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	22166446	22166446	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	HSPG2	NM_005529	exon72	c.C9578T	p.T3193I	TGTGCTGTGCCTA	.	117.0	25.0	92.0	0.0	.	311	.	.	.	none	.	.	PASS	Atlas-SNP
SRRM1	10250	hgsc.bcm.edu	hg19	1	24972473	24972473	+	Splice_Site	SNP	A	A	G	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	SRRM1	NM_005839	exon2	c.22-2A>G	.	TCCTGCAGGGAAC	.	103.0	23.0	65.0	0.0	.	81	.	.	.	none	.	.	PASS	Atlas-SNP
DLGAP3	58512	hgsc.bcm.edu	hg19	1	35350632	35350632	+	Silent	SNP	G	G	A	rs143986097	alternate_allele	TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	DLGAP3	NM_001080418	exon6	c.C1947T	p.N649N	GCTCCTGTTCTCG	.	119.0	15.0	79.0	0.0	.	107	.	.	.	alt	G|1.000;C|0.000	.	PASS	Atlas-SNP
KCNQ4	9132	hgsc.bcm.edu	hg19	1	41285146	41285146	+	Splice_Site	SNP	T	T	G	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	KCNQ4	NM_172163	exon5	c.834+2T>G	.	GGACGGTGCGTGA	.	102.0	20.0	81.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
TBX15	6913	hgsc.bcm.edu	hg19	1	119427569	119427569	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	TBX15	NM_152380	exon8	c.C1277T	p.P426L	TTTTCCGGGCTTG	.	202.0	46.0	138.0	0.0	.	95	.	.	.	none	.	.	PASS	Atlas-SNP
C2CD4D	100191040	hgsc.bcm.edu	hg19	1	151810577	151810577	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	C2CD4D	NM_001136003	exon2	c.C889T	p.P297S	CCGGGGGGCCGAG	.	494.0	96.0	447.0	0.0	.	3	.	.	.	none	.	.	PASS	Atlas-SNP
LHX4	89884	hgsc.bcm.edu	hg19	1	180240574	180240574	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	LHX4	NM_033343	exon4	c.A511G	p.T171A	CTGGAGACATTAA	.	278.0	61.0	222.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
LHX4	89884	hgsc.bcm.edu	hg19	1	180240575	180240575	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	LHX4	NM_033343	exon4	c.C512T	p.T171I	TGGAGACATTAAA	.	275.0	58.0	220.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
CNOT11	55571	hgsc.bcm.edu	hg19	2	101883275	101883275	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	.	NM_017546	exon5	c.T1172C	p.I391T	GCCAGATCACTGA	.	165.0	36.0	119.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
LRP1B	53353	hgsc.bcm.edu	hg19	2	141272299	141272299	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	LRP1B	NM_018557	exon51	c.A8192C	p.K2731T	ATACATTTTTGTG	.	226.0	57.0	126.0	0.0	.	1315	.	.	.	none	.	.	PASS	Atlas-SNP
UNC80	285175	hgsc.bcm.edu	hg19	2	210818950	210818950	+	Silent	SNP	G	G	A	rs371393316		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	UNC80	NM_032504	exon47	c.G7215A	p.A2405A	TCTTGCGACGTCC	.	151.0	31.0	90.0	0.0	.	280	.	.	.	weak	.	.	PASS	Atlas-SNP
RQCD1	9125	hgsc.bcm.edu	hg19	2	219449436	219449436	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	RQCD1	NM_001271634	exon4	c.G422C	p.G141A	GCCTTGGAGTTAT	.	172.0	39.0	114.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
FLNB	2317	hgsc.bcm.edu	hg19	3	58107208	58107208	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	FLNB	NM_001457	exon20	c.C3104T	p.S1035L	AGGCCTCGCTGCC	.	89.0	17.0	67.0	0.0	.	430	.	.	.	none	.	.	PASS	Atlas-SNP
MAATS1	89876	hgsc.bcm.edu	hg19	3	119449132	119449132	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	.	NM_033364	exon8	c.A926C	p.E309A	AGAATGAAGTGAA	.	226.0	41.0	204.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
MRPL3	11222	hgsc.bcm.edu	hg19	3	131188617	131188617	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	MRPL3	NM_007208	exon8	c.G739A	p.D247N	CAATATCCTAAAT	.	93.0	11.0	67.0	0.0	.	32	.	.	.	none	.	.	PASS	Atlas-SNP
PLCH1	23007	hgsc.bcm.edu	hg19	3	155199731	155199731	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	PLCH1	NM_001130960	exon23	c.T4108A	p.S1370T	TTAGAGAAAGATT	.	150.0	34.0	100.0	0.0	.	406	.	.	.	none	.	.	PASS	Atlas-SNP
PHC3	80012	hgsc.bcm.edu	hg19	3	169831155	169831155	+	Silent	SNP	A	A	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	PHC3	NM_024947	exon11	c.T2346A	p.I782I	TTCAGCAATCATG	.	183.0	36.0	148.0	0.0	.	113	.	.	.	none	.	.	PASS	Atlas-SNP
PDE6B	5158	hgsc.bcm.edu	hg19	4	651194	651194	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	PDE6B	NM_001145291	exon10	c.A1312C	p.M438L	GACAAGATGAACA	.	427.0	74.0	332.0	0.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
HGFAC	3083	hgsc.bcm.edu	hg19	4	3443797	3443797	+	Silent	SNP	C	C	G	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	HGFAC,NS,carcinoma,0,2	HGFAC	NM_001528	exon1	c.C69G	p.L23L	CCTCCTCCTGCTG	.	68.0	3.0	50.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
LNX1	84708	hgsc.bcm.edu	hg19	4	54362470	54362470	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	LNX1	NM_001126328	exon6	c.G1070T	p.R357L	TGTTCACGCATCA	.	107.0	28.0	64.0	0.0	.	139	.	.	.	none	.	.	PASS	Atlas-SNP
CENPE	1062	hgsc.bcm.edu	hg19	4	104116296	104116296	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	CENPE	NM_001813	exon5	c.C452T	p.P151L	ATTAAAGGTTTCA	.	113.0	16.0	97.0	0.0	.	253	.	.	.	none	.	.	PASS	Atlas-SNP
PCSK1	5122	hgsc.bcm.edu	hg19	5	95759058	95759058	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	PCSK1	NM_000439	exon4	c.G502A	p.D168N	AACCATCATCCAG	.	269.0	50.0	188.0	0.0	.	93	.	.	.	none	.	.	PASS	Atlas-SNP
EGR1	1958	hgsc.bcm.edu	hg19	5	137801684	137801684	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.,1	EGR1	NM_001964	exon1	c.C234G	p.N78K	CAGCAACAGCAGC	.	155.0	34.0	88.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
GUSB	2990	hgsc.bcm.edu	hg19	7	65441077	65441077	+	Silent	SNP	T	T	C	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	GUSB	NM_000181	exon5	c.A837G	p.Q279Q	CTTAAGTTGGCCC	.	67.0	17.0	47.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
YWHAG	7532	hgsc.bcm.edu	hg19	7	75959110	75959110	+	Silent	SNP	A	A	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	YWHAG	NM_012479	exon2	c.T528A	p.A176A	GTTAAGAGCCAGG	.	154.0	21.0	114.0	0.0	.	24	.	.	.	none	.	.	PASS	Atlas-SNP
GPR37	2861	hgsc.bcm.edu	hg19	7	124387082	124387082	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	GPR37	NM_005302	exon2	c.T1339A	p.F447I	AGCCAAAATACCA	.	75.0	19.0	56.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
PODXL	5420	hgsc.bcm.edu	hg19	7	131241055	131241055	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	PODXL	NM_001018111	exon1	c.T64C	p.S22P	GCGACGACGGCAG	.	119.0	15.0	105.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
PPP1R16A	84988	hgsc.bcm.edu	hg19	8	145726945	145726945	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	PPP1R16A	NM_032902	exon10	c.G1246T	p.G416W	CGAGTAGGGGGCT	.	193.0	34.0	138.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
MORN5	254956	hgsc.bcm.edu	hg19	9	124929084	124929084	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	MORN5	NM_198469	exon2	c.A85G	p.T29A	ACCGAAACAATAT	.	260.0	47.0	215.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
CACNA1B	774	hgsc.bcm.edu	hg19	9	140918184	140918184	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	CACNA1B	NM_001243812	exon19	c.A2989G	p.T997A	GAGACCACGGAGA	.	248.0	38.0	0.0	0.0	.	266	.	.	.	none	.	.	PASS	Atlas-SNP
CACNA1B	774	hgsc.bcm.edu	hg19	9	140918185	140918185	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	CACNA1B	NM_001243812	exon19	c.C2990T	p.T997M	AGACCACGGAGAA	.	255.0	51.0	1.0	0.0	.	266	.	.	.	none	.	.	PASS	Atlas-SNP
HOGA1	112817	hgsc.bcm.edu	hg19	10	99361640	99361640	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	HOGA1	NM_138413	exon6	c.G727A	p.A243T	GCCCTGGCCAATG	.	106.0	27.0	101.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
ATRNL1	26033	hgsc.bcm.edu	hg19	10	117221517	117221517	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	ATRNL1	NM_207303	exon22	c.C3389T	p.A1130V	ATACTGCCATAAA	.	81.0	18.0	105.0	0.0	.	219	.	.	.	none	.	.	PASS	Atlas-SNP
PLEKHA7	144100	hgsc.bcm.edu	hg19	11	16812448	16812448	+	Silent	SNP	C	C	A	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	PLEKHA7	NM_175058	exon21	c.G2949T	p.S983S	GACATACGACCGC	.	163.0	29.0	123.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
SYVN1	84447	hgsc.bcm.edu	hg19	11	64899012	64899012	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	SYVN1	NM_172230	exon7	c.C587G	p.S196C	TCCACGGAGTGCA	.	87.0	12.0	76.0	0.0	.	55	.	.	.	none	.	.	PASS	Atlas-SNP
KRTAP5-8	57830	hgsc.bcm.edu	hg19	11	71249532	71249532	+	Missense_Mutation	SNP	C	C	G	rs11234084		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	KRTAP5-8	NM_021046	exon1	c.C431G	p.S144C	GCTGTTCCCAGTC	.	102.0	6.0	73.0	0.0	.	28	.	.	.	weak	.	.	PASS	Atlas-SNP
PRDM10	56980	hgsc.bcm.edu	hg19	11	129793159	129793159	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	PRDM10	NM_020228	exon14	c.G2030C	p.C677S	TTCCCACAGGTGG	.	122.0	40.0	118.0	0.0	.	120	.	.	.	none	.	.	PASS	Atlas-SNP
TAS2R50	259296	hgsc.bcm.edu	hg19	12	11138793	11138793	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	TAS2R50	NM_176890	exon1	c.G667A	p.V223I	TGTGGACCTTGGT	.	183.0	28.0	155.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
ATP11A	23250	hgsc.bcm.edu	hg19	13	113479745	113479745	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	ATP11A	NM_032189	exon11	c.T874A	p.S292T	TTTAGATCGATGA	.	153.0	31.0	106.0	0.0	.	225	.	.	.	none	.	.	PASS	Atlas-SNP
PLEKHG3	26030	hgsc.bcm.edu	hg19	14	65208230	65208230	+	Silent	SNP	C	C	G	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	PLEKHG3	NM_015549	exon14	c.C1827G	p.L609L	TCAGCTCTCCCCA	.	85.0	18.0	60.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
FOXN3	1112	hgsc.bcm.edu	hg19	14	89817056	89817056	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	FOXN3	NM_005197	exon3	c.G640A	p.V214M	TGAACACGTGTGG	.	206.0	34.0	171.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
UBE3A	7337	hgsc.bcm.edu	hg19	15	25616011	25616011	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	UBE3A,NS,adenocarcinoma,0,2	UBE3A	NM_000462	exon7	c.G1319A	p.R440Q	GGTTTTCGACAAT	.	100.0	20.0	80.0	0.0	.	109	.	.	.	none	.	.	PASS	Atlas-SNP
THBS1	7057	hgsc.bcm.edu	hg19	15	39880740	39880740	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	THBS1	NM_003246	exon10	c.G1485T	p.W495C	AGGCTGGGGTCCT	.	155.0	34.0	121.0	0.0	.	106	.	.	.	none	.	.	PASS	Atlas-SNP
PLA2G4F	255189	hgsc.bcm.edu	hg19	15	42445858	42445858	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	PLA2G4F	NM_213600	exon5	c.G451A	p.D151N	GTGAATCCTACAT	.	73.0	21.0	55.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
C16orf91	283951	hgsc.bcm.edu	hg19	16	1470405	1470405	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	C16orf91	NM_001272051	exon2	c.C241T	p.P81S	TGAGGGGCAGCAC	.	142.0	19.0	121.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
TMEM132E	124842	hgsc.bcm.edu	hg19	17	32956193	32956193	+	Silent	SNP	G	G	A	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	TMEM132E	NM_207313	exon5	c.G1038A	p.R346R	TCAGCGGGATGTG	.	97.0	23.0	83.0	0.0	.	122	.	.	.	none	.	.	PASS	Atlas-SNP
XYLT2	64132	hgsc.bcm.edu	hg19	17	48433616	48433616	+	Silent	SNP	G	G	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	XYLT2	NM_022167	exon7	c.G1476T	p.R492R	CCTCCGGCTGCAG	.	80.0	18.0	52.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
LRRC59	55379	hgsc.bcm.edu	hg19	17	48472322	48472322	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	LRRC59	NM_018509	exon2	c.G133C	p.D45H	ACAGATCCAGGAT	.	207.0	36.0	172.0	0.0	.	23	.	.	.	none	.	.	PASS	Atlas-SNP
SMAD4	4089	hgsc.bcm.edu	hg19	18	48575090	48575090	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	SMAD4,colon,carcinoma,+1,1	SMAD4	NM_005359	exon3	c.A284G	p.Y95C	TGATCTATGCCCG	.	130.0	28.0	140.0	0.0	.	822	.	.	.	none	.	.	PASS	Atlas-SNP
ST8SIA3	51046	hgsc.bcm.edu	hg19	18	55021740	55021740	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	ST8SIA3	NM_015879	exon2	c.C287T	p.A96V	GGACAGCGTTTTT	.	98.0	27.0	110.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
ZFR2	23217	hgsc.bcm.edu	hg19	19	3827588	3827588	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	ZFR2	NM_015174	exon6	c.G916A	p.V306M	GCTGCACGCCTGT	.	169.0	25.0	111.0	0.0	.	63	.	.	.	none	.	.	PASS	Atlas-SNP
AP1M2	10053	hgsc.bcm.edu	hg19	19	10692495	10692495	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	AP1M2	NM_005498	exon4	c.C327G	p.I109M	GTAGACGATGACA	.	98.0	18.0	59.0	0.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
PRKCSH	5589	hgsc.bcm.edu	hg19	19	11558370	11558370	+	Silent	SNP	G	G	A	rs77563879	bycluster	TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	PRKCSH,caecum,carcinoma,0,1	PRKCSH	NM_001001329	exon11	c.G966A	p.E322E	GGAGGAGGAAGAA	.	135.0	6.0	112.0	1.0	.	55	.	.	.	weak	.	.	PASS	Atlas-SNP
FBXW9	84261	hgsc.bcm.edu	hg19	19	12805525	12805525	+	Silent	SNP	G	G	T	rs10416965	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	FBXW9	NM_032301	exon3	c.C561A	p.L187L	CAGACAGAGTGAC	.	137.0	26.0	92.0	0.0	.	30	.	.	.	alt	G|0.921;C|0.079	.	PASS	Atlas-SNP
PRNP	5621	hgsc.bcm.edu	hg19	20	4680620	4680620	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	PRNP	NM_000311	exon2	c.G754T	p.V252L	CTGATAGTGGGAT	.	167.0	33.0	133.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	hg19	22	38119756	38119756	+	Missense_Mutation	SNP	A	A	G	rs77530465	alternate_allele	TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	TRIOBP_ENST00000344404,NS,carcinoma,0,1	TRIOBP	NM_001039141	exon7	c.A1193G	p.Q398R	CCACTCAACGAGA	.	83.0	6.0	73.0	0.0	.	262	.	.	.	alt	.	.	PASS	Atlas-SNP
SHANK3	85358	hgsc.bcm.edu	hg19	22	51159397	51159397	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	SHANK3	NM_033517	exon21	c.T3094C	p.S1032P	CTGCCATCCCTAC	.	49.0	14.0	57.0	0.0	.	96	.	.	.	none	.	.	PASS	Atlas-SNP
SLC16A2	6567	hgsc.bcm.edu	hg19	X	73641736	73641736	+	Silent	SNP	C	C	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	SLC16A2	NM_006517	exon1	c.C264T	p.T88T	CGGCACCGCGCGC	.	110.0	37.0	72.0	0.0	.	54	.	.	.	none	.	.	PASS	Atlas-SNP
COX3	5742	hgsc.bcm.edu	hg19	MT	9966	9966	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	.	ENST00000362079	exon1	c.G760C	p.V254L	CTGTATGTCTCCA	.	141.0	36.0	22.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	13466	13466	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	.	ENST00000361567	exon1	c.G1130A	p.S377N	TTGGCAGCCTAGC	.	125.0	9.0	22.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
CYTB	0	hgsc.bcm.edu	hg19	MT	14973	14973	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	.	ENST00000361789	exon1	c.G227A	p.G76D	ATTATGGCTGAAT	.	199.0	9.0	54.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
SBF2	81846	hgsc.bcm.edu	hg19	11	10011141	10011146	+	In_Frame_Del	DEL	AACTAG	AACTAG	-	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	AACTAG	AACTAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	SBF2,colon,carcinoma,0,1	SBF2	NM_030962	exon13	c.1297_1299del	p.433_433del	.	.	84.0	11.0	80.0	0.0	.	146	.	0.130952	0	none	.	.	PASS	Atlas-Indel,Pindel
PPP2R3C	55012	hgsc.bcm.edu	hg19	14	35554933	35554940	+	Frame_Shift_Del	DEL	GAAGAGAG	GAAGAGAG	-	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	GAAGAGAG	GAAGAGAG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	PPP2R3C	NM_017917	exon13	c.1219_1226del	p.407_409del	.	.	97.0	15.0	107.0	0.0	.	44	.	0.154639	0	none	.	.	PASS	Atlas-Indel,Pindel
CHTF18	63922	hgsc.bcm.edu	hg19	16	847004	847006	+	In_Frame_Del	DEL	TTG	TTG	-	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	TTG	TTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	CHTF18	NM_022092	exon20	c.2644_2646del	p.882_882del	.	.	113.0	14.0	120.0	0.0	.	52	.	0.123894	0	none	.	.	PASS	Atlas-Indel,Pindel
SLC26A1	10861	hgsc.bcm.edu	hg19	4	982757	982759	+	In_Frame_Del	DEL	AGA	AGA	-	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	SLC26A1	NM_022042	exon3	c.1969_1971del	p.657_657del	.	.	177.0	40.0	178.0	0.0	.	44	.	0.225989	0	none	.	.	PASS	Atlas-Indel,Pindel
PIK3R3	8503	hgsc.bcm.edu	hg19	1	46532743	46532743	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	PIK3R3	NM_003629	exon4	c.336delA	p.L112fs	.	.	185.0	38.0	153.0	0.0	.	41	.	0.205405	0	none	.	.	PASS	Atlas-Indel,Pindel
KRT2	3849	hgsc.bcm.edu	hg19	12	53045631	53045632	+	In_Frame_Ins	INS	-	-	CGCCTCCAAAGCCGCTGC	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	KRT2	NM_000423	exon1	c.296_297insGCAGCGGCTTTGGAGGCG	p.G99delinsGSGFGGG	.	.	248.0	47.0	186.0	0.0	.	94	.	0.189516	0	none	.	.	PASS	Atlas-INDEL
HECW1	23072	hgsc.bcm.edu	hg19	7	43547666	43547672	+	Frame_Shift_Del	DEL	ATGGCCT	ATGGCCT	-	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	ATGGCCT	ATGGCCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	HECW1	NM_015052	exon23	c.3801_3807del	p.1267_1269del	.	.	112.0	16.0	124.0	0.0	.	540	.	0.142857	0	none	.	.	PASS	Atlas-INDEL
COL4A6	1288	hgsc.bcm.edu	hg19	X	107453231	107453231	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	COL4A6	NM_001847	exon8	c.518delA	p.D173fs	.	.	621.0	271.0	522.0	0.0	.	270	.	0.436393	0	none	.	.	PASS	Atlas-Indel,Pindel
PLD5	200150	hgsc.bcm.edu	hg19	1	242511425	242511426	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	PLD5	NM_152666	exon3	c.309_310insA	p.N103fs	.	.	94.0	18.0	68.0	0.0	.	216	.	0.191489	0	none	.	.	PASS	Atlas-Indel,Pindel
FBN2	2201	hgsc.bcm.edu	hg19	5	127636522	127636522	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	FBN2	NM_001999	exon48	c.6154delG	p.E2052fs	.	.	94.0	18.0	72.0	0.0	.	858	.	0.191489	0	none	.	.	PASS	Atlas-Indel,Pindel
HSD11B1	3290	hgsc.bcm.edu	hg19	1	209880345	209880347	+	In_Frame_Del	DEL	ATG	ATG	-	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	ATG	ATG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	HSD11B1,NS,malignant_melanoma,0,1	HSD11B1	NM_005525	exon4	c.388_390del	p.130_130del	.	.	172.0	36.0	113.0	0.0	.	35	.	0.209302	0	none	.	.	PASS	Atlas-Indel,Pindel
TTF1	7270	hgsc.bcm.edu	hg19	9	135277608	135277625	+	In_Frame_Del	DEL	CAGAAAGCCAGGACTCCT	CAGAAAGCCAGGACTCCT	-	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	CAGAAAGCCAGGACTCCT	CAGAAAGCCAGGACTCCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	TTF1	NM_007344	exon2	c.585_602del	p.195_201del	.	.	69.0	10.0	62.0	0.0	.	82	.	0.144928	0	none	.	.	PASS	Atlas-Indel,Pindel
MTRR	4552	hgsc.bcm.edu	hg19	5	7897216	7897229	+	Frame_Shift_Del	DEL	CTCATCTAAAGGTT	CTCATCTAAAGGTT	-	novel		TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	CTCATCTAAAGGTT	CTCATCTAAAGGTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	MTRR	NM_024010	exon14	c.1888_1901del	p.630_634del	.	.	257.0	47.0	189.0	0.0	.	74	.	0.182879	0	none	.	.	PASS	Atlas-Indel,Pindel
IRF2BPL	64207	hgsc.bcm.edu	hg19	14	77493762	77493773	+	In_Frame_Del	DEL	TGCTGCTGCTGC	TGCTGCTGCTGC	-	rs200317113	by1000genomes;alternate_allele	TCGA-F9-A97G-01A-11D-A382-10	TCGA-F9-A97G-10A-01D-A385-10	TGCTGCTGCTGC	TGCTGCTGCTGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	b01862bd-0a0c-4961-a583-54646cad74e8	2cbd3338-65da-4ceb-9181-cf4bb8c86bc9	.	IRF2BPL	NM_024496	exon1	c.364_375del	p.122_125del	.	.	55.0	10.0	42.0	0.0	.	40	.	0.182	.	alt	-|0.810;TGCTGC|0.190	0.810	PASS	Pindel