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
WASF2	10163	hgsc.bcm.edu	hg19	1	27736340	27736340	+	Silent	SNP	A	A	G	rs71584884	alternate_allele	TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	WASF2	NM_006990	exon8	c.T1185C	p.P395P	AGGAGGAGGGGGA	.	132.0	7.0	108.0	0.0	.	41	.	.	.	alt	A|0.500;T|0.500	.	PASS	Atlas-SNP
FOXJ3	22887	hgsc.bcm.edu	hg19	1	42744042	42744042	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	FOXJ3	NM_001198852	exon3	c.A346T	p.R116X	CCTCTCTATAATA	.	88.0	34.0	111.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
RHOC	389	hgsc.bcm.edu	hg19	1	113244309	113244309	+	Silent	SNP	C	C	G	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	RHOC	NM_175744	exon6	c.G435C	p.R145R	CATGTCCCGGCCT	.	153.0	59.0	184.0	0.0	.	15	.	.	.	none	.	.	PASS	Atlas-SNP
CENPF	1063	hgsc.bcm.edu	hg19	1	214815619	214815619	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	CENPF	NM_016343	exon12	c.A3938T	p.E1313V	AGGCTGAAAAGTA	.	169.0	81.0	204.0	0.0	.	321	.	.	.	none	.	.	PASS	Atlas-SNP
SLC3A1	6519	hgsc.bcm.edu	hg19	2	44539791	44539791	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	SLC3A1	NM_000341	exon8	c.A1399G	p.M467V	ATGAACATGCTTC	.	121.0	45.0	147.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
DCBLD2	131566	hgsc.bcm.edu	hg19	3	98600601	98600601	+	Silent	SNP	A	A	G	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	DCBLD2	NM_080927	exon2	c.T216C	p.C72C	GTGTCCACATCCA	.	144.0	51.0	186.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
EXOSC9	5393	hgsc.bcm.edu	hg19	4	122722615	122722615	+	Silent	SNP	C	C	T	rs150604288	alternate_allele	TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	EXOSC9	NM_001034194	exon1	c.C36T	p.R12R	ACGCCGCTTCCTA	.	112.0	51.0	117.0	0.0	.	51	.	.	.	alt	C|1.000;G|0.000	.	PASS	Atlas-SNP
ARHGEF28	64283	hgsc.bcm.edu	hg19	5	73207182	73207182	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	.	NM_001080479	exon35	c.A4730T	p.N1577I	CATTTAACACTTT	.	132.0	45.0	166.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
MAML1	9794	hgsc.bcm.edu	hg19	5	179201053	179201053	+	Silent	SNP	G	G	A	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	MAML1	NM_014757	exon5	c.G2226A	p.V742V	GGGTGTGGCTCAG	.	43.0	17.0	50.0	0.0	.	118	.	.	.	none	.	.	PASS	Atlas-SNP
DSP	1832	hgsc.bcm.edu	hg19	6	7584156	7584156	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	DSP	NM_004415	exon24	c.G6661C	p.E2221Q	GTCACTGAGCTAG	.	54.0	19.0	69.0	0.0	.	306	.	.	.	none	.	.	PASS	Atlas-SNP
NAT1	9	hgsc.bcm.edu	hg19	8	18080420	18080420	+	Silent	SNP	T	T	C	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	NAT1	NM_001160176	exon4	c.T1050C	p.F350F	ATTTTTTACTATT	.	210.0	83.0	278.0	1.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
CLTA	1211	hgsc.bcm.edu	hg19	9	36209297	36209297	+	Silent	SNP	C	C	T	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	CLTA	NM_001076677	exon5	c.C519T	p.F173F	ACCCTTCGCTGAC	.	89.0	38.0	128.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
PRUNE2	158471	hgsc.bcm.edu	hg19	9	79318374	79318374	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	PRUNE2	NM_015225	exon9	c.C8155T	p.H2719Y	TGTCATGGGTGAC	.	51.0	32.0	63.0	0.0	.	331	.	.	.	none	.	.	PASS	Atlas-SNP
WAPAL	23063	hgsc.bcm.edu	hg19	10	88227091	88227091	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	WAPAL,NS,carcinoma,0,1	WAPAL	NM_015045	exon9	c.T2315C	p.I772T	CTTCGGATTTTTT	.	114.0	59.0	151.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
LSP1	4046	hgsc.bcm.edu	hg19	11	1887915	1887915	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	LSP1	NM_001242932	exon2	c.G211T	p.D71Y	CCAGGGGACGCTG	.	52.0	23.0	49.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	hg19	11	62301415	62301415	+	Silent	SNP	C	C	T	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	AHNAK	NM_001620	exon5	c.G474A	p.T158T	GTAGGCCGTGACC	.	32.0	19.0	48.0	0.0	.	532	.	.	.	none	.	.	PASS	Atlas-SNP
PIWIL4	143689	hgsc.bcm.edu	hg19	11	94341805	94341805	+	Silent	SNP	C	C	T	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	PIWIL4,NS,carcinoma,0,1	PIWIL4	NM_152431	exon15	c.C1896T	p.D632D	CAAGGACGTGATG	.	162.0	64.0	191.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
FAM60A	58516	hgsc.bcm.edu	hg19	12	31448170	31448170	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	FAM60A	NM_021238	exon4	c.C226T	p.H76Y	TAACATGATTCCA	.	439.0	248.0	440.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
KCTD10	83892	hgsc.bcm.edu	hg19	12	109889450	109889450	+	Silent	SNP	G	G	T	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	KCTD10,NS,carcinoma,0,1	KCTD10	NM_031954	exon7	c.C892A	p.R298R	TCCTCCGCACGCG	.	55.0	4.0	41.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
ELL3	80237	hgsc.bcm.edu	hg19	15	44067740	44067740	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	ELL3	NM_025165	exon5	c.G552A	p.M184I	CTGTGCCATGTGC	.	60.0	8.0	91.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
PEAK1	0	hgsc.bcm.edu	hg19	15	77450971	77450971	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	.	NM_024776	exon6	c.G3205T	p.D1069Y	TGCCATCTTGCTT	.	59.0	25.0	79.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
CREBBP	1387	hgsc.bcm.edu	hg19	16	3860637	3860637	+	Silent	SNP	G	G	A	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	CREBBP	NM_001079846	exon3	c.C942T	p.I314I	ATTCTTGATATCT	.	108.0	36.0	93.0	0.0	.	546	.	.	.	none	.	.	PASS	Atlas-SNP
ABCC1	4363	hgsc.bcm.edu	hg19	16	16180696	16180696	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	ABCC1	NM_004996	exon18	c.G2308A	p.G770R	CTGTCTGGGGGCC	.	35.0	5.0	47.0	0.0	.	156	.	.	.	none	.	.	PASS	Atlas-SNP
TNRC6A	27327	hgsc.bcm.edu	hg19	16	24788620	24788620	+	Missense_Mutation	SNP	C	C	G	rs201630200	alternate_allele	TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	TNRC6A	NM_014494	exon5	c.C530G	p.A177G	GCAGTGCTTTAAC	.	59.0	24.0	57.0	0.0	.	171	.	.	.	alt	.	.	PASS	Atlas-SNP
COG4	25839	hgsc.bcm.edu	hg19	16	70548271	70548271	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	COG4	NM_015386	exon4	c.T511A	p.S171T	TGACCGACTTGTC	.	44.0	14.0	94.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA0100	9703	hgsc.bcm.edu	hg19	17	26943696	26943696	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	KIAA0100	NM_014680	exon35	c.C6097G	p.R2033G	CACTTCGGCCAGG	.	140.0	85.0	117.0	0.0	.	175	.	.	.	none	.	.	PASS	Atlas-SNP
HOXB4	3214	hgsc.bcm.edu	hg19	17	46654346	46654346	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	HOXB4	NM_024015	exon2	c.C494A	p.S165Y	GTCCGAGAGCGCT	.	101.0	57.0	44.0	0.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA0195	9772	hgsc.bcm.edu	hg19	17	73487468	73487468	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	KIAA0195	NM_014738	exon13	c.G1318T	p.E440X	AAGGTGGAGCCCC	.	74.0	22.0	61.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
ACER1	125981	hgsc.bcm.edu	hg19	19	6307219	6307219	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	ACER1	NM_133492	exon5	c.C571A	p.R191S	GCAGACGGTCACT	.	34.0	9.0	49.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
CAPN12	147968	hgsc.bcm.edu	hg19	19	39226808	39226808	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	CAPN12	NM_144691	exon12	c.G1525A	p.A509T	CGCCGGCGTGGGC	.	17.0	8.0	20.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
CIC	23152	hgsc.bcm.edu	hg19	19	42795850	42795850	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	CIC	NM_015125	exon11	c.C2839T	p.P947S	GTGAGCCCGCCCT	.	88.0	32.0	69.0	0.0	.	249	.	.	.	none	.	.	PASS	Atlas-SNP
ARFGEF2	10564	hgsc.bcm.edu	hg19	20	47587774	47587774	+	Silent	SNP	C	C	G	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	ARFGEF2	NM_006420	exon10	c.C1308G	p.L436L	ATATCTCTGTGTG	.	115.0	47.0	98.0	0.0	.	160	.	.	.	none	.	.	PASS	Atlas-SNP
NCAM2	4685	hgsc.bcm.edu	hg19	21	22710734	22710734	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	NCAM2	NM_004540	exon8	c.A924C	p.K308N	GCTTAAAAATGAA	.	148.0	61.0	188.0	0.0	.	220	.	.	.	none	.	.	PASS	Atlas-SNP
BCOR	54880	hgsc.bcm.edu	hg19	X	39916463	39916463	+	Nonsense_Mutation	SNP	G	G	A	rs199676230	by1000genomes;alternate_allele	TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	BCOR	NM_001123385	exon11	c.C4540T	p.R1514X	GGTGTCGCACAAT	.	89.0	4.0	78.0	0.0	.	351	.	.	.	alt	G|0.999;C|0.001	.	PASS	Atlas-SNP
ZNF529	57711	hgsc.bcm.edu	hg19	19	37038841	37038841	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	ZNF529	NM_001145649	exon6	c.620delC	p.T207fs	.	.	47.0	15.0	123.0	0.0	.	82	.	0.319149	0	none	.	.	PASS	Atlas-Indel,Pindel
AHDC1	27245	hgsc.bcm.edu	hg19	1	27876672	27876673	+	Frame_Shift_Del	DEL	GT	GT	-	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	AHDC1	NM_001029882	exon6	c.1955_1956del	p.652_652del	.	.	41.0	16.0	53.0	0.0	.	98	.	0.390244	0	none	.	.	PASS	Atlas-Indel,Pindel
MLL3	58508	hgsc.bcm.edu	hg19	7	151874152	151874158	+	Frame_Shift_Del	DEL	TTTTTGG	TTTTTGG	-	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	TTTTTGG	TTTTTGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	MLL3	NM_170606	exon38	c.8381_8387del	p.2794_2796del	.	.	95.0	30.0	69.0	0.0	.	1564	.	0.315789	0	none	.	.	PASS	Atlas-Indel,Pindel
PAQR7	164091	hgsc.bcm.edu	hg19	1	26189753	26189755	+	In_Frame_Del	DEL	TTG	TTG	-	novel		TCGA-G7-A4TM-01A-11D-A31X-10	TCGA-G7-A4TM-10B-01D-A31X-10	TTG	TTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	d7e8ac41-c79b-4372-92d4-4df7a9fdcdb7	e79e18b2-3037-4c27-bbeb-21d6df3720fb	.	PAQR7	NM_178422	exon2	c.577_579del	p.193_193del	.	.	105.0	44.0	105.0	0.0	.	23	.	0.419048	0	none	.	.	PASS	Atlas-Indel,Pindel