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
ABCA12	26154	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	215862522	215862522	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ABCA12	NM_173076	exon23	c.G3191T	p.S1064I	GAGACACTGGTTA	.	220.0	83.0	188.0	0.0	.	99
ABCA13	154664	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	48567919	48567919	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ABCA13	NM_152701	exon55	c.G14332A	p.A4778T	GGACATGCTATCA	.	77.0	14.0	69.0	0.0	.	521
ABHD2	11057	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	89738537	89738537	+	Silent	SNP	C	C	T	rs149586205	byfrequency	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ABHD2	NM_007011	exon15	c.C1161T	p.P387P	GTTCCCCGAGCCC	.	122.0	17.0	129.0	0.0	C|1.000;T|0.000	227
ADAMTSL5	339366	broad.mit.edu;ucsc.edu;mdanderson.org	37	19	1510383	1510383	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ADAMTSL5	NM_213604	exon4	c.G236A	p.R79H	CAGAGGCGGTACT	.	16.0	5.0	17.0	1.0	.	90
ADCY5	111	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	123033087	123033087	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ADCY5	NM_183357	exon12	c.G2437A	p.V813I	CCTTTACGCAGGA	.	300.0	95.0	458.0	1.0	.	94
AGBL2	79841	broad.mit.edu;ucsc.edu	37	11	47727469	47727469	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	AGBL2	NM_024783	exon5	c.G233A	p.W78X	ATAGGCCCTAGAA	.	102.0	52.0	151.0	1.0	.	92
AQP5	362	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	50358790	50358790	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	AQP5	NM_001651	exon4	c.C628T	p.P210S	GTAGGGCCCATCG	.	82.0	49.0	151.0	0.0	.	90
ASAP1	50807	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	131181257	131181257	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ASAP1	NM_018482	exon10	c.T803G	p.L268R	GCAGCCAGTTTTT	.	96.0	34.0	94.0	0.0	.	95
ASB13	79754	broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	5683746	5683746	+	Silent	SNP	G	G	A	rs144206251	alternate_allele	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ASB13	NM_024701	exon5	c.C696T	p.F232F	GTACTCGAAGCAC	.	92.0	59.0	117.0	1.0	G|1.000;T|0.000	227
ATRNL1	26033	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	117059734	117059734	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ATRNL1	NM_207303	exon16	c.G2606A	p.G869D	CAAATGGCCTTGT	.	153.0	52.0	190.0	1.0	.	96
AXIN1	8312	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	347721	347721	+	Splice_Site	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	AXIN1	NM_181050	exon7	c.1784+1G>A	.	CGCTCACCTGTGG	.	7.0	7.0	16.0	0.0	.	684
BCORL1	63035	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	129147853	129147853	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	BCORL1	NM_021946	exon3	c.A1105G	p.T369A	CCTTCTACCCCCA	.	21.0	12.0	32.0	0.0	.	294
BCORL1	63035	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	129162763	129162763	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	BCORL1	NM_021946	exon7	c.A4232T	p.E1411V	GCCTTGAAAATTC	.	174.0	90.0	199.0	0.0	.	294
C5orf52	100190949	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	157106849	157106849	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	.	NM_001145132	exon3	c.G322T	p.V108L	TGTAAGGTGAGCG	.	256.0	102.0	291.0	0.0	.	.
CCDC39	339829	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	180361989	180361989	+	Silent	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	CCDC39	NM_181426	exon12	c.C1584T	p.S528S	CATAAGGGACTGT	.	20.0	7.0	29.0	0.0	.	72
CCT3	7203	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	156287253	156287253	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	CCT3	NM_005998	exon9	c.T845A	p.I282N	TGGATAATGTCCT	.	251.0	31.0	138.0	1.0	.	92
CHST2	9435	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	142840620	142840620	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	CHST2	NM_004267	exon2	c.C962T	p.P321L	GAGACCCGGCCCT	.	39.0	28.0	48.0	0.0	.	93
CLK4	57396	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	5	178039797	178039797	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	CLK4	NM_020666	exon8	c.G921A	p.M307I	ACTTACCATTTTA	.	119.0	6.0	116.0	0.0	.	359
CNIH2	254263	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	11	66050239	66050239	+	Silent	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	CNIH2	NM_182553	exon3	c.C186T	p.C62C	CTGCTGCCTCCTG	.	69.0	10.0	154.0	0.0	.	90
CNTNAP4	85445	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	16	76482022	76482022	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	CNTNAP4	NM_138994	exon5	c.G577C	p.D193H	CAGAGTGATGGGA	.	77.0	70.0	146.0	0.0	.	70
COL2A1	1280	hgsc.bcm.edu;broad.mit.edu	37	12	48389497	48389498	+	In_Frame_Ins	INS	-	-	CACCAGGTT	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	COL2A1	NM_001844	exon10	c.704_705insAACCTGGTG	p.V235delinsEPGV	ACAGAGACACCAG	.	217.0	21.0	291.0	0.0	.	92
COL5A2	1290	broad.mit.edu;bcgsc.ca	37	2	189949905	189949905	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	COL5A2	NM_000393	exon11	c.C779G	p.P260R	TTACCAGGAGGGC	.	396.0	20.0	308.0	2.0	.	92
CRB1	23418	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	197297620	197297620	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	CRB1	NM_001257966	exon2	c.G139T	p.D47Y	TGCAAAGATTTTT	.	173.0	7.0	104.0	0.0	.	161
DHX16	8449	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	6	30638843	30638843	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	DHX16	NM_003587	exon2	c.A416C	p.E139A	GAAGCCTCTTCCT	.	197.0	17.0	155.0	0.0	.	228
DPPA2	151871	broad.mit.edu;bcgsc.ca	37	3	109026919	109026919	+	Silent	SNP	G	G	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	DPPA2	NM_138815	exon6	c.C618A	p.S206S	AGGAATGGAACAT	.	147.0	6.0	177.0	1.0	.	93
DSCAM	1826	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	21	41427743	41427743	+	Silent	SNP	C	C	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	DSCAM	NM_001271534	exon29	c.G4944T	p.T1648T	GCTTAACGTATCT	.	152.0	79.0	225.0	0.0	.	101
DSP	1832	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	7580848	7580848	+	Silent	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	DSP	NM_004415	exon23	c.C4425T	p.T1475T	CAAAACCATCCAG	.	224.0	81.0	180.0	0.0	.	518
DTNA	1837	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	32428268	32428268	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	DTNA	NM_001390	exon13	c.A1274G	p.E425G	TGCTTGAGAGTTC	.	45.0	42.0	87.0	0.0	.	153
DUOX2	50506	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	45387780	45387780	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	DUOX2	NM_014080	exon31	c.G4094A	p.G1365E	AACGGTCCATCAA	.	87.0	39.0	127.0	0.0	.	95
EDNRB	1910	broad.mit.edu;bcgsc.ca	37	13	78477636	78477636	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	EDNRB	NM_001201397	exon3	c.T860A	p.I287N	CTGTCAATACTCA	.	111.0	49.0	119.0	2.0	.	522
EPHA3	2042	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	89456488	89456488	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	EPHA3	NM_005233	exon8	c.T1664A	p.L555H	TTATTCTCCTCAC	.	142.0	74.0	178.0	0.0	.	1500
FEN1	2237	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	61563319	61563319	+	Silent	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	FEN1	NM_004111	exon2	c.C486T	p.S162S	GGCCAGCTGTGCT	.	69.0	23.0	94.0	0.0	.	660
FGD5	152273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	14964028	14964028	+	Silent	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	FGD5	NM_152536	exon15	c.G3780A	p.R1260R	CCTGCGGCGTCAT	.	113.0	18.0	90.0	0.0	.	231
FLI1	2313	broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	128680417	128680417	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	FLI1	NM_002017	exon9	c.G893A	p.S298N	ACGCCAGCTGTAT	.	43.0	13.0	67.0	1.0	.	1084
FLT1	2321	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	13	28964106	28964106	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	FLT1	NM_002019	exon13	c.C1796G	p.T599R	TGCATTGTTCTGT	.	238.0	27.0	230.0	0.0	.	1406
GHITM	27069	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	10	85902445	85902445	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	GHITM	NM_014394	exon3	c.G164A	p.R55H	TCCGGCGTGGGAG	.	128.0	8.0	96.0	0.0	.	90
GPR98	84059	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	5	90000211	90000211	+	Silent	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	GPR98	NM_032119	exon36	c.G8292A	p.S2764S	GGGGTCGTTGAAT	.	238.0	16.0	224.0	0.0	.	103
GRK6	2870	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	176859237	176859237	+	Missense_Mutation	SNP	G	G	C	rs139370245	byfrequency;alternate_allele	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	GRK6	NM_002082	exon4	c.G265C	p.E89Q	CAGGCCGAGTATG	.	143.0	17.0	161.0	1.0	G|1.000;A|0.000	602
GTF2F1	2962	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	19	6381584	6381584	+	Silent	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	GTF2F1	NM_002096	exon8	c.G879A	p.Q293Q	CTCCTGCTGCGGC	.	9.0	6.0	15.0	0.0	.	115
HHLA2	11148	hgsc.bcm.edu;broad.mit.edu;mdanderson.org	37	3	108076864	108076864	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	HHLA2	NM_007072	exon6	c.C859T	p.R287X	GAATCCCGATTCT	.	116.0	63.0	159.0	0.0	.	1
HPGD	3248	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	4	175439184	175439184	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	HPGD	NM_000860	exon3	c.T262A	p.L88M	TGACCAAAATGTC	.	86.0	7.0	129.0	0.0	.	90
IGF1R	3480	ucsc.edu;bcgsc.ca	37	15	99454654	99454654	+	Missense_Mutation	SNP	G	G	A	rs201778894		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	IGF1R	NM_000875	exon7	c.G1573A	p.V525I	TTCACCGTTTACT	.	173.0	71.0	198.0	2.0	G|0.999;A|0.000	1490
IPO9	55705	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	201827625	201827625	+	Silent	SNP	A	A	C	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	IPO9	NM_018085	exon12	c.A1272C	p.A424A	TGCTGCAGCCACT	.	246.0	72.0	210.0	0.0	.	228
ITGA10	8515	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	145533439	145533439	+	Missense_Mutation	SNP	G	G	T	rs149835959	alternate_allele	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ITGA10	NM_003637	exon12	c.G1322T	p.R441L	TTTTGCGGGGTGG	.	77.0	8.0	37.0	0.0	G|1.000;A|0.000	231
ITGA9	3680	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	37574884	37574884	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ITGA9	NM_002207	exon14	c.G1453A	p.G485R	CACGACGGACAGC	.	175.0	72.0	169.0	0.0	.	715
ITGB4	3691	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	73729759	73729759	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ITGB4	NM_001005731	exon13	c.G1643A	p.G548E	CTTCCGGGTTCCT	.	45.0	5.0	89.0	0.0	.	227
ITSN2	50618	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	24535152	24535152	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ITSN2	NM_147152	exon5	c.A281T	p.Q94L	GGCAACTGTTGGC	.	308.0	62.0	299.0	0.0	.	539
KIAA1109	84162	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	123193335	123193335	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	KIAA1109	NM_015312	exon46	c.C8221G	p.P2741A	ACAGAGCCAACAT	.	102.0	34.0	182.0	0.0	.	80
KIAA1147	57189	hgsc.bcm.edu;bcgsc.ca	37	7	141373871	141373872	+	Frame_Shift_Ins	INS	-	-	TC	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	KIAA1147	NM_001080392	exon4	c.677_678insGA	p.M226fs	ACCTTCATCTCAG	.	126.0	60.0	129.0	0.0	.	69
KIAA2018	205717	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	113375328	113375328	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	KIAA2018	NM_001009899	exon7	c.G5201T	p.C1734F	GTCTGACAATCAG	.	179.0	22.0	225.0	0.0	.	93
KIF13A	63971	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	17764996	17764996	+	Missense_Mutation	SNP	C	C	T	rs184686655		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	KIF13A	NM_022113	exon39	c.G4763A	p.R1588H	GGGCTACGGGACA	.	207.0	75.0	152.0	2.0	C|0.999;T|0.000	137
LCLAT1	253558	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	30863264	30863264	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	LCLAT1	NM_182551	exon7	c.G1024A	p.V342I	CTCAGGGTCCTTG	.	143.0	65.0	158.0	1.0	.	92
LRP12	29967	broad.mit.edu;ucsc.edu;bcgsc.ca	37	8	105510064	105510064	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	LRP12	NM_013437	exon5	c.G716A	p.C239Y	CCATCACATTTTA	.	235.0	36.0	284.0	2.0	.	90
MDC1	9656	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	30672574	30672574	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	MDC1	NM_014641	exon10	c.C4386A	p.D1462E	AGGCTGGTCTGTG	.	158.0	52.0	126.0	0.0	.	273
MEGF8	1954	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	42839240	42839240	+	Silent	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	MEGF8	NM_001271938	exon4	c.G612A	p.L204L	TGACCTGCACCTG	.	54.0	8.0	104.0	0.0	.	23
MGA	23269	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	42054412	42054412	+	Silent	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	MGA	NM_001164273	exon22	c.G7596A	p.K2532K	AAAGAAGATGGGA	.	170.0	94.0	189.0	1.0	.	522
MYO15A	51168	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	18055202	18055202	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	MYO15A	NM_016239	exon40	c.T7830A	p.H2610Q	CCCTCATGAGGAG	.	139.0	39.0	183.0	0.0	.	97
NAALADL2	254827	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	174951769	174951769	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	NAALADL2	NM_207015	exon3	c.G594T	p.K198N	TTCAAAGAAGATT	.	64.0	16.0	69.0	0.0	.	47
NRAS	4893	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	115256530	115256530	+	Missense_Mutation	SNP	G	G	T	rs121913254	bycluster	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	NRAS,NS,haematopoietic_neoplasm,0	NRAS	NM_002524	exon3	c.C181A	p.Q61K	CTTCTTGTCCAGC	.	75.0	8.0	100.0	0.0	.	32773
NUP210L	91181	broad.mit.edu;mdanderson.org	37	1	154127337	154127337	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	NUP210L	NM_001159484	exon1	c.C184T	p.Q62X	CCCGCTGGGCCTC	.	298.0	22.0	183.0	1.0	.	77
NUP54	53371	broad.mit.edu;bcgsc.ca	37	4	77065333	77065333	+	Silent	SNP	T	T	C	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	NUP54	NM_017426	exon3	c.A264G	p.G88G	AAATCCTCCAAAT	.	163.0	7.0	242.0	1.0	.	205
PAPPA2	60676	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	176759013	176759013	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	PAPPA2	NM_020318	exon18	c.G4784A	p.C1595Y	TGGTGTGTGAGCC	.	156.0	44.0	136.0	0.0	.	548
PGBD5	79605	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	230468774	230468774	+	Silent	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	PGBD5	NM_001258311	exon5	c.C1089T	p.C363C	CAAGCCGCAGCAG	.	57.0	34.0	44.0	0.0	.	93
PGR	5241	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	11	100996842	100996842	+	Nonsense_Mutation	SNP	A	A	C	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	PGR	NM_000926	exon2	c.T1685G	p.L562X	TGAGGTAATGACT	.	102.0	19.0	112.0	0.0	.	652
PLAU	5328	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	75673403	75673403	+	Silent	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	PLAU	NM_002658	exon7	c.C567T	p.N189N	CGAGAACCAGCCC	.	161.0	85.0	164.0	1.0	.	118
RNF2	6045	broad.mit.edu;bcgsc.ca;mdanderson.org	37	1	185067215	185067215	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	RNF2	NM_007212	exon5	c.G476T	p.G159V	AGCGAGGCAAGAA	.	117.0	15.0	80.0	1.0	.	658
SCAPER	49855	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	77025616	77025616	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	SCAPER	NM_020843	exon15	c.G1976A	p.R659H	CTCTGACGCTCTT	.	109.0	44.0	117.0	0.0	.	137
SLC26A3	1811	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	107423494	107423494	+	Silent	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	SLC26A3	NM_000111	exon10	c.C1164T	p.F388F	TCCTCTGAATACT	.	166.0	64.0	179.0	0.0	.	94
SLC33A1	9197	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	155571528	155571528	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	SLC33A1	NM_004733	exon1	c.A259G	p.I87V	GGGGAATACCCTG	.	101.0	60.0	117.0	0.0	.	156
SLX4	84464	hgsc.bcm.edu;bcgsc.ca	37	16	3642739	3642739	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	SLX4	NM_032444	exon11	c.C2288A	p.P763H	CCAGGAGGAAGGC	.	54.0	4.0	131.0	0.0	.	94
SOST	50964	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	41836014	41836014	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	SOST	NM_025237	exon1	c.T96A	p.D32E	CGTGGCATCATTC	.	71.0	25.0	100.0	0.0	.	90
SPTBN1	6711	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	54753649	54753649	+	Missense_Mutation	SNP	A	A	T	rs147661901	alternate_allele	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	SPTBN1	NM_003128	exon2	c.A94T	p.N32Y	TGGGACAATGAGA	.	128.0	64.0	137.0	0.0	A|1.000;G|0.000	140
ST6GAL2	84620	broad.mit.edu;mdanderson.org	37	2	107459569	107459569	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ST6GAL2	NM_032528	exon2	c.C865A	p.H289N	GGGGGTGCAGCTG	.	20.0	7.0	18.0	0.0	.	191
STEAP1B	256227	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	22532994	22532994	+	Silent	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	.	NM_001164460	exon3	c.C546T	p.Y182Y	CATTGCGTAAGAC	.	189.0	18.0	156.0	0.0	.	.
TARSL2	123283	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	15	102252128	102252128	+	Missense_Mutation	SNP	G	G	A	rs146271638	byfrequency	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	TARSL2	NM_152334	exon5	c.C767T	p.P256L	ATGGGCGGACCGT	.	163.0	7.0	183.0	0.0	G|1.000;A|0.000	92
TEX10	54881	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	103092435	103092435	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	TEX10	NM_001161584	exon6	c.G1276C	p.V426L	AGAGAACTGTGCA	.	65.0	29.0	72.0	0.0	.	92
TMCC2	9911	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	205238236	205238236	+	Silent	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	TMCC2	NM_014858	exon3	c.G906A	p.Q302Q	CGAGCAGATCAAG	.	491.0	82.0	367.0	0.0	.	91
TMEM184A	202915	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	1594988	1594988	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	TMEM184A	NM_001097620	exon2	c.G133A	p.A45T	AGGGGGCCCCCTG	.	58.0	32.0	53.0	0.0	.	90
TMEM247	388946	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	46707702	46707702	+	Silent	SNP	G	G	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	.	NM_001145051	exon2	c.G276T	p.L92L	AGAGCTGCCCCCG	.	145.0	78.0	132.0	0.0	.	.
TMPRSS11D	9407	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	68691558	68691558	+	Silent	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	TMPRSS11D	NM_004262	exon9	c.C987T	p.V329V	TATTCTGACCTGT	.	130.0	31.0	141.0	0.0	.	91
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	179441674	179441674	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	TTN	NM_001267550	exon324	c.C69388A	p.P23130T	TGACAGGTTCAGA	.	132.0	38.0	121.0	0.0	.	636
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	179485580	179485580	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	TTN	NM_001267550	exon247	c.T45757C	p.Y15253H	TGATGTATTTTGA	.	170.0	36.0	99.0	0.0	.	636
WDR33	55339	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	128477498	128477498	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	WDR33	NM_018383	exon16	c.C2101A	p.P701T	CTTGAGGACCAGA	.	33.0	13.0	52.0	0.0	.	90
ZBED2	79413	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	111312778	111312778	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ZBED2	NM_024508	exon2	c.G271T	p.V91F	CGTTGACCCCAGG	.	38.0	21.0	38.0	0.0	.	91
ZNF709	163051	broad.mit.edu;bcgsc.ca	37	19	12576177	12576177	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ZNF709	NM_152601	exon4	c.G559A	p.E187K	TTCTTTCATGTAT	.	103.0	6.0	101.0	0.0	.	90
ZNF816-ZNF321P	100529240	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	53432442	53432442	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	.	NM_001202473	exon4	c.C416T	p.T139I	CGGTCTGTACTAC	.	148.0	72.0	174.0	0.0	.	.
CNIH2	254263	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	11	66050237	66050238	+	Missense_Mutation	DNP	TG	TG	CT	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	.	.	.	.	p.C62L	ATCTGCTGCCTCC	.	68.0	10.0	156.0	0.0	.	.
MMRN1	22915	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	90816255	90816256	+	Missense_Mutation	DNP	CC	CC	AA	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	CC	CC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	.	.	.	.	p.P45N	TCAGTTCCTCCAA	.	32.0	21.0	76.0	0.0	.	.
