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	TranscriptID	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	TTotCov	TVarCov	NTotCov	NVarCov	dbSNPPopFreq	COSMIC_Gene_Freq
AAMP	14	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	219134700	219134700	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	AAMP	NM_001087	exon1	c.C110G	p.P37R	TCCGGCGGACCGG	.	475.0	172.0	245.0	1.0	.	91
ACPT	93650	hgsc.bcm.edu;mdanderson.org	37	19	51298384	51298384	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	ACPT	NM_033068	exon11	c.G1250A	p.G417E	GACCAGGGTGCCT	.	14.0	10.0	8.0	0.0	.	90
AP4E1	23431	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	51223097	51223097	+	Silent	SNP	C	C	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	AP4E1	NM_007347	exon7	c.C798T	p.H266H	TTACCACAGTGTG	.	107.0	40.0	70.0	0.0	.	90
BARD1	580	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	215617259	215617259	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	BARD1	NM_000465	exon7	c.C1589T	p.P530L	TCGACAGGCCGCA	.	80.0	36.0	51.0	0.0	.	415
CACNA2D3	55799	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	54905638	54905638	+	Silent	SNP	C	C	A	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	CACNA2D3	NM_018398	exon18	c.C1699A	p.R567R	GAAGACCGAGATG	.	198.0	69.0	141.0	0.0	.	138
CASR	846	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	121994752	121994752	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	CASR	NM_001178065	exon5	c.A1471G	p.I491V	TATTCCATCATCA	.	241.0	96.0	168.0	0.0	.	97
CCNB3	85417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	50090667	50090667	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	CCNB3	NM_033031	exon10	c.A3853G	p.I1285V	CGCTACATCTGCG	.	183.0	22.0	131.0	0.0	.	482
CHST9	83539	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	24497007	24497007	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	CHST9	NM_031422	exon6	c.A548T	p.Q183L	AACTCCTGAAGGA	.	88.0	19.0	73.0	1.0	.	93
COL14A1	7373	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	121381587	121381587	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	COL14A1	NM_021110	exon47	c.G5174A	p.R1725Q	AGAGTCGGCCTGG	.	40.0	13.0	22.0	0.0	.	543
COL20A1	57642	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	20	61937235	61937235	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	COL20A1	NM_020882	exon5	c.G340T	p.E114X	GCAGTTGAGGATC	.	125.0	19.0	41.0	0.0	.	90
CORO2B	10391	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	69011111	69011111	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	CORO2B	NM_006091	exon9	c.G1042T	p.G348C	CTCAAGGGCCTGA	.	175.0	64.0	78.0	0.0	.	158
DCC	1630	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	51025826	51025826	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	DCC	NM_005215	exon27	c.C4057G	p.P1353A	CCTCCACCAATGA	.	290.0	90.0	204.0	0.0	.	225
EED	8726	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	85975252	85975260	+	In_Frame_Del	DEL	CTGGTGGCA	CTGGTGGCA	-	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	CTGGTGGCA	CTGGTGGCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	EED	NM_003797	exon7	c.673_681del	p.225_227del	GACACTCTGGTGG	.	118.0	15.0	113.0	0.0	.	227
EED	8726	ucsc.edu;bcgsc.ca	37	11	85975264	85975264	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	EED	NM_003797	exon7	c.T685G	p.F229V	GCAATATTTGGAG	.	135.0	25.0	129.0	0.0	.	227
EN2	2020	hgsc.bcm.edu;mdanderson.org	37	7	155251239	155251239	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	EN2	NM_001427	exon1	c.C167A	p.A56E	TGCAGGCGCCCGG	.	12.0	6.0	13.0	0.0	.	90
EP400	57634	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	132512744	132512744	+	Silent	SNP	G	G	T	rs34531099	byfrequency;alternate_allele	TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	EP400	NM_015409	exon27	c.G5292T	p.A1764A	GCCAGCGCACAGT	.	329.0	141.0	135.0	0.0	G|0.997;A|0.003	520
FGD5	152273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	14861791	14861791	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	FGD5	NM_152536	exon1	c.G1213T	p.A405S	GGAGCGGCCGAGG	.	84.0	37.0	74.0	0.0	.	231
FSIP2	401024	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	186673528	186673528	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	FSIP2	NM_173651	exon17	c.G19762A	p.V6588M	TTTAATGTGATTC	.	67.0	20.0	90.0	0.0	.	90
HNRNPM	4670	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	8520429	8520429	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	HNRNPM	NM_031203	exon2	c.A254G	p.Q85R	AATGGCAGTCACT	.	117.0	39.0	70.0	0.0	.	68
HSPG2	3339	hgsc.bcm.edu;mdanderson.org	37	1	22182073	22182073	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	HSPG2	NM_005529	exon46	c.T5797C	p.C1933R	CTCGGCACAAGTA	.	16.0	4.0	8.0	0.0	.	141
IL10RA	3587	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	117860190	117860190	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	IL10RA	NM_001558	exon3	c.C222A	p.N74K	CTCCAACTGTAGC	.	308.0	100.0	231.0	0.0	.	91
KAT2B	8850	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	20113881	20113881	+	Silent	SNP	C	C	G	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	KAT2B	NM_003884	exon2	c.C360G	p.P120P	CACTCCCCCCAGA	.	87.0	31.0	71.0	0.0	.	228
KLHL32	114792	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	97561726	97561726	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	KLHL32	NM_052904	exon7	c.G695A	p.R232H	ACATCCGCTTTGG	.	180.0	95.0	183.0	0.0	.	94
LINC00619	414260	bcgsc.ca;mdanderson.org	37	10	44340850	44340850	+	RNA	SNP	C	C	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	.	.	.	.	.	CCTCTCCTCCAGG	.	205.0	74.0	146.0	0.0	.	.
MLLT10	8028	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	21901356	21901356	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	MLLT10	NM_001195626	exon5	c.G485T	p.C162F	ATGGATGTCGACA	.	48.0	20.0	50.0	0.0	.	658
MTERF	7978	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	91503047	91503053	+	Frame_Shift_Del	DEL	GAATCCA	GAATCCA	-	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	GAATCCA	GAATCCA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	MTERF	NM_006980	exon3	c.1055_1061del	p.352_354del	ATGCTTGAATCCA	.	72.0	11.0	75.0	0.0	.	90
NLE1	54475	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	33467033	33467033	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	NLE1	NM_018096	exon3	c.C215T	p.S72L	CCCAGTGAGGAGA	.	288.0	94.0	175.0	1.0	.	290
NME5	8382	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	137465065	137465065	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	NME5	NM_003551	exon3	c.G222A	p.M74I	AGAACTCATGTAA	.	135.0	41.0	144.0	0.0	.	115
NOTCH2NL	388677	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	1	145281614	145281614	+	Silent	SNP	C	C	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	NOTCH2NL	NM_203458	exon4	c.C544T	p.L182L	GACAGCCTGTATG	.	2183.0	249.0	1284.0	1.0	.	211
OR51B6	390058	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	5372775	5372775	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	OR51B6	NM_001004750	exon1	c.C38T	p.T13I	AGCTTACTGGCTT	.	229.0	87.0	148.0	0.0	.	70
OVCH1	341350	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	29626033	29626033	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	OVCH1	NM_183378	exon15	c.C1604T	p.S535F	TTTAAAGACTCTG	.	51.0	17.0	63.0	0.0	.	210
PIK3R1	5295	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	5	67591127	67591129	+	In_Frame_Del	DEL	AGA	AGA	-	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	PIK3R1,bladder,carcinoma,-1	PIK3R1	NM_181523	exon13	c.1720_1722del	p.574_574del	CAGCTGAGAAAGA	.	108.0	65.0	101.0	0.0	.	4332
PLEKHA4	57664	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	49364729	49364729	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	PLEKHA4	NM_001161354	exon5	c.G295A	p.V99I	GCAGGACGCTGCC	.	36.0	10.0	22.0	0.0	.	227
POTEH	23784	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	22	16287641	16287641	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	POTEH	NM_001136213	exon1	c.C245T	p.T82I	CCAGAAGTGCCCA	.	550.0	152.0	368.0	0.0	.	1
PPP1R1B	84152	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	37792089	37792089	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	PPP1R1B	NM_032192	exon7	c.C586T	p.R196C	CCTCAGCGCCCTT	.	75.0	27.0	29.0	0.0	.	658
PRICKLE2	166336	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	64148733	64148742	+	Frame_Shift_Del	DEL	TTCGCAGTTT	TTCGCAGTTT	-	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	TTCGCAGTTT	TTCGCAGTTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	PRICKLE2	NM_198859	exon3	c.208_217del	p.70_73del	GCTTGATTCGCAG	.	156.0	34.0	121.0	0.0	.	95
QRICH2	84074	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	17	74289942	74289954	+	Frame_Shift_Del	DEL	CCAGATCCTGATG	CCAGATCCTGATG	-	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	CCAGATCCTGATG	CCAGATCCTGATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	QRICH2	NM_032134	exon4	c.356_368del	p.119_123del	GTGCCACCAGATC	.	115.0	22.0	76.0	0.0	.	94
RFX6	222546	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	117237178	117237178	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	RFX6	NM_173560	exon8	c.C788T	p.T263M	TTGATACGCTCAT	.	143.0	53.0	104.0	0.0	.	93
RMDN1	51115	hgsc.bcm.edu;broad.mit.edu;mdanderson.org	37	8	87520767	87520767	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	.	NM_016033	exon1	c.C83A	p.S28X	CTGCCCGAAGTCC	.	9.0	5.0	20.0	0.0	.	.
SLC47A1	55244	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	19452981	19452981	+	Silent	SNP	A	A	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	SLC47A1	NM_018242	exon5	c.A489T	p.P163P	CATTCCAGCTCTT	.	102.0	65.0	94.0	0.0	.	90
SNX9	51429	broad.mit.edu;bcgsc.ca	37	6	158296186	158296186	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	SNX9	NM_016224	exon4	c.C278T	p.S93L	GTTCGTCGGCTGC	.	171.0	59.0	118.0	1.0	.	226
SORCS2	57537	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	7714544	7714544	+	Silent	SNP	G	G	A	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	SORCS2	NM_020777	exon15	c.G1953A	p.E651E	CGGCGAGGAGGAC	.	170.0	70.0	87.0	0.0	.	91
SSPO	23145	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	7	149523815	149523815	+	Silent	SNP	C	C	G	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	.	NM_198455	exon103	c.C14625G	p.T4875T	CTGCACCCAGCAT	.	37.0	11.0	24.0	0.0	.	.
STRIP2	57464	broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	129122874	129122874	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	.	NM_020704	exon20	c.G2241C	p.W747C	TGACTGGGCTTAC	.	203.0	76.0	129.0	2.0	.	.
SYNE3	161176	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	95909555	95909555	+	Silent	SNP	G	G	A	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	.	NM_152592	exon10	c.C1848T	p.P616P	GTGGTTGGGGTTC	.	170.0	58.0	103.0	0.0	.	.
TPO	7173	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	1520727	1520727	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	TPO	NM_001206744	exon15	c.G2591T	p.G864V	TCGCAGGTCTCAC	.	116.0	36.0	70.0	0.0	.	332
TTPA	7274	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	63973814	63973814	+	Silent	SNP	T	T	C	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	TTPA	NM_000370	exon5	c.A834G	p.Q278Q	TTCTCATTGAATG	.	45.0	17.0	31.0	0.0	.	90
VPS13D	55187	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	12422877	12422877	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	VPS13D	NM_015378	exon51	c.T10243C	p.F3415L	CTTGCATTTGCAC	.	199.0	103.0	110.0	0.0	.	95
YPEL1	29799	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	22064931	22064931	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	YPEL1	NM_013313	exon2	c.G103A	p.E35K	TGAGCTCGTCATG	.	398.0	43.0	231.0	0.0	.	90
ZBTB2	57621	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	151694605	151694605	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	ZBTB2	NM_020861	exon2	c.G168C	p.Q56H	CCTGGTCTGATGG	.	256.0	86.0	153.0	0.0	.	91
ZNF280C	55609	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	129349844	129349844	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	ZNF280C	NM_017666	exon14	c.T1759A	p.S587T	CTTTGGACTTAGC	.	222.0	89.0	155.0	0.0	.	132
ZNF3	7551	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	7	99662525	99662525	+	Silent	SNP	G	G	A	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	ZNF3	NM_017715	exon6	c.C282T	p.H94H	ACAGACGTGTATC	.	214.0	64.0	100.0	0.0	.	91
ZSCAN1	284312	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	19	58565260	58565260	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-PD-A5DF-01A-11D-A27I-10	TCGA-PD-A5DF-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	f1a4f60a-5228-47cd-883f-ff8d2dfe1633	ce137c9c-43df-49e8-82f8-3530d13eecfd	.	ZSCAN1	NM_182572	exon6	c.1068delC	p.G356fs	CAAGGGCCCCCGG	.	155.0	54.0	101.0	0.0	.	92