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
HSPG2	3339	hgsc.bcm.edu	hg19	1	22173002	22173002	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	HSPG2	NM_005529	exon63	c.G8255C	p.G2752A	GCCTGCCCGGGGA	.	135.0	43.0	133.0	0.0	.	311	.	.	.	none	.	.	PASS	Atlas-SNP
LUZP1	7798	hgsc.bcm.edu	hg19	1	23418024	23418024	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	LUZP1	NM_033631	exon4	c.G2731C	p.G911R	AGAAGCCCACTTC	.	148.0	31.0	132.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
FAF1	11124	hgsc.bcm.edu	hg19	1	51253751	51253751	+	Silent	SNP	C	C	T	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	FAF1	NM_007051	exon4	c.G288A	p.R96R	AGGTTGCCTTTCT	.	158.0	38.0	159.0	0.0	.	64	.	.	.	none	.	.	PASS	Atlas-SNP
RPRD2	23248	hgsc.bcm.edu	hg19	1	150337220	150337220	+	Silent	SNP	T	T	C	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	RPRD2	NM_015203	exon1	c.T30C	p.S10S	CAGCAGTAAGGCC	.	45.0	5.0	53.0	0.0	.	189	.	.	.	none	.	.	PASS	Atlas-SNP
TNFAIP8L2	79626	hgsc.bcm.edu	hg19	1	151131378	151131378	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	TNFAIP8L2	NM_024575	exon2	c.A205G	p.K69E	GCCATCAAGGTGG	.	165.0	28.0	214.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
TNFAIP8L2	79626	hgsc.bcm.edu	hg19	1	151131379	151131379	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	TNFAIP8L2	NM_024575	exon2	c.A206G	p.K69R	CCATCAAGGTGGC	.	166.0	29.0	214.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
FMO1	2326	hgsc.bcm.edu	hg19	1	171254631	171254631	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	FMO1	NM_002021	exon9	c.A1547G	p.K516R	TTCTTAAAGTCTT	.	227.0	55.0	212.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
CENPF	1063	hgsc.bcm.edu	hg19	1	214832273	214832273	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	CENPF	NM_016343	exon19	c.C9043A	p.L3015M	CCCCGCCTGGCTG	.	78.0	18.0	86.0	0.0	.	321	.	.	.	none	.	.	PASS	Atlas-SNP
CEP170	9859	hgsc.bcm.edu	hg19	1	243328302	243328302	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	CEP170	NM_014812	exon13	c.A2960C	p.K987T	TCCATTTTTTCCC	.	571.0	79.0	629.0	0.0	.	153	.	.	.	none	.	.	PASS	Atlas-SNP
SPDYA	245711	hgsc.bcm.edu	hg19	2	29072767	29072767	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	SPDYA	NM_001142634	exon7	c.A902G	p.K301R	TGAAGAAAGACAA	.	171.0	42.0	180.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
FBXO11	80204	hgsc.bcm.edu	hg19	2	48040432	48040432	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	FBXO11	NM_001190274	exon18	c.G2168T	p.R723I	TTTCTTCTTAGTG	.	285.0	63.0	323.0	0.0	.	127	.	.	.	none	.	.	PASS	Atlas-SNP
FER1L5	90342	hgsc.bcm.edu	hg19	2	97361397	97361397	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	FER1L5	NM_001113382	exon34	c.T3974C	p.V1325A	TCACAGTGGTAAG	.	75.0	21.0	73.0	0.0	.	113	.	.	.	none	.	.	PASS	Atlas-SNP
DBR1	51163	hgsc.bcm.edu	hg19	3	137889003	137889003	+	Silent	SNP	A	A	G	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	DBR1	NM_016216	exon4	c.T435C	p.S145S	GATTGTAGATGAA	.	64.0	14.0	65.0	0.0	.	45	.	.	.	none	.	.	PASS	Atlas-SNP
MED12L	116931	hgsc.bcm.edu	hg19	3	151148131	151148131	+	Silent	SNP	G	G	A	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	MED12L	NM_053002	exon42	c.G6348A	p.T2116T	GCAGACGGCCGCC	.	102.0	29.0	106.0	0.0	.	271	.	.	.	none	.	.	PASS	Atlas-SNP
CCNL1	57018	hgsc.bcm.edu	hg19	3	156870895	156870895	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	CCNL1	NM_020307	exon4	c.A539G	p.Q180R	ATAACTTGATTTT	.	139.0	32.0	144.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
VCAN	1462	hgsc.bcm.edu	hg19	5	82817377	82817377	+	Silent	SNP	T	T	A	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	VCAN	NM_004385	exon7	c.T3252A	p.S1084S	AGGTTCTGAGAGG	.	69.0	19.0	85.0	0.0	.	498	.	.	.	none	.	.	PASS	Atlas-SNP
ERAP1	51752	hgsc.bcm.edu	hg19	5	96126038	96126038	+	Silent	SNP	A	A	G	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	ERAP1	NM_001198541	exon10	c.T1485C	p.D495D	AAAGCCATCCATC	.	69.0	16.0	71.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
UBE2J1	51465	hgsc.bcm.edu	hg19	6	90047953	90047953	+	Silent	SNP	A	A	T	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	UBE2J1	NM_016021	exon5	c.T399A	p.T133T	CTCAGGAGTGTAA	.	138.0	25.0	170.0	0.0	.	28	.	.	.	none	.	.	PASS	Atlas-SNP
POMT1	10585	hgsc.bcm.edu	hg19	9	134379628	134379628	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	POMT1	NM_001136113	exon2	c.C23T	p.P8L	AGCGCCCTGTAGT	.	253.0	64.0	254.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
SFMBT2	57713	hgsc.bcm.edu	hg19	10	7423824	7423824	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	SFMBT2	NM_001029880	exon2	c.C37T	p.P13S	ATGAAGGGTCTTG	.	54.0	11.0	78.0	0.0	.	209	.	.	.	none	.	.	PASS	Atlas-SNP
FZD8	8325	hgsc.bcm.edu	hg19	10	35928674	35928674	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	FZD8	NM_031866	exon1	c.G1684C	p.E562Q	TGGCCTCCCAGCG	.	37.0	6.0	36.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
CAPRIN1	4076	hgsc.bcm.edu	hg19	11	34118208	34118208	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	CAPRIN1	NM_203364	exon16	c.A1888T	p.N630Y	CCTGCCAATGGAT	.	118.0	31.0	124.0	0.0	.	110	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP5-11	440051	hgsc.bcm.edu	hg19	11	71293623	71293623	+	Silent	SNP	G	G	A	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	KRTAP5-11	NM_001005405	exon1	c.C261T	p.C87C	CTTACAGCAGTTG	.	73.0	18.0	74.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
RBP5	83758	hgsc.bcm.edu	hg19	12	7276771	7276771	+	Splice_Site	SNP	C	C	A	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	RBP5	NM_031491	exon5	c.355-1G>T	.	CAGTTCCTGGGGA	.	42.0	6.0	52.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGEF25	115557	hgsc.bcm.edu	hg19	12	58010621	58010621	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	ARHGEF25	NM_001111270	exon16	c.C1804G	p.P602A	CCAACTCCAAAAA	.	127.0	32.0	130.0	0.0	.	111	.	.	.	none	.	.	PASS	Atlas-SNP
FLT1	2321	hgsc.bcm.edu	hg19	13	28942739	28942739	+	Silent	SNP	T	T	C	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	FLT1	NM_001160030	exon15	c.A2178G	p.S726S	TGACGATGATGAT	.	75.0	4.0	65.0	0.0	.	393	.	.	.	none	.	.	PASS	Atlas-SNP
MYH7	4625	hgsc.bcm.edu	hg19	14	23888454	23888454	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	MYH7	NM_000257	exon29	c.A3904G	p.T1302A	CTCGGGTCAGCTG	.	61.0	14.0	52.0	0.0	.	349	.	.	.	none	.	.	PASS	Atlas-SNP
PSEN1	5663	hgsc.bcm.edu	hg19	14	73678584	73678584	+	Missense_Mutation	SNP	C	C	G	rs376433615	alternate_allele	TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	PSEN1	NM_000021	exon10	c.C1063G	p.P355A	TCTACACCTGAGT	.	79.0	18.0	99.0	0.0	.	38	.	.	.	alt	.	.	PASS	Atlas-SNP
ASB2	51676	hgsc.bcm.edu	hg19	14	94413717	94413717	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	ASB2	NM_001202429	exon7	c.G1030A	p.A344T	TGGAGGCGATGTG	.	96.0	20.0	96.0	0.0	.	71	.	.	.	none	.	.	PASS	Atlas-SNP
DNAJC17	55192	hgsc.bcm.edu	hg19	15	41066037	41066037	+	Splice_Site	SNP	T	T	A	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	DNAJC17	NM_018163	exon11	c.682-2A>T	.	AGCTCCTGCCAAA	.	82.0	21.0	58.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
IMP3	55272	hgsc.bcm.edu	hg19	15	75931982	75931982	+	Silent	SNP	C	C	T	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	IMP3,NS,carcinoma,0,1	IMP3	NM_018285	exon1	c.G528A	p.E176E	ATCGCGCTCCTCA	.	73.0	15.0	49.0	0.0	.	10	.	.	.	none	.	.	PASS	Atlas-SNP
WDR24	84219	hgsc.bcm.edu	hg19	16	739631	739631	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	WDR24	NM_032259	exon1	c.A10G	p.M4V	GGGACATCTTCTC	.	89.0	36.0	67.0	0.0	.	111	.	.	.	none	.	.	PASS	Atlas-SNP
C16orf62	57020	hgsc.bcm.edu	hg19	16	19584527	19584527	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	C16orf62	NM_020314	exon4	c.C639G	p.I213M	AGAAATCCTTGCC	.	66.0	10.0	67.0	0.0	.	164	.	.	.	none	.	.	PASS	Atlas-SNP
LONP2	83752	hgsc.bcm.edu	hg19	16	48296782	48296782	+	Silent	SNP	T	T	C	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	LONP2	NM_031490	exon6	c.T981C	p.T327T	TACAACTGGTAAG	.	155.0	48.0	149.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
FA2H	79152	hgsc.bcm.edu	hg19	16	74808459	74808459	+	Silent	SNP	C	C	A	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	FA2H	NM_024306	exon1	c.G195T	p.P65P	GTGCGGCGGCCCG	.	17.0	6.0	30.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
THRA	7067	hgsc.bcm.edu	hg19	17	38249559	38249559	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	THRA	NM_003250	exon10	c.A1397G	p.E466G	GCAGTGAGGCGGA	.	102.0	44.0	82.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
KANSL1	284058	hgsc.bcm.edu	hg19	17	44116537	44116537	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	.	NM_001193466	exon9	c.C2248T	p.H750Y	CTAAGTGCTGCCT	.	199.0	34.0	156.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
CBX1	10951	hgsc.bcm.edu	hg19	17	46154301	46154301	+	Silent	SNP	C	C	T	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	CBX1	NM_006807	exon2	c.G66A	p.V22V	TTCCACCACATAT	.	305.0	19.0	269.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
MRPL38	64978	hgsc.bcm.edu	hg19	17	73897871	73897871	+	Silent	SNP	G	G	T	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	MRPL38	NM_032478	exon4	c.C513A	p.V171V	CAGGGGGACTCGG	.	71.0	32.0	59.0	0.0	.	26	.	.	.	none	.	.	PASS	Atlas-SNP
MIDN	90007	hgsc.bcm.edu	hg19	19	1255541	1255541	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	MIDN	NM_177401	exon7	c.C977T	p.S326L	CCCCTTCGCTGGC	.	54.0	20.0	60.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
MEF2BNB-MEF2B	4207	hgsc.bcm.edu	hg19	19	19257425	19257425	+	Silent	SNP	G	G	A	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	MEF2BNB-MEF2B	NM_005919	exon9	c.C708T	p.C236C	AGTGGAGCAGGGG	.	40.0	12.0	48.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
C19orf55	148137	hgsc.bcm.edu	hg19	19	36250862	36250862	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	C19orf55	NM_001039887	exon3	c.T281C	p.L94P	CCACCCTGATTGA	.	49.0	6.0	75.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF780A	284323	hgsc.bcm.edu	hg19	19	40589098	40589098	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	ZNF780A	NM_001142579	exon5	c.A104T	p.E35V	TCCCACTCCTCCT	.	87.0	28.0	115.0	0.0	.	156	.	.	.	none	.	.	PASS	Atlas-SNP
RUNX1	861	hgsc.bcm.edu	hg19	21	36206708	36206708	+	Silent	SNP	C	C	T	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	RUNX1	NM_001754	exon7	c.G804A	p.Q268Q	CTTACCCTGCATC	.	33.0	7.0	42.0	0.0	.	687	.	.	.	none	.	.	PASS	Atlas-SNP
SEPT5	5413	hgsc.bcm.edu	hg19	22	19709805	19709805	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	SEPT5	NM_001009939	exon10	c.G1012A	p.A338T	GATCCTGCCGCTG	.	81.0	24.0	115.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
SUPT20HL1	100130302	hgsc.bcm.edu	hg19	X	24381466	24381466	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	.	NM_001136234	exon1	c.G589C	p.E197Q	CAGCTTGAGAGCC	.	239.0	120.0	272.0	1.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
BRCC3	79184	hgsc.bcm.edu	hg19	X	154299852	154299852	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	BRCC3	NM_024332	exon1	c.A50G	p.D17G	AGTCTGACGCTTT	.	43.0	25.0	57.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
NIPBL	25836	hgsc.bcm.edu	hg19	5	37020651	37020652	+	Frame_Shift_Del	DEL	TC	TC	-	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	TC	TC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	NIPBL	NM_015384	exon26	c.5100_5101del	p.1700_1701del	.	.	194.0	44.0	202.0	0.0	.	513	.	0.226804	0	none	.	.	PASS	Atlas-Indel,Pindel
MKI67	4288	hgsc.bcm.edu	hg19	10	129904689	129904689	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	MKI67	NM_002417	exon13	c.5416delC	p.L1806fs	.	.	349.0	81.0	381.0	0.0	.	363	.	0.232092	0	none	.	.	PASS	Atlas-Indel,Pindel
TM7SF2	7108	hgsc.bcm.edu	hg19	11	64882832	64882832	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	TM7SF2	NM_003273	exon8	c.938delC	p.T313fs	.	.	89.0	23.0	101.0	0.0	.	30	.	0.258427	0	none	.	.	PASS	Atlas-Indel,Pindel
ZNF226	7769	hgsc.bcm.edu	hg19	19	44681813	44681816	+	Frame_Shift_Del	DEL	AAAT	AAAT	-	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	AAAT	AAAT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	ZNF234_ENST00000454662,colon,carcinoma,0,1	.	NM_001032372	exon6	c.2397_2400del	p.799_800del	.	.	77.0	13.0	85.0	0.0	.	.	.	0.168831	0	none	.	.	PASS	Atlas-Indel,Pindel
AARS2	57505	hgsc.bcm.edu	hg19	6	44278164	44278164	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	AARS2	NM_020745	exon5	c.767delT	p.L256fs	.	.	56.0	10.0	53.0	0.0	.	77	.	0.179	.	none	.	.	PASS	Pindel
RANBP6	26953	hgsc.bcm.edu	hg19	9	6013047	6013047	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-IA-A83V-01A-11D-A34Z-10	TCGA-IA-A83V-11A-11D-A34Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3f9166f6-9ec6-4026-b8b0-23be6e2c7cdd	d632f44e-8673-43b1-9b56-519cdbbd3008	.	RANBP6	NM_012416	exon1	c.2562delG	p.L854fs	.	.	115.0	24.0	141.0	0.0	.	127	.	0.209	.	none	.	.	PASS	Pindel
