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
GRIK3	2899	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	GRIK3	NM_000831	exon10	c.G1483A	p.D495N	TGTCATCCTGTGC	.	371.0	177.0	245.0	0.0	.	195	.	.	.	none	.	.	PASS	Atlas-SNP
CRTC2	200186	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	CRTC2	NM_181715	exon10	c.C761T	p.P254L	GGAGATGGAAAGA	.	176.0	72.0	117.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
HAPLN2	60484	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	HAPLN2	NM_021817	exon4	c.C342T	p.V114V	CCTGGTCATCGCG	.	76.0	45.0	53.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
USH2A	7399	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	USH2A	NM_206933	exon40	c.G7553A	p.S2518N	TGTGCACTGCCAA	.	34.0	17.0	217.0	0.0	.	1168	.	.	.	none	.	.	PASS	Atlas-SNP
TSGA10	80705	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	TSGA10	NM_025244	exon14	c.938+2T>G	.	TGATTTACCTTGA	.	212.0	105.0	405.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
SLC25A12	8604	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	SLC25A12	NM_003705	exon15	c.G1585C	p.G529R	AGTTACCTGCCAT	.	146.0	60.0	191.0	0.0	.	59	.	.	.	none	.	.	PASS	Atlas-SNP
SF3B1	23451	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	SF3B1	NM_012433	exon23	c.G3505A	p.V1169I	GTGTTACGGCATA	.	105.0	43.0	322.0	0.0	.	1038	.	.	.	none	.	.	PASS	Atlas-SNP
ITIH3	3699	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	ITIH3	NM_002217	exon3	c.C233T	p.S78F	AGGTTTCCTTTGA	.	48.0	18.0	42.0	0.0	.	132	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF654	55279	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	ZNF654	NM_018293	exon1	c.A1627T	p.R543X	GTGAAAAGATTAA	.	19.0	6.0	119.0	0.0	.	56	.	.	.	none	.	.	PASS	Atlas-SNP
LYAR	55646	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	LYAR	NM_017816	exon7	c.G584A	p.R195Q	TTCTGCCGTTCTT	.	301.0	137.0	256.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
NSUN7	79730	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	NSUN7	NM_024677	exon12	c.G1606C	p.G536R	GAGTTGGGTAAAT	.	145.0	63.0	162.0	0.0	.	70	.	.	.	none	.	.	PASS	Atlas-SNP
INTU	27152	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	INTU	NM_015693	exon2	c.A400G	p.N134D	AATAGCAATGACA	.	36.0	17.0	167.0	0.0	.	92	.	.	.	none	.	.	PASS	Atlas-SNP
PSD2	84249	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PSD2	NM_032289	exon4	c.T840C	p.D280D	GAAGGATGGCCTG	.	577.0	261.0	329.0	0.0	.	88	.	.	.	none	.	.	PASS	Atlas-SNP
SLC25A2	83884	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	SLC25A2	NM_031947	exon1	c.C403T	p.Q135X	TGGTCTGTAGCCG	.	503.0	204.0	353.0	1.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
SLC22A23	63027	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	SLC22A23	NM_015482	exon3	c.T863A	p.F288Y	TCAAAGAACCTGA	.	64.0	61.0	144.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PKHD1	NM_170724	exon50	c.T7952C	p.L2651P	AGCAGTAGGTAAT	.	81.0	72.0	267.0	0.0	.	927	.	.	.	none	.	.	PASS	Atlas-SNP
AHI1	54806	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	AHI1	NM_001134832	exon20	c.C2906G	p.T969S	CTTTCAGTGTGGA	.	33.0	27.0	200.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	RADIL	NM_018059	exon3	c.C751A	p.L251M	GGAGCAGATGCGG	.	29.0	8.0	12.0	0.0	.	110	.	.	.	none	.	.	PASS	Atlas-SNP
MET	4233	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	MET,NS,carcinoma,0,1	MET	NM_001127500	exon15	c.T3263A	p.V1088E	ATGTAGTGATTGG	.	283.0	165.0	316.0	2.0	.	412	.	.	.	none	.	.	PASS	Atlas-SNP
KLHL9	55958	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	KLHL9	NM_018847	exon1	c.T446A	p.V149D	AAAGAGACTCCTG	.	133.0	61.0	145.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
RPL12	6136	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	RPL12	NM_000976	exon1	c.C15T	p.F5F	GGGGTCGAACTTC	.	171.0	68.0	110.0	0.0	.	11	.	.	.	none	.	.	PASS	Atlas-SNP
AKR1E2	83592	hgsc.bcm.edu	hg19	10	4877871	4877871	+	Missense_Mutation	SNP	C	C	A	rs149822509	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	AKR1E2	NM_001271025	exon4	c.C329A	p.P110H	AGCCTCCTCATCC	.	73.0	26.0	105.0	0.0	.	30	.	.	.	alt	C|0.994;G|0.006	.	PASS	Atlas-SNP
OR10G8	219869	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	OR10G8	NM_001004464	exon1	c.T619G	p.S207A	GTGGCCTCGGGCT	.	173.0	71.0	209.0	0.0	.	132	.	.	.	none	.	.	PASS	Atlas-SNP
ST14	6768	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	ST14	NM_021978	exon10	c.A1214G	p.N405S	AGATCAACGGGGA	.	39.0	10.0	39.0	0.0	.	82	.	.	.	none	.	.	PASS	Atlas-SNP
FGF6	2251	hgsc.bcm.edu	hg19	12	4554499	4554499	+	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	FGF6	NM_020996	exon1	c.G238T	p.V80L	TCCCCACCAAATA	.	244.0	116.0	175.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
FGF6	2251	hgsc.bcm.edu	hg19	12	4554500	4554500	+	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	FGF6	NM_020996	exon1	c.G237C	p.L79F	CCCCACCAAATAG	.	241.0	116.0	179.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
LAG3	3902	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	LAG3	NM_002286	exon6	c.C1090A	p.L364M	GGATCCCTGGGGA	.	383.0	171.0	255.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
TMTC1	83857	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	TMTC1	NM_001193451	exon14	c.T2161C	p.L721L	GTGCCAAGCGGAG	.	80.0	34.0	203.0	0.0	.	147	.	.	.	none	.	.	PASS	Atlas-SNP
RBM19	9904	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	RBM19	NM_001146699	exon3	c.G262A	p.A88T	TCCAGGCTCTGGG	.	144.0	54.0	103.0	0.0	.	117	.	.	.	none	.	.	PASS	Atlas-SNP
ULK1	8408	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	ULK1	NM_003565	exon7	c.G505A	p.A169T	GGCTTCGCGCGGT	.	139.0	60.0	105.0	0.0	.	92	.	.	.	none	.	.	PASS	Atlas-SNP
ACYP1	97	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	ACYP1	NM_203488	exon3	c.C136G	p.P46A	TAACTGGAACACA	.	53.0	18.0	65.0	0.0	.	6	.	.	.	none	.	.	PASS	Atlas-SNP
LRRK1	79705	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	LRRK1	NM_024652	exon24	c.C3622A	p.H1208N	CCCAGACACCCGG	.	125.0	55.0	90.0	0.0	.	310	.	.	.	none	.	.	PASS	Atlas-SNP
CLEC16A	23274	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	CLEC16A	NM_015226	exon6	c.A665C	p.N222T	TCTCCAATTTGGT	.	39.0	17.0	54.0	0.0	.	101	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF423	23090	hgsc.bcm.edu	hg19	16	49670867	49670867	+	Missense_Mutation	SNP	C	C	G	rs373085653	alternate_allele	TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	ZNF423	NM_015069	exon4	c.G2196C	p.K732N	GGACACCTTGGAG	.	136.0	71.0	76.0	0.0	.	463	.	.	.	alt	.	.	PASS	Atlas-SNP
KIAA0513	9764	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	KIAA0513	NM_014732	exon2	c.C152T	p.A51V	AGTCTGCGGACAG	.	113.0	34.0	66.0	0.0	.	43	.	.	.	weak	C|1.000;T|0.000	0.000	PASS	Atlas-SNP
MYH13	8735	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	MYH13	NM_003802	exon10	c.G807C	p.L269L	TTCTAACAGATCT	.	91.0	16.0	80.0	0.0	.	533	.	.	.	none	.	.	PASS	Atlas-SNP
MPRIP	23164	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	MPRIP	NM_015134	exon21	c.2959+1G>A	.	GATATGGTGCGTC	.	250.0	73.0	91.0	0.0	.	87	.	.	.	none	.	.	PASS	Atlas-SNP
NDUFS7	374291	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	NDUFS7	NM_024407	exon6	c.C431T	p.P144L	CGGAGCCGCGCTA	.	58.0	24.0	44.0	0.0	.	4	.	.	.	none	.	.	PASS	Atlas-SNP
MUC16	94025	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	MUC16	NM_024690	exon3	c.A24118G	p.T8040A	CAGAGGTGGCCAG	.	79.0	40.0	188.0	0.0	.	4315	.	.	.	none	.	.	PASS	Atlas-SNP
GGN	199720	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	GGN	NM_152657	exon3	c.C998A	p.A333D	GCCCGGGCTTGGG	.	62.0	27.0	23.0	0.0	.	50	.	.	.	none	.	.	PASS	Atlas-SNP
PRR12	57479	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PRR12	NM_020719	exon5	c.C4004T	p.P1335L	CACATCCCCCACC	.	29.0	11.0	24.0	0.0	.	157	.	.	.	none	.	.	PASS	Atlas-SNP
NLRP8	126205	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	NLRP8	NM_176811	exon1	c.G200A	p.G67D	GTACTGGCACCAT	.	50.0	24.0	59.0	0.0	.	225	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF583	147949	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	ZNF583	NM_001159861	exon5	c.A463T	p.N155Y	GTTCAAAATAAAG	.	52.0	23.0	246.0	0.0	.	83	.	.	.	none	.	.	PASS	Atlas-SNP
PLTP	5360	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PLTP	NM_006227	exon8	c.C693T	p.D231D	GTCCATGTCCAGG	.	82.0	34.0	64.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
SLC12A5	57468	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	SLC12A5	NM_001134771	exon8	c.C1131T	p.I377I	CCTCATCAAAGGT	.	93.0	37.0	93.0	0.0	.	181	.	.	.	none	.	.	PASS	Atlas-SNP
PFKL	5211	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PFKL	NM_002626	exon16	c.C1572T	p.I524I	TGTCATCCCAGCC	.	89.0	38.0	54.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
INPP5J	27124	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	INPP5J	NM_001002837	exon7	c.G695C	p.W232S	TGTTCTGGTTCGG	.	110.0	46.0	73.0	0.0	.	94	.	.	.	none	.	.	PASS	Atlas-SNP
MEI1	150365	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	MEI1	NM_152513	exon29	c.C3564A	p.L1188L	TGTCCTCTCTCAT	.	207.0	78.0	150.0	0.0	.	87	.	.	.	none	.	.	PASS	Atlas-SNP
EEF2	1938	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	EEF2	.	.	.	.	.	.	64.0	19.0	28.0	0.0	.	57	.	0.296875	0	none	.	.	PASS	Atlas-INDEL
KIDINS220	57498	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	KIDINS220	NM_020738	exon30	c.4599delC	p.N1533fs	.	.	145.0	57.0	233.0	0.0	.	136	.	0.393103	0	none	.	.	PASS	Atlas-INDEL
PER2	8864	hgsc.bcm.edu	hg19	2	239176835	239176850	+	In_Frame_Del	DEL	GGACACTGCGGAGAAG	GGACACTGCGGAGAAG	-	novel		TCGA-AL-3472-01A-01D-1252-08	TCGA-AL-3472-10A-01D-1252-08	GGACACTGCGGAGAAG	GGACACTGCGGAGAAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PER2	NM_022817	exon8	c.825_830del	p.275_277del	.	.	129.0	35.0	76.0	0.0	.	85	.	0.271318	0	none	.	.	PASS	Atlas-INDEL
TRIM15	89870	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	TRIM15	NM_033229	exon7	c.1365delG	p.W455X	.	.	184.0	81.0	135.0	0.0	.	34	.	0.440217	0	none	.	.	PASS	Atlas-INDEL
SRRM2	23524	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	SRRM2	NM_016333	exon11	c.4279_4280insT	p.M1427fs	.	.	367.0	150.0	336.0	0.0	.	263	.	0.408719	0	none	.	.	PASS	Atlas-INDEL
PCK1	5105	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PCK1	NM_002591	exon10	c.1824_1825del	p.608_609del	.	.	102.0	32.0	115.0	0.0	.	95	.	0.313726	0	none	.	.	PASS	Atlas-INDEL
PSAT1	29968	hgsc.bcm.edu	hg19	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	PhaseI	WXS	none	.	.	Illumina HiSeq	f246dd1b-eedd-4105-b80e-77c3cb63a450	a80cc8a1-24ad-41f0-bdad-9c05f2ad4901	.	PSAT1	NM_058179	exon8	c.886_887insA	p.Q296fs	.	.	44.0	21.0	111.0	0.0	.	33	.	0.477273	0	none	.	.	PASS	Atlas-INDEL