	.	.	PASS	Atlas-SNP
HDLBP	3069	hgsc.bcm.edu	hg19	2	242196033	242196033	+	Silent	SNP	T	T	C	rs200251201		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	HDLBP	NM_001243900	exon7	c.A747G	p.L249L	GATGAGTAAGACT	.	131.0	35.0	119.0	0.0	.	118	.	.	.	weak	T|0.999;C|0.001	0.001	PASS	Atlas-SNP
CADM2	253559	hgsc.bcm.edu	hg19	3	85851274	85851274	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	CADM2	NM_001167675	exon3	c.G166C	p.D56H	AGGGTTGATCAAA	.	110.0	6.0	113.0	0.0	.	195	.	.	.	none	.	.	PASS	Atlas-SNP
ALDH1L1	10840	hgsc.bcm.edu	hg19	3	125826081	125826081	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	ALDH1L1	NM_001270364	exon21	c.T2386G	p.F796V	GCTCAAAGAAGAA	.	56.0	36.0	32.0	0.0	.	138	.	.	.	none	.	.	PASS	Atlas-SNP
DDX60L	91351	hgsc.bcm.edu	hg19	4	169382991	169382991	+	Silent	SNP	C	C	T	rs17612630	bycluster;byfrequency;byhapmap;by1000genomes;alternate_allele	TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	DDX60L	NM_001012967	exon5	c.G465A	p.T155T	AAGGTACGTTTGT	.	93.0	21.0	108.0	0.0	.	116	.	.	.	alt	C|0.904;A|0.096	.	PASS	Atlas-SNP
IK	3550	hgsc.bcm.edu	hg19	5	140034136	140034136	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	IK	NM_006083	exon7	c.A555C	p.E185D	AGAGGAAGAGGAA	.	467.0	155.0	516.0	1.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHA12	56137	hgsc.bcm.edu	hg19	5	140256291	140256291	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	PCDHA12,NS,carcinoma,0,2	PCDHA12	NM_018903	exon1	c.G1234A	p.A412T	GACAGCGCCCTGG	.	174.0	8.0	171.0	0.0	.	196	.	.	.	none	.	.	PASS	Atlas-SNP
NFYA	4800	hgsc.bcm.edu	hg19	6	41059422	41059422	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	NFYA	NM_002505	exon7	c.G703A	p.G235R	TCAGGAGGGATGG	.	55.0	21.0	58.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
NOD1	10392	hgsc.bcm.edu	hg19	7	30492406	30492406	+	Silent	SNP	G	G	A	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	NOD1	NM_006092	exon6	c.C627T	p.S209S	CAGCATGGACTTG	.	83.0	23.0	53.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF273	10793	hgsc.bcm.edu	hg19	7	64388953	64388953	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	ZNF273	NM_021148	exon4	c.C1247G	p.T416S	CCACAACTCTTAC	.	169.0	77.0	103.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
ABCB4	5244	hgsc.bcm.edu	hg19	7	87049331	87049331	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	ABCB4	NM_018850	exon19	c.A2377G	p.K793E	TTGCTTTAAAAGC	.	148.0	64.0	111.0	0.0	.	177	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGAP22	58504	hgsc.bcm.edu	hg19	10	49659052	49659052	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	ARHGAP22	NM_001256024	exon9	c.G1168C	p.E390Q	TGACCTCCTCGGA	.	60.0	25.0	82.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
DDN	23109	hgsc.bcm.edu	hg19	12	49390815	49390815	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	DDN	NM_015086	exon2	c.T1844A	p.V615E	CGGGACACGGCTT	.	28.0	13.0	25.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
ZIC2	7546	hgsc.bcm.edu	hg19	13	100635322	100635322	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	ZIC2	NM_007129	exon1	c.G1004A	p.C335Y	TCCCCTGCCCCTT	.	87.0	26.0	114.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
SCFD1	23256	hgsc.bcm.edu	hg19	14	31175075	31175075	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	SCFD1	NM_016106	exon18	c.A1537T	p.T513S	AGCACTACCACTA	.	70.0	20.0	58.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
ZFYVE26	23503	hgsc.bcm.edu	hg19	14	68252617	68252617	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	ZFYVE26	NM_015346	exon18	c.G3262A	p.D1088N	CCTGATCTAGCTG	.	80.0	26.0	116.0	0.0	.	223	.	.	.	none	.	.	PASS	Atlas-SNP
EXD2	55218	hgsc.bcm.edu	hg19	14	69697234	69697234	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	EXD2	NM_001193361	exon4	c.G636C	p.E212D	CGCTGAGACTGTT	.	68.0	21.0	89.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
ADAM20	8748	hgsc.bcm.edu	hg19	14	70989617	70989617	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	ADAM20	NM_003814	exon2	c.T2008G	p.C670G	GGATGCAGATCTT	.	103.0	36.0	122.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
ELMSAN1	91748	hgsc.bcm.edu	hg19	14	74206660	74206660	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	.	NM_194278	exon2	c.T52A	p.F18I	CCCCGAAGAGGCA	.	39.0	15.0	55.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
BCL2L10	10017	hgsc.bcm.edu	hg19	15	52404725	52404725	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	BCL2L10	NM_020396	exon1	c.T199A	p.Y67N	CGAGGTAGGCGGA	.	31.0	12.0	61.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
ULK3	25989	hgsc.bcm.edu	hg19	15	75132623	75132623	+	Silent	SNP	C	C	T	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	ULK3	NM_001099436	exon6	c.G648A	p.R216R	GAACGACCTGGAG	.	40.0	16.0	41.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
CLDN9	9080	hgsc.bcm.edu	hg19	16	3063765	3063765	+	Silent	SNP	C	C	A	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	CLDN9	NM_020982	exon1	c.C402A	p.I134I	GCTCATCCCTGTG	.	102.0	55.0	82.0	0.0	.	33	.	.	.	none	.	.	PASS	Atlas-SNP
SMG8	55181	hgsc.bcm.edu	hg19	17	57288259	57288259	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	SMG8	NM_018149	exon1	c.C847A	p.Q283K	CGGAACCAAGACC	.	74.0	5.0	41.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
POLRMT	5442	hgsc.bcm.edu	hg19	19	623528	623528	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	POLRMT	NM_005035	exon6	c.A1216G	p.M406V	GCTCCATGTGGAG	.	52.0	11.0	71.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
KEAP1	9817	hgsc.bcm.edu	hg19	19	10610566	10610566	+	Silent	SNP	G	G	T	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	KEAP1	NM_012289	exon2	c.C144A	p.G48G	GCGGTTGCCATGC	.	63.0	24.0	62.0	0.0	.	182	.	.	.	none	.	.	PASS	Atlas-SNP
MLL4	8085	hgsc.bcm.edu	hg19	19	36229181	36229181	+	Splice_Site	SNP	A	A	G	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	MLL4	NM_014727	exon37	c.7873-2A>G	.	CCCTGCAGGGCAT	.	36.0	15.0	56.0	0.0	.	229	.	.	.	none	.	.	PASS	Atlas-SNP
COL9A3	1299	hgsc.bcm.edu	hg19	20	61467549	61467549	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	COL9A3	NM_001853	exon28	c.G1412T	p.R471L	GCAGTCGAGGGGA	.	81.0	22.0	82.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
TANGO2	128989	hgsc.bcm.edu	hg19	22	20030918	20030918	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	TANGO2	NM_152906	exon3	c.C97T	p.P33S	AGCCGACCCTCCA	.	95.0	28.0	75.0	0.0	.	4	.	.	.	none	.	.	PASS	Atlas-SNP
BCOR	54880	hgsc.bcm.edu	hg19	X	39932148	39932148	+	Silent	SNP	A	A	G	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	BCOR	NM_001123385	exon4	c.T2451C	p.T817T	TGTGTCAGTTTTA	.	72.0	36.0	97.0	0.0	.	351	.	.	.	none	.	.	PASS	Atlas-SNP
YIPF3	25844	hgsc.bcm.edu	hg19	6	43483379	43483379	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	YIPF3	NM_015388	exon3	c.350delT	p.I117fs	.	.	81.0	32.0	102.0	0.0	.	20	.	0.395062	0	none	.	.	PASS	Atlas-Indel,Pindel
OGDH	4967	hgsc.bcm.edu	hg19	7	44747231	44747232	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	OGDH	NM_002541	exon22	c.2847_2848insA	p.P949fs	.	.	102.0	38.0	55.0	0.0	.	145	.	0.372549	0	none	.	.	PASS	Atlas-Indel,Pindel
FOXN1	8456	hgsc.bcm.edu	hg19	17	26851949	26851949	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	FOXN1	NM_003593	exon2	c.551delT	p.L184fs	.	.	62.0	21.0	25.0	0.0	.	51	.	0.33871	0	none	.	.	PASS	Atlas-Indel,Pindel
ATP2B1	490	hgsc.bcm.edu	hg19	12	89992987	89992988	+	Frame_Shift_Ins	INS	-	-	AA	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	ATP2B1	NM_001001323	exon19	c.3258_3259insTT	p.L1086fs	.	.	83.0	30.0	66.0	0.0	.	191	.	0.361	.	none	.	.	PASS	Pindel
THSD1	55901	hgsc.bcm.edu	hg19	13	52971551	52971551	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	THSD1	NM_018676	exon3	c.838delA	p.R280fs	.	.	117.0	27.0	84.0	0.0	.	89	.	0.231	.	none	.	.	PASS	Pindel
ACOX2	8309	hgsc.bcm.edu	hg19	3	58519841	58519842	+	Frame_Shift_Ins	INS	-	-	TATATTT	novel		TCGA-A4-A5XZ-01A-11D-A31X-10	TCGA-A4-A5XZ-10A-01D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	363096af-a78b-4834-a631-bebac9ce1659	9f1e35f9-8141-463b-a1b9-3fc7a83df607	.	ACOX2	NM_003500	exon4	c.355_356insAAATATA	p.H119fs	.	.	65.0	12.0	81.0	0.0	.	53	.	0.185	.	none	.	.	PASS	Pindel
