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	Trna_tot	Trna_ref	Trna_var	Trna_alt1	Trna_alt2
GRIK3	2899	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	37307384	37307384	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	GRIK3-158	NM_000831	exon10	c.G1483A	p.D495N	TGTCATCCTGTGC	.	371	177	245	0	.	0	0	0	0	0
FLG	2312	broad.mit.edu	37	1	152281871	152281871	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	FLG-106	NM_002016	exon3	c.C5491A	p.Q1831K	CCGATTGCTCATA	.	1352	17	767	0	.	0	0	0	0	0
CRTC2	200186	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	153924730	153924730	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	CRTC2-228	NM_181715	exon10	c.C761T	p.P254L	GGAGATGGAAAGA	.	176	72	117	0	.	0	0	0	0	0
HAPLN2	60484	hgsc.bcm.edu;broad.mit.edu	37	1	156593855	156593855	+	Silent	SNP	C	C	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	HAPLN2-90	NM_021817	exon4	c.C342T	p.V114V	CCTGGTCATCGCG	.	76	45	53	0	.	0	0	0	0	0
USH2A	7399	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	216073458	216073458	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	USH2A-115	NM_206933	exon40	c.G7553A	p.S2518N	TGTGCACTGCCAA	.	34	17	217	0	.	0	0	0	0	0
OR2T35	403244	hgsc.bcm.edu	37	1	248801928	248801928	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	OR2T35-46	NM_001001827	exon1	c.T632C	p.L211P	ACAGATAGAGGGA	.	55	6	61	2	.	0	0	0	0	0
AKR1E2	83592	hgsc.bcm.edu	37	10	4877871	4877871	+	Missense_Mutation	SNP	C	C	A	rs149822509	byfrequency;alternate_allele	TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	AKR1E2-68	NM_001271025	exon4	c.C329A	p.P110H	AGCCTCCTCATCC	.	73	26	105	0	C|0.994;G|0.006	0	0	0	0	0
MINPP1	9562	hgsc.bcm.edu	37	10	89265100	89265100	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	MINPP1-227	NM_004897	exon1	c.A428G	p.D143G	GGATGGACGGGCA	.	133	8	58	1	.	0	0	0	0	0
NAV2	89797	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	19955397	19955397	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	NAV2-96	NM_001244963	exon8	c.C1676T	p.S559F	AAAAGTCCTCCAA	.	316	133	162	1	.	1	1	0	0	0
FNBP4	23360	hgsc.bcm.edu	37	11	47788808	47788808	+	Silent	SNP	A	A	G	rs146921625		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	FNBP4-91	NM_015308	exon1	c.T33C	p.R11R	GGGCCTACGGCCG	.	12	7	3	1	A|0.986;G|0.014	0	0	0	0	0
DLG2	1740	hgsc.bcm.edu	37	11	83770383	83770383	+	Silent	SNP	T	T	C	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	DLG2-96	NM_001142699	exon11	c.A894G	p.E298E	TTTGATTTCCACA	.	60	3	247	0	.	0	0	0	0	0
OR10G8	219869	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	123900948	123900948	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	OR10G8-92	NM_001004464	exon1	c.T619G	p.S207A	GTGGCCTCGGGCT	.	173	71	209	0	.	0	0	0	0	0
ST14	6768	hgsc.bcm.edu;broad.mit.edu	37	11	130066334	130066334	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	ST14-94	NM_021978	exon10	c.A1214G	p.N405S	AGATCAACGGGGA	.	39	10	39	0	.	0	0	0	0	0
IQSEC3	440073	hgsc.bcm.edu	37	12	176334	176334	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	IQSEC3-560	NM_001170738	exon1	c.G286C	p.D96H	CTCCAGGACCAGG	.	10	8	4	1	.	0	0	0	0	0
LAG3	3902	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	6886462	6886462	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	LAG3-90	NM_002286	exon6	c.C1090A	p.L364M	GGATCCCTGGGGA	.	383	171	255	0	.	2	2	0	0	0
LRP6	4040	hgsc.bcm.edu	37	12	12274105	12274105	+	Silent	SNP	A	A	G	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	LRP6-661	NM_002336	exon23	c.T4797C	p.H1599H	GAGGTGATGAGAA	.	23	2	79	0	.	3	3	0	0	0
TMTC1	83857	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	29670368	29670368	+	Silent	SNP	A	A	G	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	TMTC1-90	NM_001193451	exon14	c.T2161C	p.L721L	GTGCCAAGCGGAG	.	80	34	203	0	.	0	0	0	0	0
ALDH2	217	broad.mit.edu	37	12	112229114	112229114	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	ALDH2-228	NM_000690	exon7	c.G686A	p.G229D	AGGCTGGCTTTCC	.	53	3	36	0	.	0	0	0	0	0
RBM19	9904	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	114397941	114397941	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	RBM19-95	NM_001146699	exon3	c.G262A	p.A88T	TCCAGGCTCTGGG	.	144	54	103	0	.	6	2	4	0	0
ULK1	8408	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	12	132393457	132393457	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	ULK1-758	NM_003565	exon7	c.G505A	p.A169T	GGCTTCGCGCGGT	.	139	60	105	0	.	5	3	2	0	0
DTD2	112487	hgsc.bcm.edu	37	14	31926584	31926584	+	Missense_Mutation	SNP	G	G	A	rs3087952		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	.	NM_080664	exon1	c.C16T	p.R6W	GAATCCGGCTACC	.	20	6	15	2	.	13	6	7	0	0
ACYP1	97	hgsc.bcm.edu	37	14	75528414	75528414	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	ACYP1-226	NM_203488	exon3	c.C136G	p.P46A	TAACTGGAACACA	.	53	18	65	0	.	1	1	0	0	0
CDC42BPB	9578	broad.mit.edu	37	14	103430982	103430982	+	Silent	SNP	C	C	T	rs142014338		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	CDC42BPB-581	NM_006035	exon19	c.G2583A	p.P861P	CCACAGCGGGTCC	.	65	5	48	0	C|1.000;T|0.000	0	0	0	0	0
MEF2A	4205	hgsc.bcm.edu	37	15	100211761	100211761	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	MEF2A-455	NM_005587	exon5	c.C295T	p.P99S	GACAGCCCAGACC	.	42	3	60	2	.	1	1	0	0	0
LRRK1	79705	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	101592098	101592098	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	LRRK1-602	NM_024652	exon24	c.C3622A	p.H1208N	CCCAGACACCCGG	.	125	55	90	0	.	0	0	0	0	0
CLEC16A	23274	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	11066855	11066855	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	CLEC16A-92	NM_015226	exon6	c.A665C	p.N222T	TCTCCAATTTGGT	.	39	17	54	0	.	0	0	0	0	0
ZNF423	23090	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	49670867	49670867	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	ZNF423-228	NM_015069	exon4	c.G2196C	p.K732N	GGACACCTTGGAG	.	136	71	76	0	.	0	0	0	0	0
KIAA0513	9764	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	85100829	85100829	+	Missense_Mutation	SNP	C	C	T	rs148950418		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	KIAA0513-135	NM_014732	exon2	c.C152T	p.A51V	AGTCTGCGGACAG	.	113	34	66	0	C|1.000;T|0.000	1	0	1	0	0
MYH13	8735	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	10258306	10258306	+	Silent	SNP	C	C	G	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	MYH13-6	NM_003802	exon10	c.G807C	p.L269L	TTCTAACAGATCT	.	91	16	80	0	.	0	0	0	0	0
MPRIP	23164	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	17080727	17080727	+	Splice_Site	SNP	G	G	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	MPRIP-90	NM_015134	exon21	c.2959+1G>A	.	GATATGGTGCGTC	.	250	73	91	0	.	25	0	25	0	0
NDUFS7	374291	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	1391140	1391140	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	NDUFS7-90	NM_024407	exon6	c.C431T	p.P144L	CGGAGCCGCGCTA	.	58	24	44	0	.	274	130	144	0	0
FAM108A1	81926	hgsc.bcm.edu	37	19	1881550	1881550	+	Silent	SNP	G	G	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	FAM108A1-90	NM_031213	exon2	c.C16T	p.L6L	CACTCAGCGACAG	.	74	8	29	2	.	11	11	0	0	0
MUC16	94025	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	9063328	9063328	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	MUC16-566	NM_024690	exon3	c.A24118G	p.T8040A	CAGAGGTGGCCAG	.	79	40	188	0	.	0	0	0	0	0
SUGP2	10147	broad.mit.edu	37	19	19120952	19120952	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	SUGP2-91	NM_014884	exon5	c.C2050T	p.R684C	GAGCACGGAGGAG	.	313	5	171	1	.	12	11	1	0	0
GGN	199720	hgsc.bcm.edu;broad.mit.edu	37	19	38876904	38876904	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	GGN-90	NM_152657	exon3	c.C998A	p.A333D	GCCCGGGCTTGGG	.	62	27	23	0	.	0	0	0	0	0
SPTBN4	57731	hgsc.bcm.edu	37	19	41018832	41018832	+	Silent	SNP	A	A	G	rs814533		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	SPTBN4-94	NM_020971	exon14	c.A2136G	p.R712R	GCGGCGAGCGTTG	.	4	4	1	1	A|0.806;G|0.194	0	0	0	0	0
BCAM	4059	ucsc.edu	37	19	45322837	45322837	+	Splice_Site	SNP	A	A	C	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	BCAM-91	NM_005581	exon13	c.1619-2A>C	.	CCCTGCAGTGAGC	.	116	1	86	0	.	0	0	0	0	0
CGB1	114335	hgsc.bcm.edu	37	19	49538974	49538974	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	CGB1-90	NM_033377	exon3	c.C361T	p.P121S	CCTTGGGACCCCC	.	423	76	250	1	.	0	0	0	0	0
PRR12	57479	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	50102854	50102854	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PRR12-70	NM_020719	exon5	c.C4004T	p.P1335L	CACATCCCCCACC	.	29	11	24	0	.	3	2	1	0	0
IL4I1	259307	hgsc.bcm.edu	37	19	50393285	50393285	+	Missense_Mutation	SNP	T	T	C	rs200284411		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	IL4I1-523	NM_172374	exon10	c.A1412G	p.H471R	TGGCTGTGCTGGT	.	10	6	3	1	.	3	1	2	0	0
NUP62	23636	broad.mit.edu	37	19	50412018	50412018	+	Silent	SNP	C	C	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	NUP62-615	NM_153719	exon3	c.G1047A	p.R349R	GAAGTGCCGCTCC	.	469	6	301	1	.	7	7	0	0	0
NLRP8	126205	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	56459468	56459468	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	NLRP8-361	NM_176811	exon1	c.G200A	p.G67D	GTACTGGCACCAT	.	50	24	59	0	.	0	0	0	0	0
ZNF583	147949	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	56934490	56934490	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	ZNF583-91	NM_001159861	exon5	c.A463T	p.N155Y	GTTCAAAATAAAG	.	52	23	246	0	.	3	1	2	0	0
EMX1	2016	hgsc.bcm.edu	37	2	73145299	73145299	+	Silent	SNP	C	C	G	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	EMX1-90	NM_004097	exon1	c.C318G	p.G106G	CGCGGGCGCGGGC	.	16	7	7	1	.	0	0	0	0	0
TSGA10	80705	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	99689479	99689479	+	Splice_Site	SNP	A	A	C	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	TSGA10-91	NM_025244	exon14	c.938+2T>G	.	TGATTTACCTTGA	.	212	105	405	0	.	1	0	1	0	0
SLC25A12	8604	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	172647961	172647961	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	SLC25A12-90	NM_003705	exon15	c.G1585C	p.G529R	AGTTACCTGCCAT	.	146	60	191	0	.	0	0	0	0	0
HOXD8	3234	hgsc.bcm.edu	37	2	176995295	176995295	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	HOXD8-90	NM_001199746	exon1	c.G201C	p.Q67H	CCCGCAGGCGCAC	.	7	2	0	0	.	0	0	0	0	0
SF3B1	23451	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	198260814	198260814	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	SF3B1-140	NM_012433	exon23	c.G3505A	p.V1169I	GTGTTACGGCATA	.	105	43	322	0	.	390	218	172	0	0
CSNK2A1	1457	hgsc.bcm.edu	37	20	470423	470423	+	Splice_Site	SNP	C	C	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	CSNK2A1-791	NM_177560	exon9	c.315+1G>T	.	ATATTACCTGATC	.	54	3	71	1	.	0	0	0	0	0
PLTP	5360	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	20	44534919	44534919	+	Silent	SNP	G	G	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PLTP-91	NM_006227	exon8	c.C693T	p.D231D	GTCCATGTCCAGG	.	82	34	64	0	.	0	0	0	0	0
SLC12A5	57468	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	20	44670175	44670175	+	Silent	SNP	C	C	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	SLC12A5-156	NM_001134771	exon8	c.C1131T	p.I377I	CCTCATCAAAGGT	.	93	37	93	0	.	0	0	0	0	0
KRTAP13-3	337960	hgsc.bcm.edu	37	21	31797825	31797825	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	KRTAP13-3-92	NM_181622	exon1	c.A406G	p.T136A	GGGAGGTATGGAT	.	28	2	87	0	.	0	0	0	0	0
PFKL	5211	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	21	45743723	45743723	+	Silent	SNP	C	C	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PFKL-251	NM_002626	exon16	c.C1572T	p.I524I	TGTCATCCCAGCC	.	89	38	54	0	.	61	38	23	0	0
INPP5J	27124	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	22	31523948	31523948	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	INPP5J-205	NM_001002837	exon7	c.G695C	p.W232S	TGTTCTGGTTCGG	.	110	46	73	0	.	1	1	0	0	0
MEI1	150365	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	22	42191444	42191444	+	Silent	SNP	C	C	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	MEI1-70	NM_152513	exon29	c.C3564A	p.L1188L	TGTCCTCTCTCAT	.	207	78	150	0	.	4	4	0	0	0
TRIM71	131405	hgsc.bcm.edu	37	3	32860208	32860208	+	Silent	SNP	C	C	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	TRIM71-92	NM_001039111	exon1	c.C636T	p.C212C	GCGCTGCCTCGAC	.	23	10	6	0	.	0	0	0	0	0
ITIH3	3699	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	52830615	52830615	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	ITIH3-93	NM_002217	exon3	c.C233T	p.S78F	AGGTTTCCTTTGA	.	48	18	42	0	.	0	0	0	0	0
ZNF654	55279	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	88190087	88190087	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	ZNF654-69	NM_018293	exon1	c.A1627T	p.R543X	GTGAAAAGATTAA	.	19	6	119	0	.	1	0	1	0	0
ASTE1	28990	hgsc.bcm.edu	37	3	130743394	130743394	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	ASTE1-90	NM_014065	exon3	c.C757G	p.H253D	GGTGGTGTCTCCT	.	44	3	130	0	.	4	4	0	0	0
SI	6476	hgsc.bcm.edu	37	3	164754251	164754251	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	SI-104	NM_001041	exon22	c.T2441C	p.L814P	AGTCCTAGAGGAT	.	28	2	227	0	.	0	0	0	0	0
LYAR	55646	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	4276342	4276342	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	LYAR-90	NM_017816	exon7	c.G584A	p.R195Q	TTCTGCCGTTCTT	.	301	137	256	0	.	5	2	3	0	0
NSUN7	79730	broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	40810405	40810405	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	NSUN7-90	NM_024677	exon12	c.G1606C	p.G536R	GAGTTGGGTAAAT	.	138	59	159	0	.	19	10	9	0	0
GUF1	60558	ucsc.edu	37	4	44692823	44692823	+	Silent	SNP	G	G	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	GUF1-91	NM_021927	exon12	c.G1425A	p.L475L	TGTTTTGGGCACT	.	34	4	270	0	.	0	0	0	0	0
INTU	27152	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	128564929	128564929	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	INTU-91	NM_015693	exon2	c.A400G	p.N134D	AATAGCAATGACA	.	36	17	167	0	.	1	0	1	0	0
CARD6	84674	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	5	40853728	40853728	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	CARD6-230	NM_032587	exon3	c.G2294T	p.W765L	CTAAGTGGTTCCA	.	265	108	351	2	.	0	0	0	0	0
PSD2	84249	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	139193773	139193773	+	Silent	SNP	T	T	C	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PSD2-91	NM_032289	exon4	c.T840C	p.D280D	GAAGGATGGCCTG	.	577	261	329	0	.	0	0	0	0	0
SLC25A2	83884	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	140683030	140683030	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	SLC25A2-91	NM_031947	exon1	c.C403T	p.Q135X	TGGTCTGTAGCCG	.	503	204	353	1	.	1	0	1	0	0
SLC22A23	63027	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	3410472	3410472	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	SLC22A23-23	NM_015482	exon3	c.T863A	p.F288Y	TCAAAGAACCTGA	.	64	61	144	0	.	0	0	0	0	0
RREB1	6239	hgsc.bcm.edu	37	6	7246994	7246994	+	Silent	SNP	C	C	T	rs187908583		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	RREB1-144	NM_001003699	exon12	c.C4311T	p.G1437G	GGCAGGCGCCGGG	.	17	15	10	1	C|0.993;T|0.007	3	0	3	0	0
PKHD1	5314	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	51712728	51712728	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PKHD1-603	NM_170724	exon50	c.T7952C	p.L2651P	AGCAGTAGGTAAT	.	81	72	267	0	.	26	0	26	0	0
AHI1	54806	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	135732541	135732541	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	AHI1-227	NM_001134832	exon20	c.C2906G	p.T969S	CTTTCAGTGTGGA	.	33	27	200	0	.	5	2	3	0	0
RADIL	55698	hgsc.bcm.edu;broad.mit.edu	37	7	4876021	4876021	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	RADIL-994	NM_018059	exon3	c.C751A	p.L251M	GGAGCAGATGCGG	.	29	8	12	0	.	1	0	1	0	0
MET	4233	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	116415115	116415115	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	MET-5874	NM_001127500	exon15	c.T3263A	p.V1088E	ATGTAGTGATTGG	.	283	165	316	2	.	4	1	3	0	0
CALD1	800	hgsc.bcm.edu	37	7	134618593	134618593	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	CALD1-226	NM_033138	exon5	c.G1073C	p.R358T	GGCAGAGGATAAA	.	27	2	12	0	.	3	3	0	0	0
MROH5	389690	broad.mit.edu	37	8	142480802	142480802	+	Silent	SNP	G	G	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	.	.	.	.	.	GGCTCCGTCCGAA	.	9	4	11	0	.	0	0	0	0	0
DMRT2	10655	hgsc.bcm.edu	37	9	1051930	1051930	+	Missense_Mutation	SNP	C	C	G	rs112585712		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	DMRT2-514	NM_006557	exon2	c.C317G	p.T106S	GCTGCACTCCCGC	.	2	2	0	0	C|0.976;G|0.024	0	0	0	0	0
KLHL9	55958	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	9	21334413	21334413	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	KLHL9-94	NM_018847	exon1	c.T446A	p.V149D	AAAGAGACTCCTG	.	133	61	145	0	.	2	2	0	0	0
RPL12	6136	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	9	130213582	130213582	+	Silent	SNP	G	G	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	RPL12-90	NM_000976	exon1	c.C15T	p.F5F	GGGGTCGAACTTC	.	171	68	110	0	.	1364	750	614	0	0
LRRC26	389816	hgsc.bcm.edu	37	9	140063461	140063461	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	LRRC26-22	NM_001013653	exon2	c.G850A	p.G284S	CAGAGCCCAGCGC	.	12	6	1	0	.	0	0	0	0	0
PJA1	64219	broad.mit.edu	37	X	68382203	68382203	+	Silent	SNP	G	G	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PJA1-130	NM_145119	exon2	c.C879T	p.T293T	ATTGGCGGTATCC	.	108	3	84	0	.	1	1	0	0	0
EEF2	1938	hgsc.bcm.edu;broad.mit.edu	37	19	3983291	3983293	+	Splice_Site	DEL	TGA	TGA	-	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	TGA	TGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	EEF2-90	.	.	.	.	.	.	64	19	28	0	.	0	0	0	0	0
KIDINS220	57498	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	2	8871568	8871568	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	KIDINS220-93	NM_020738	exon30	c.4598delA	p.N1533fs	.	.	145	57	233	0	.	0	0	0	0	0
BIRC6	57448	broad.mit.edu	37	2	32660618	32660618	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	BIRC6-233	NM_016252	exon14	c.3464delA	p.E1155fs	TGAATGAAGAAAT	.	6	2	9	0	.	0	0	0	0	0
PER2	8864	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	2	239176835	239176850	+	Frame_Shift_Del	DEL	GGACACTGCGGAGAAG	GGACACTGCGGAGAAG	-	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	GGACACTGCGGAGAAG	GGACACTGCGGAGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PER2-154	NM_022817	exon8	c.825_829del	p.275_277del	.	.	129	35	76	0	.	0	0	0	0	0
PCK1	5105	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	20	56140816	56140817	+	Frame_Shift_Del	DEL	GA	GA	-	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PCK1-227	NM_002591	exon10	c.1825_1826del	p.609_609del	.	.	102	32	115	0	.	0	0	0	0	0
C6orf195	154386	broad.mit.edu	37	6	2623877	2623877	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	C6orf195-90	NM_152554	exon3	c.180delT	p.P60fs	CCCGGGAGGGGAG	.	300	7	174	0	.	0	0	0	0	0
TRIM15	89870	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	6	30140094	30140094	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	TRIM15-90	NM_033229	exon7	c.1366delA	p.K456fs	.	.	184	81	135	0	.	0	0	0	0	0
NEDD4	4734	broad.mit.edu	37	15	56216867	56216868	+	Nonsense_Mutation	INS	-	-	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	NEDD4-723	NM_006154	exon5	c.268_269insT	p.E90_V91delinsX	ACACTTCAAAAAG	.	17	7	30	0	.	0	0	0	0	0
SRRM2	23524	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	16	2814808	2814809	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	SRRM2-93	NM_016333	exon11	c.4279_4280insT	p.M1427fs	.	.	367	150	336	0	.	0	0	0	0	0
PSAT1	29968	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	9	80942983	80942984	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PSAT1-91	NM_058179	exon8	c.886_887insA	p.Q296fs	.	.	44	21	111	0	.	0	0	0	0	0
FGF6	2251	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	4554499	4554500	+	Missense_Mutation	DNP	CC	CC	AG	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	FGF6		exon1	c.G237C	p.LV79FL	CCCCACCAAATAG	.	241.0	116.0	179.0	0.0	.	0	0	0	0	0