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	dbSNP_AF	Algorithm
RHCE	6006	hgsc.bcm.edu	hg19	1	25735269	25735269	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	RHCE	NM_138617	exon2	c.C240A	p.N80K	GAAGAGGTTGAAG	.	217.0	157.0	232.0	1.0	.	36	.	.	Atlas-SNP
ARID1A	8289	hgsc.bcm.edu	hg19	1	27023300	27023300	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	ARID1A	NM_006015	exon1	c.C406A	p.P136T	GCGCCTCCTCACT	.	20.0	5.0	22.0	0.0	.	842	.	.	Atlas-SNP
MROH7	374977	hgsc.bcm.edu	hg19	1	55118887	55118887	+	Silent	SNP	C	C	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	.	NM_001039464	exon3	c.C288A	p.I96I	CCAGATCACCAGT	.	66.0	9.0	70.0	0.0	.	.	.	.	Atlas-SNP
HRNR	388697	hgsc.bcm.edu	hg19	1	152193174	152193174	+	Nonsense_Mutation	SNP	G	G	A	rs139907915	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	HRNR	NM_001009931	exon3	c.C931T	p.R311X	CATGTCGGACGTG	.	189.0	8.0	97.0	0.0	.	403	.	G|0.999;T|0.001	Atlas-SNP
FLG2	388698	hgsc.bcm.edu	hg19	1	152325270	152325270	+	Silent	SNP	C	C	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	FLG2	NM_001014342	exon3	c.G4992T	p.G1664G	TGAGACCCCTGAG	.	138.0	9.0	64.0	0.0	.	431	.	.	Atlas-SNP
KCNN3	3782	hgsc.bcm.edu	hg19	1	154842253	154842253	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	KCNN3	NM_001204087	exon1	c.C188A	p.P63H	TGCGGAGGCTGAG	.	176.0	19.0	64.0	0.0	.	141	.	.	Atlas-SNP
PEAR1	375033	hgsc.bcm.edu	hg19	1	156878621	156878621	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	PEAR1	NM_001080471	exon10	c.G1290A	p.T430T	TTACACGGTGAGG	.	79.0	12.0	39.0	0.0	.	118	.	.	Atlas-SNP
QSOX1	5768	hgsc.bcm.edu	hg19	1	180144477	180144477	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	QSOX1	NM_002826	exon3	c.A388G	p.N130D	ACCAAGAACGGCT	.	345.0	18.0	123.0	0.0	.	79	.	.	Atlas-SNP
RGSL1	353299	hgsc.bcm.edu	hg19	1	182441581	182441581	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	RGSL1	NM_001137669	exon5	c.G352A	p.D118N	AGCATAGATGAGA	.	112.0	7.0	44.0	0.0	.	111	.	.	Atlas-SNP
DHX9	1660	hgsc.bcm.edu	hg19	1	182828232	182828232	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	DHX9	NM_001357	exon11	c.C1120T	p.Q374X	TTGGAACAGGATC	.	194.0	18.0	80.0	0.0	.	114	.	.	Atlas-SNP
PLA2G4A	5321	hgsc.bcm.edu	hg19	1	186908281	186908281	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	PLA2G4A	NM_024420	exon9	c.A837T	p.L279F	GTCTTTATGGAAG	.	331.0	21.0	155.0	0.0	.	125	.	.	Atlas-SNP
CD46	4179	hgsc.bcm.edu	hg19	1	207934753	207934753	+	Missense_Mutation	SNP	A	A	G	rs147837939	alternate_allele	TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	CD46	NM_172352	exon5	c.A635G	p.D212G	GTGGTGACAATTC	.	165.0	19.0	79.0	0.0	.	34	.	A|1.000;T|0.000	Atlas-SNP
PTPN14	5784	hgsc.bcm.edu	hg19	1	214542922	214542922	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	PTPN14	NM_005401	exon17	c.G3149T	p.C1050F	GCATAGCAAACAG	.	308.0	13.0	159.0	0.0	.	168	.	.	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	hg19	1	216405413	216405413	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	USH2A	NM_007123	exon14	c.G2875A	p.V959I	GATTAACTGCACC	.	618.0	27.0	290.0	0.0	.	1168	.	.	Atlas-SNP
OR2B11	127623	hgsc.bcm.edu	hg19	1	247614647	247614647	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	OR2B11	NM_001004492	exon1	c.T638A	p.V213E	AGGGGCACCAACA	.	221.0	156.0	131.0	0.0	.	102	.	.	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	hg19	2	73613036	73613036	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	ALMS1	NM_015120	exon1	c.G40C	p.E14Q	CTGGAGGAGGAGG	.	227.0	10.0	184.0	0.0	.	384	.	.	Atlas-SNP
IL1R1	3554	hgsc.bcm.edu	hg19	2	102791045	102791045	+	Splice_Site	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	IL1R1	NM_000877	exon9	c.992-2A>G	.	TGCTATAGTCACT	.	33.0	8.0	30.0	0.0	.	52	.	.	Atlas-SNP
EPB41L5	57669	hgsc.bcm.edu	hg19	2	120848050	120848050	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	EPB41L5	NM_020909	exon12	c.A1001G	p.H334R	GTTCTCATCGATC	.	109.0	19.0	129.0	0.0	.	98	.	.	Atlas-SNP
NBEAL1	65065	hgsc.bcm.edu	hg19	2	203987055	203987055	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	NBEAL1	NM_001114132	exon18	c.T2584A	p.W862R	GTGAACTGGGACA	.	78.0	20.0	80.0	0.0	.	266	.	.	Atlas-SNP
ABCA12	26154	hgsc.bcm.edu	hg19	2	215813385	215813385	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	ABCA12	NM_173076	exon47	c.A7039G	p.T2347A	CCACAGTTACCAG	.	167.0	16.0	183.0	0.0	.	368	.	.	Atlas-SNP
FYCO1	79443	hgsc.bcm.edu	hg19	3	46010096	46010096	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	FYCO1	NM_024513	exon8	c.G730A	p.V244M	CCCGCACCTCCAA	.	23.0	10.0	24.0	0.0	.	115	.	.	Atlas-SNP
DNAH1	25981	hgsc.bcm.edu	hg19	3	52387648	52387648	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	DNAH1	NM_015512	exon20	c.A3479T	p.Q1160L	TCGAGCAGGTGGG	.	46.0	21.0	46.0	0.0	.	534	.	.	Atlas-SNP
SPATA12	353324	hgsc.bcm.edu	hg19	3	57107930	57107930	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	SPATA12	NM_181727	exon2	c.C208G	p.L70V	CCAGAGCTGACAT	.	105.0	40.0	116.0	0.0	.	9	.	.	Atlas-SNP
DZIP3	9666	hgsc.bcm.edu	hg19	3	108366815	108366815	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	DZIP3	NM_014648	exon16	c.T1818A	p.N606K	ACAGAATGAGGAA	.	280.0	23.0	238.0	0.0	.	111	.	.	Atlas-SNP
SPICE1	152185	hgsc.bcm.edu	hg19	3	113176014	113176014	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	SPICE1	NM_144718	exon13	c.G1626A	p.K542K	GTTGCTCTTCTGC	.	55.0	12.0	69.0	0.0	.	130	.	.	Atlas-SNP
COPB2	9276	hgsc.bcm.edu	hg19	3	139077908	139077908	+	Missense_Mutation	SNP	C	C	T	rs201811724		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	COPB2	NM_004766	exon19	c.G2416A	p.V806I	CAACAACAAAGGC	.	86.0	25.0	101.0	0.0	.	80	.	.	Atlas-SNP
PLOD2	5352	hgsc.bcm.edu	hg19	3	145878772	145878772	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	PLOD2	NM_182943	exon1	c.G5A	p.G2E	CATCCCCCCATAT	.	160.0	55.0	153.0	0.0	.	81	.	.	Atlas-SNP
MBNL1	4154	hgsc.bcm.edu	hg19	3	152132752	152132752	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	MBNL1	NM_207292	exon3	c.G197A	p.C66Y	AGAACTGCAAATA	.	125.0	5.0	118.0	0.0	.	100	.	.	Atlas-SNP
PLCH1	23007	hgsc.bcm.edu	hg19	3	155199724	155199724	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	PLCH1	NM_001130960	exon23	c.C4115A	p.T1372K	CAGGTTGTTAGAG	.	78.0	14.0	91.0	0.0	.	406	.	.	Atlas-SNP
MASP1	5648	hgsc.bcm.edu	hg19	3	186980347	186980347	+	Silent	SNP	G	G	C	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	MASP1	NM_139125	exon3	c.C399G	p.A133A	GTAGTGGGCATCA	.	304.0	130.0	272.0	1.0	.	240	.	.	Atlas-SNP
ZNF721	170960	hgsc.bcm.edu	hg19	4	435883	435883	+	Missense_Mutation	SNP	C	C	T	rs371250652		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	ZNF721_ENST00000511833,NS,carcinoma,0,2	ZNF721	NM_133474	exon3	c.C2373A	p.N791K	GGATGACGTAATG	.	96.0	12.0	95.0	0.0	.	205	.	.	Atlas-SNP
WHSC1	7468	hgsc.bcm.edu	hg19	4	1920344	1920344	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	WHSC1	NM_133335	exon5	c.G1404T	p.R468S	ACACAGGGATGAG	.	136.0	45.0	126.0	0.0	.	180	.	.	Atlas-SNP
PCDH7	5099	hgsc.bcm.edu	hg19	4	30724132	30724132	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	PCDH7	NM_032457	exon1	c.C1088T	p.T363M	ACGAGACGTCCGG	.	122.0	20.0	135.0	0.0	.	215	.	.	Atlas-SNP
ANKRD17	26057	hgsc.bcm.edu	hg19	4	73943153	73943153	+	Silent	SNP	T	T	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	ANKRD17	NM_032217	exon32	c.A7506T	p.R2502R	ACTATCTCGCTCC	.	97.0	11.0	68.0	0.0	.	214	.	.	Atlas-SNP
ALPK1	80216	hgsc.bcm.edu	hg19	4	113352274	113352274	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	ALPK1	NM_001102406	exon11	c.G1571C	p.G524A	TAATGGGTAAGAA	.	119.0	27.0	95.0	0.0	.	125	.	.	Atlas-SNP
ANK2	287	hgsc.bcm.edu	hg19	4	114153356	114153356	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	ANK2	NM_001148	exon5	c.C424T	p.H142Y	GAGAATCACATTG	.	76.0	16.0	85.0	0.0	.	576	.	.	Atlas-SNP
ANKRD50	57182	hgsc.bcm.edu	hg19	4	125593424	125593424	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	ANKRD50	NM_020337	exon4	c.G1008C	p.W336C	GCACAGCCAGAGA	.	177.0	72.0	152.0	0.0	.	136	.	.	Atlas-SNP
PDGFC	56034	hgsc.bcm.edu	hg19	4	157732066	157732066	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	PDGFC	NM_016205	exon3	c.A418G	p.I140V	TCCTAATTTGATT	.	313.0	22.0	332.0	0.0	.	46	.	.	Atlas-SNP
WDR36	134430	hgsc.bcm.edu	hg19	5	110432780	110432780	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	WDR36	NM_139281	exon3	c.A362G	p.N121S	TAGGTAATTCTGT	.	75.0	7.0	46.0	0.0	.	111	.	.	Atlas-SNP
HMGXB3	22993	hgsc.bcm.edu	hg19	5	149427232	149427232	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	HMGXB3	NM_014983	exon17	c.A2996G	p.K999R	CCTGCAAGCTTGA	.	188.0	18.0	112.0	0.0	.	31	.	.	Atlas-SNP
FAM193B	54540	hgsc.bcm.edu	hg19	5	176952090	176952090	+	Silent	SNP	C	C	T	rs371452748		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	FAM193B	NM_001190946	exon6	c.G1392A	p.L464L	CCGATCCAGTTCC	.	147.0	25.0	145.0	0.0	.	28	.	.	Atlas-SNP
LATS1	9113	hgsc.bcm.edu	hg19	6	149997738	149997738	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	LATS1	NM_004690	exon6	c.T2729C	p.L910S	CCAACCAAAGAAT	.	51.0	28.0	61.0	0.0	.	241	.	.	Atlas-SNP
LANCL2	55915	hgsc.bcm.edu	hg19	7	55466207	55466207	+	Silent	SNP	G	G	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	LANCL2,NS,carcinoma,0,1	LANCL2	NM_018697	exon3	c.G414T	p.R138R	ACTTCGGAATCTG	.	98.0	43.0	109.0	0.0	.	54	.	.	Atlas-SNP
SEMA3A	10371	hgsc.bcm.edu	hg19	7	83643585	83643585	+	Silent	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	SEMA3A	NM_006080	exon7	c.T750C	p.N250N	TATTGCATTTTCA	.	55.0	6.0	69.0	0.0	.	121	.	.	Atlas-SNP
PIK3CG	5294	hgsc.bcm.edu	hg19	7	106508205	106508205	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	PIK3CG,NS,carcinoma,0,1	PIK3CG	NM_002649	exon2	c.G199A	p.V67M	GGCAACGTGGAGC	.	67.0	4.0	81.0	0.0	.	279	.	.	Atlas-SNP
GCC1	79571	hgsc.bcm.edu	hg19	7	127222196	127222196	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	GCC1	NM_024523	exon2	c.C2200T	p.P734S	AGTCAGGTAAGGT	.	245.0	26.0	221.0	0.0	.	83	.	.	Atlas-SNP
ASH2L	9070	hgsc.bcm.edu	hg19	8	37986410	37986410	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	ASH2L	NM_004674	exon12	c.A1468G	p.I490V	TTTTATATTAATC	.	75.0	27.0	75.0	0.0	.	62	.	.	Atlas-SNP
NOV	4856	hgsc.bcm.edu	hg19	8	120430340	120430340	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	NOV,NS,carcinoma,0,2	NOV	NM_002514	exon3	c.G353A	p.R118H	TCTACCGCAGTGG	.	282.0	27.0	119.0	0.0	.	51	.	.	Atlas-SNP
FBXO10	26267	hgsc.bcm.edu	hg19	9	37541364	37541364	+	Silent	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	FBXO10	NM_012166	exon2	c.T402C	p.I134I	GAGCACAATTCGG	.	81.0	34.0	91.0	0.0	.	75	.	.	Atlas-SNP
FGD3	89846	hgsc.bcm.edu	hg19	9	95780470	95780470	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	FGD3	NM_001083536	exon11	c.G1328T	p.R443I	CAGGAAGAAAAAG	.	76.0	24.0	65.0	0.0	.	116	.	.	Atlas-SNP
NINJ1	4814	hgsc.bcm.edu	hg19	9	95888799	95888799	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	NINJ1	NM_004148	exon2	c.C197T	p.A66V	ACGACGGCCTTCA	.	112.0	10.0	116.0	0.0	.	7	.	.	Atlas-SNP
DDX50	79009	hgsc.bcm.edu	hg19	10	70673836	70673836	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	DDX50	NM_024045	exon7	c.C965T	p.T322I	CTCAGACTTTACT	.	142.0	57.0	157.0	0.0	.	65	.	.	Atlas-SNP
CARS	833	hgsc.bcm.edu	hg19	11	3039725	3039725	+	Silent	SNP	C	C	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	CARS	NM_001014437	exon14	c.G1542T	p.L514L	GAAGGCCAGCCGC	.	75.0	22.0	65.0	0.0	.	114	.	.	Atlas-SNP
CTNND1	1500	hgsc.bcm.edu	hg19	11	57559030	57559030	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	CTNND1	NM_001085461	exon3	c.C80T	p.T27I	AGCTGACCCGGGC	.	139.0	17.0	133.0	0.0	.	203	.	.	Atlas-SNP
MS4A2	2206	hgsc.bcm.edu	hg19	11	59857213	59857213	+	Silent	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	MS4A2	NM_000139	exon2	c.A105G	p.S35S	ATCTTCAGGCAGA	.	43.0	8.0	63.0	0.0	.	41	.	.	Atlas-SNP
SIK2	23235	hgsc.bcm.edu	hg19	11	111574147	111574147	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	SIK2	NM_015191	exon7	c.G948A	p.E316E	CATTGAGGTAAAG	.	44.0	13.0	56.0	0.0	.	89	.	.	Atlas-SNP
C11orf34	349633	hgsc.bcm.edu	hg19	11	112126290	112126290	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	C11orf34	NM_001145024	exon2	c.C207T	p.S69S	ATAGACGCTGTCA	.	68.0	7.0	73.0	0.0	.	6	.	.	Atlas-SNP
FLI1	2313	hgsc.bcm.edu	hg19	11	128628065	128628065	+	Missense_Mutation	SNP	C	C	G	rs200865469	bycluster;by1000genomes;alternate_allele	TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	FLI1	NM_002017	exon2	c.C74G	p.A25G	ACGGAGCGGCAGC	.	68.0	17.0	70.0	0.0	.	72	.	C|1.000;T|0.000	Atlas-SNP
DDX11	1663	hgsc.bcm.edu	hg19	12	31238054	31238054	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	DDX11	NM_030653	exon5	c.C632T	p.A211V	AGGTGGCGAGCAG	.	194.0	57.0	206.0	0.0	.	188	.	.	Atlas-SNP
NELL2	4753	hgsc.bcm.edu	hg19	12	45001007	45001007	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	NELL2	NM_001145107	exon16	c.T1758G	p.I586M	AGCGGCAATACAG	.	235.0	23.0	248.0	0.0	.	286	.	.	Atlas-SNP
BCDIN3D	144233	hgsc.bcm.edu	hg19	12	50236859	50236859	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	BCDIN3D	NM_181708	exon1	c.C12T	p.P4P	TTCCGTGGGCACC	.	101.0	10.0	87.0	0.0	.	20	.	.	Atlas-SNP
AVPR1A	552	hgsc.bcm.edu	hg19	12	63544382	63544382	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	AVPR1A	NM_000706	exon1	c.A235G	p.T79A	GCGGCGTCCGGTG	.	54.0	13.0	59.0	0.0	.	85	.	.	Atlas-SNP
LEMD3	23592	hgsc.bcm.edu	hg19	12	65564347	65564347	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	LEMD3	NM_001167614	exon1	c.C971T	p.A324V	CGGCGGCTGCCGG	.	82.0	27.0	77.0	0.0	.	68	.	.	Atlas-SNP
PLEKHG7	440107	hgsc.bcm.edu	hg19	12	93139255	93139255	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	PLEKHG7	NM_001004330	exon5	c.A203G	p.Y68C	TGCAGTATTTCCG	.	71.0	5.0	88.0	0.0	.	38	.	.	Atlas-SNP
USPL1	10208	hgsc.bcm.edu	hg19	13	31195968	31195968	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	USPL1	NM_005800	exon3	c.A167G	p.K56R	AGTTAAAAGCCTT	.	202.0	24.0	284.0	0.0	.	82	.	.	Atlas-SNP
LMO7	4008	hgsc.bcm.edu	hg19	13	76397850	76397850	+	Missense_Mutation	SNP	T	T	A	rs374411902	alternate_allele	TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	LMO7	NM_015842	exon12	c.T2091A	p.D697E	AGAAGATGTGACA	.	124.0	66.0	140.0	0.0	.	334	.	.	Atlas-SNP
COL4A2	1284	hgsc.bcm.edu	hg19	13	111132579	111132579	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	COL4A2	NM_001846	exon31	c.A2600G	p.D867G	CTGGTGATAGAGG	.	40.0	8.0	67.0	0.0	.	178	.	.	Atlas-SNP
HNRNPC	3183	hgsc.bcm.edu	hg19	14	21702344	21702344	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	HNRNPC	NM_001077443	exon2	c.C9T	p.S3S	AACGTTGCTGGCC	.	69.0	9.0	69.0	0.0	.	31	.	.	Atlas-SNP
PNN	5411	hgsc.bcm.edu	hg19	14	39648641	39648641	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	PNN	NM_002687	exon8	c.A768G	p.I256M	ACTAATAGAAGAG	.	381.0	37.0	401.0	0.0	.	67	.	.	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	hg19	14	64492109	64492109	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	SYNE2	NM_182914	exon41	c.G6222A	p.M2074I	CAAAATGCCACTT	.	32.0	17.0	43.0	0.0	.	577	.	.	Atlas-SNP
AKAP5	9495	hgsc.bcm.edu	hg19	14	64935781	64935781	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	AKAP5	NM_004857	exon2	c.T669G	p.I223M	TGCTATTCAAACG	.	72.0	16.0	103.0	0.0	.	23	.	.	Atlas-SNP
SMEK1	55671	hgsc.bcm.edu	hg19	14	91927808	91927808	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	SMEK1	NM_032560	exon15	c.G2269T	p.G757X	GTGATCCCGGAGA	.	104.0	14.0	147.0	0.0	.	94	.	.	Atlas-SNP
EIF2AK4	440275	hgsc.bcm.edu	hg19	15	40268649	40268649	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	EIF2AK4	NM_001013703	exon12	c.T1853C	p.V618A	ACGCAGTGAAGCG	.	143.0	13.0	136.0	0.0	.	107	.	.	Atlas-SNP
MGA	23269	hgsc.bcm.edu	hg19	15	42059132	42059132	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	MGA	NM_001164273	exon24	c.C8852G	p.T2951S	AGAATACTTCTGG	.	94.0	40.0	93.0	0.0	.	264	.	.	Atlas-SNP
SEMA6D	80031	hgsc.bcm.edu	hg19	15	48063719	48063719	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	SEMA6D	NM_153618	exon19	c.G2959A	p.V987I	AATGGTGTTTTGT	.	132.0	48.0	150.0	0.0	.	322	.	.	Atlas-SNP
RNF111	54778	hgsc.bcm.edu	hg19	15	59381902	59381902	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	RNF111	NM_001270528	exon11	c.A2614G	p.I872V	CGTTACATTTCAT	.	39.0	12.0	43.0	0.0	.	179	.	.	Atlas-SNP
GLCE	26035	hgsc.bcm.edu	hg19	15	69561008	69561008	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	GLCE	NM_015554	exon5	c.A1279C	p.T427P	ATGGTGACCCGTA	.	93.0	11.0	76.0	0.0	.	48	.	.	Atlas-SNP
ZNF774	342132	hgsc.bcm.edu	hg19	15	90904318	90904318	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	ZNF774	NM_001004309	exon4	c.A1255G	p.I419V	CACTTTATTACCC	.	126.0	31.0	114.0	0.0	.	35	.	.	Atlas-SNP
MAN2A2	4122	hgsc.bcm.edu	hg19	15	91454130	91454130	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	MAN2A2	NM_006122	exon11	c.A1814G	p.Y605C	CCCACTATCTGGT	.	47.0	12.0	53.0	0.0	.	99	.	.	Atlas-SNP
KIF22	3835	hgsc.bcm.edu	hg19	16	29816222	29816222	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	KIF22	NM_007317	exon12	c.C1765A	p.R589S	CATGGGCGCCAAA	.	73.0	21.0	51.0	0.0	.	29	.	.	Atlas-SNP
CETP	1071	hgsc.bcm.edu	hg19	16	56996939	56996939	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	CETP	NM_000078	exon2	c.A136G	p.K46E	ACTGCCAAGGTGA	.	45.0	17.0	58.0	0.0	.	50	.	.	Atlas-SNP
RPA1	6117	hgsc.bcm.edu	hg19	17	1780506	1780506	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	RPA1	NM_002945	exon8	c.G588A	p.K196K	TTGTAGGTGGACC	.	180.0	46.0	170.0	0.0	.	48	.	.	Atlas-SNP
ALOX12B	242	hgsc.bcm.edu	hg19	17	7980038	7980038	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	ALOX12B	NM_001139	exon10	c.C1299T	p.Y433Y	GACGGTGTATCGG	.	93.0	14.0	82.0	0.0	.	61	.	.	Atlas-SNP
ARHGAP44	9912	hgsc.bcm.edu	hg19	17	12877579	12877579	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	ARHGAP44	NM_014859	exon18	c.C1715T	p.A572V	CCCCCGCGCTCTC	.	37.0	9.0	65.0	0.0	.	55	.	.	Atlas-SNP
BLMH	642	hgsc.bcm.edu	hg19	17	28599605	28599605	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	BLMH	NM_000386	exon9	c.C1002G	p.S334R	CAGCTTGCTATTG	.	89.0	6.0	68.0	0.0	.	42	.	.	Atlas-SNP
NGFR	4804	hgsc.bcm.edu	hg19	17	47590068	47590068	+	Splice_Site	SNP	A	A	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	NGFR	NM_002507	exon6	c.983-2A>T	.	CTCTGCAGCCCTC	.	140.0	21.0	133.0	0.0	.	46	.	.	Atlas-SNP
UNC13D	201294	hgsc.bcm.edu	hg19	17	73831746	73831746	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	UNC13D	NM_199242	exon19	c.G1709A	p.R570H	CTCATGCGCAGCT	.	62.0	6.0	53.0	0.0	.	68	.	.	Atlas-SNP
RPTOR	57521	hgsc.bcm.edu	hg19	17	78919549	78919549	+	Silent	SNP	G	G	C	rs149016810	byfrequency;alternate_allele	TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	RPTOR	NM_020761	exon26	c.G3108C	p.P1036P	CACGCCGTGCATC	.	82.0	29.0	64.0	0.0	.	122	.	G|0.999;A|0.001	Atlas-SNP
RTTN	25914	hgsc.bcm.edu	hg19	18	67715231	67715231	+	Silent	SNP	T	T	C	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	RTTN	NM_173630	exon40	c.A5517G	p.E1839E	AAGTTGTTCTAGA	.	45.0	9.0	37.0	0.0	.	184	.	.	Atlas-SNP
SBNO2	22904	hgsc.bcm.edu	hg19	19	1108560	1108560	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	SBNO2	NM_014963	exon32	c.G3760A	p.G1254R	CCTCTCCGGGGCC	.	8.0	7.0	3.0	0.0	.	112	.	.	Atlas-SNP
COL5A3	50509	hgsc.bcm.edu	hg19	19	10084600	10084600	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	COL5A3	NM_015719	exon48	c.T3553C	p.S1185P	CCTCTGATCCAGT	.	41.0	22.0	61.0	0.0	.	243	.	.	Atlas-SNP
ZNF44	51710	hgsc.bcm.edu	hg19	19	12386801	12386801	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	ZNF44	NM_001164276	exon3	c.C244G	p.R82G	TTTCTCGCATCAC	.	89.0	5.0	67.0	0.0	.	55	.	.	Atlas-SNP
ZNF222	7673	hgsc.bcm.edu	hg19	19	44531618	44531618	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	ZNF222	NM_001129996	exon3	c.A238G	p.T80A	GGGACAACAAGCC	.	144.0	12.0	133.0	0.0	.	90	.	.	Atlas-SNP
BCL2L12	83596	hgsc.bcm.edu	hg19	19	50169299	50169299	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	BCL2L12	NM_001040668	exon1	c.G219A	p.R73R	GTGGAGGAGGCGG	.	115.0	17.0	134.0	0.0	.	22	.	.	Atlas-SNP
NKX2-2	4821	hgsc.bcm.edu	hg19	20	21494192	21494192	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	NKX2-2	NM_002509	exon1	c.C116A	p.P39H	GGCTCGGGCCCCT	.	84.0	9.0	65.0	0.0	.	49	.	.	Atlas-SNP
DNMT3B	1789	hgsc.bcm.edu	hg19	20	31375142	31375142	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	DNMT3B	NM_175850	exon6	c.C575T	p.T192M	ATGGGACGCCCCA	.	124.0	54.0	147.0	0.0	.	196	.	.	Atlas-SNP
RBM39	9584	hgsc.bcm.edu	hg19	20	34326925	34326925	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	RBM39	NM_184234	exon3	c.G66A	p.L22L	ACTGCTCAACTTG	.	112.0	7.0	132.0	0.0	.	68	.	.	Atlas-SNP
CHD6	84181	hgsc.bcm.edu	hg19	20	40162110	40162110	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	CHD6,NS,carcinoma,0,1	CHD6	NM_032221	exon3	c.G133C	p.E45Q	TCTCTTCTTGATC	.	106.0	7.0	69.0	0.0	.	312	.	.	Atlas-SNP
KCNS1	3787	hgsc.bcm.edu	hg19	20	43726446	43726446	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	KCNS1	NM_002251	exon4	c.G967A	p.G323S	CCACACCAGCCAG	.	47.0	7.0	65.0	0.0	.	30	.	.	Atlas-SNP
TFAP2C	7022	hgsc.bcm.edu	hg19	20	55206890	55206890	+	Silent	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	TFAP2C	NM_003222	exon3	c.C564T	p.H188H	GCTGCACGATCAG	.	74.0	9.0	90.0	0.0	.	51	.	.	Atlas-SNP
KRTAP19-4	337971	hgsc.bcm.edu	hg19	21	31869331	31869331	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	KRTAP19-4,NS,carcinoma,-1,1	KRTAP19-4	NM_181610	exon1	c.G98A	p.R33H	AGTCTGCGGAAGC	.	99.0	31.0	100.0	0.0	.	22	.	.	Atlas-SNP
DOPEY2	9980	hgsc.bcm.edu	hg19	21	37581073	37581073	+	Silent	SNP	C	C	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	DOPEY2	NM_005128	exon5	c.C552A	p.A184A	CACCGCCCTCTGG	.	74.0	23.0	56.0	0.0	.	184	.	.	Atlas-SNP
PRODH	5625	hgsc.bcm.edu	hg19	22	18900834	18900834	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	PRODH	NM_016335	exon15	c.C1657G	p.P553A	TCACGGGGCCATA	.	127.0	34.0	173.0	0.0	.	42	.	.	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	hg19	22	26423225	26423225	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	MYO18B	NM_032608	exon43	c.C7285A	p.P2429T	AAACTCCCAAGCC	.	147.0	51.0	118.0	0.0	.	322	.	.	Atlas-SNP
NEFH	4744	hgsc.bcm.edu	hg19	22	29885651	29885651	+	Silent	SNP	A	A	C	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	NEFH	NM_021076	exon4	c.A2022C	p.A674A	AGAAGCAAAGTCC	.	304.0	17.0	291.0	0.0	.	178	.	.	Atlas-SNP
BMX	660	hgsc.bcm.edu	hg19	X	15555298	15555298	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	BMX	NM_001721	exon14	c.G1264C	p.E422Q	TTGAAGGAGCTGG	.	214.0	25.0	207.0	0.0	.	73	.	.	Atlas-SNP
DMD	1756	hgsc.bcm.edu	hg19	X	32382769	32382769	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	DMD	NM_004006	exon36	c.T5084A	p.I1695N	TGAATGATCCACT	.	91.0	4.0	110.0	0.0	.	2127	.	.	Atlas-SNP
ZNF674	641339	hgsc.bcm.edu	hg19	X	46359734	46359734	+	Silent	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	ZNF674	NM_001039891	exon6	c.C1290T	p.V430V	ATGATGGACAGAG	.	99.0	8.0	72.0	0.0	.	3	.	.	Atlas-SNP
SYN1	6853	hgsc.bcm.edu	hg19	X	47434654	47434654	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	SYN1	NM_006950	exon10	c.C1178T	p.P393L	ATGAGCGGCATGG	.	286.0	30.0	275.0	0.0	.	84	.	.	Atlas-SNP
MUM1L1	139221	hgsc.bcm.edu	hg19	X	105450458	105450458	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	MUM1L1	NM_152423	exon5	c.T1033A	p.F345I	CTGGATTTTGAAG	.	145.0	30.0	173.0	0.0	.	166	.	.	Atlas-SNP
LUZP4	51213	hgsc.bcm.edu	hg19	X	114536617	114536617	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	LUZP4	NM_016383	exon2	c.G152T	p.R51I	ATAAAAGACAGAA	.	636.0	232.0	603.0	0.0	.	51	.	.	Atlas-SNP
ZIC3	7547	hgsc.bcm.edu	hg19	X	136649300	136649300	+	Silent	SNP	A	A	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	ZIC3	NM_003413	exon1	c.A450T	p.P150P	TGCTCCAGCTGGC	.	112.0	14.0	114.0	0.0	.	93	.	.	Atlas-SNP
COX1	5742	hgsc.bcm.edu	hg19	MT	5907	5907	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	.	ENST00000361624	exon1	c.T4C	p.F2L	CTGATGTTCGCCG	.	69.0	10.0	51.0	0.0	.	.	.	.	Atlas-SNP
KRTAP4-5	85289	hgsc.bcm.edu	hg19	17	39305774	39305775	+	In_Frame_Ins	INS	-	-	TGGCAGCAGCTGGGG	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	KRTAP4-5,NS,carcinoma,0,1	KRTAP4-5	NM_033188	exon1	c.246_247insCCCCAGCTGCTGCCA	p.Q82delinsHPSCCQ	.	.	48.0	12.0	54.0	0.0	.	34	.	.	Atlas-INDEL
SEMG2	6407	hgsc.bcm.edu	hg19	20	43851311	43851313	+	In_Frame_Del	DEL	ATC	ATC	-	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	ATC	ATC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	SEMG2	NM_003008	exon2	c.1037_1039del	p.346_347del	.	.	182.0	41.0	197.0	0.0	.	92	.	.	Atlas-INDEL
DST	667	hgsc.bcm.edu	hg19	6	56481396	56481397	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	DST	NM_001723	exon24	c.6869_6870insA	p.R2290fs	.	.	57.0	17.0	80.0	0.0	.	1427	.	.	Atlas-INDEL
HMCN1	83872	hgsc.bcm.edu	hg19	1	186136049	186136049	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	HMCN1	NM_031935	exon100	c.15548delG	p.R5183fs	.	.	214.0	142.0	98.0	0.0	.	797	.	.	Atlas-INDEL
KDELR3	11015	hgsc.bcm.edu	hg19	22	38878529	38878540	+	In_Frame_Del	DEL	AATGCCAATCTG	AATGCCAATCTG	-	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	AATGCCAATCTG	AATGCCAATCTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	KDELR3	NM_006855	exon5	c.632_643del	p.211_215del	.	.	57.0	19.0	88.0	0.0	.	39	.	.	Atlas-INDEL
TOP2B	7155	hgsc.bcm.edu	hg19	3	25670387	25670387	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-AAEG-01A-11D-A38X-10	TCGA-DD-AAEG-10A-01D-A38X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	60545315-ae1b-4ac7-bf17-6dff14fcc159	69827eac-d9d6-41e2-8db4-5e5482ff1418	.	TOP2B	NM_001068	exon15	c.1843delA	p.K615fs	.	.	306.0	41.0	344.0	0.0	.	98	.	.	Atlas-INDEL