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_SOL	TVarCov_SOL	NTotCov_SOL	NVarCov_SOL	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	.	.	220	83	188	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	.	.	77	14	69	0	.	521
ABCA5	23461	bcgsc.ca	37	17	67260926	67260926	+	Silent	SNP	A	A	G	rs12449649	byfrequency	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ABCA5	NM_018672	exon23	c.T3265C	p.L1089L	.	.	156	6	183	1	A|0.614;G|0.386	93
ABCB6	10058	ucsc.edu;bcgsc.ca	37	2	220081465	220081465	+	Silent	SNP	T	T	C	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ABCB6	NM_005689	exon3	c.A777G	p.P259P	.	.	261	152	183	3	.	153
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	.	.	122	17	129	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	.	.	16	5	17	1	.	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	.	.	300	95	458	1	.	94
AGBL1	123624	broad.mit.edu	37	15	86686955	86686955	+	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	.	.	NM_152336	exon2	c.G3T	p.M1I	.	.	159	12	150	2	.	.
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	.	.	102	52	151	1	.	92
APOA5	116519	hgsc.bcm.edu	37	11	116661338	116661338	+	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	.	APOA5	NM_001166598	exon4	c.G607A	p.G203R	.	.	5	4	7	0	.	90
APOBR	55911	bcgsc.ca	37	16	28507978	28507978	+	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_1	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	APOBR	NM_018690	exon2	c.C1616T	p.A539V	.	.	61	59	144	2	.	90
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	.	.	82	49	151	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	.	.	96	34	94	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	.	.	92	59	117	1	G|1.000;T|0.000	227
ASCC3	10973	bcgsc.ca	37	6	101099464	101099464	+	Missense_Mutation	SNP	G	G	C	rs57534235	byfrequency	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ASCC3	NM_006828	exon19	c.C3047G	p.S1016C	.	.	91	4	143	0	G|0.992;C|0.008	96
ATP6	0	broad.mit.edu;bcgsc.ca	37	MT	9010	9010	+	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	.	.	ENST00000361899	exon1	c.G484A	p.A162T	.	.	8	7	44	0	.	.
ATP9B	374868	bcgsc.ca	37	18	77067171	77067171	+	Silent	SNP	C	C	T	rs34339254	byfrequency	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ATP9B	NM_198531	exon15	c.C1710T	p.F570F	.	.	99	7	164	1	C|0.975;T|0.025	93
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	.	.	153	52	190	1	.	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	.	.	.	7	7	16	0	.	684
AXL	558	broad.mit.edu;bcgsc.ca	37	19	41759546	41759546	+	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	.	AXL	NM_021913	exon17	c.G1969A	p.A657T	.	.	202	7	210	1	.	1403
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	.	.	21	12	32	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	.	.	174	90	199	0	.	294
C1orf127	148345	bcgsc.ca	37	1	11008102	11008102	+	Missense_Mutation	SNP	G	G	A	rs1281018	byfrequency	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	C1orf127	NM_001170754	exon12	c.C2090T	p.A697V	.	.	61	4	114	0	G|0.914;A|0.086	91
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	.	.	256	102	291	0	.	.
C9orf139	401563	bcgsc.ca	37	9	139927624	139927624	+	Missense_Mutation	SNP	C	C	T	rs79892804	byfrequency	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	C9orf139	NM_207511	exon2	c.C109T	p.R37W	.	.	158	6	194	1	C|0.987;T|0.013	90
CCDC132	55610	hgsc.bcm.edu	37	7	92926471	92926471	+	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	.	CCDC132	NM_017667	exon16	c.G1277T	p.G426V	.	.	94	4	90	0	.	90
CCDC3	83643	broad.mit.edu	37	10	13040396	13040396	+	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	.	CCDC3	NM_031455	exon2	c.C491T	p.S164L	.	.	126	5	158	0	.	91
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	.	.	20	7	29	0	.	72
CCHCR1	54535	mdanderson.org	37	6	31122536	31122536	+	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	.	CCHCR1	NM_001105564	exon4	c.G538T	p.A180S	.	.	36	6	39	1	.	91
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	.	.	251	31	138	1	.	92
CDC42BPA	8476	broad.mit.edu;bcgsc.ca	37	1	227192740	227192740	+	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	.	CDC42BPA	NM_003607	exon34	c.C4825T	p.P1609S	.	.	261	9	153	0	.	549
CDRT15P1	94158	broad.mit.edu	37	17	13928634	13928634	+	RNA	SNP	T	T	C	rs77995315	byfrequency;by1000genomes	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	.	.	.	.	.	.	.	.	106	4	100	2	T|0.809;C|0.191	.
CEP97	79598	broad.mit.edu	37	3	101483819	101483819	+	Silent	SNP	C	C	T	rs75383743	byfrequency	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	.	CEP97	NM_024548	exon11	c.C2022T	p.S674S	.	.	89	4	130	0	C|0.997;T|0.003	70
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	.	.	39	28	48	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	.	.	119	6	116	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	.	.	69	10	154	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	.	.	77	70	146	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	.	.	217	21	291	0	.	92
COL3A1	1281	broad.mit.edu	37	2	189873846	189873846	+	Missense_Mutation	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	.	COL3A1	NM_000090	exon48	c.T3722C	p.V1241A	.	.	231	12	161	2	.	581
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	.	.	396	20	308	2	.	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	.	.	173	7	104	0	.	161
CUBN	8029	bcgsc.ca	37	10	16882437	16882437	+	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_1	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	CUBN	NM_001081	exon62	c.G9924C	p.W3308C	.	.	190	7	207	0	.	166
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	.	.	197	17	155	0	.	228
DKK1	22943	broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	54076473	54076473	+	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	.	DKK1	NM_012242	exon4	c.G707A	p.R236H	.	.	183	6	166	0	.	1083
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	.	.	147	6	177	1	.	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	.	.	152	79	225	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	.	.	224	81	180	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	.	.	45	42	87	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	.	.	87	39	127	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	.	.	111	49	119	2	.	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	.	.	142	74	178	0	.	1500
ESRRG	2104	ucsc.edu;bcgsc.ca	37	1	216680496	216680496	+	Missense_Mutation	SNP	C	C	T	rs141423098		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	ESRRG	NM_001243518	exon8	c.G1198A	p.V400I	.	.	327	102	250	3	C|1.000;T|0.000	187
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	.	.	69	23	94	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	.	.	113	18	90	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	.	.	43	13	67	1	.	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	.	.	238	27	230	0	.	1406
FOXJ2	55810	bcgsc.ca	37	12	8192590	8192590	+	Silent	SNP	G	G	C	rs12580580	byfrequency	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	FOXJ2	NM_018416	exon2	c.G162C	p.L54L	.	.	140	8	187	1	G|0.973;C|0.027	230
FRG1	2483	bcgsc.ca	37	4	190862182	190862182	+	Silent	SNP	C	C	T	rs2411530	byfrequency	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	FRG1	NM_004477	exon1	c.C18T	p.Y6Y	.	.	191	7	365	5	C|0.506;T|0.494	90
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	.	.	128	8	96	0	.	90
GINS2	51659	broad.mit.edu	37	16	85712248	85712248	+	Silent	SNP	T	T	G	rs150766271	byfrequency	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	.	GINS2	NM_016095	exon4	c.A330C	p.A110A	.	.	124	4	203	0	T|0.996;G|0.004	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	.	.	238	16	224	0	.	103
GPRIN2	9721	mdanderson.org	37	10	46999178	46999178	+	Missense_Mutation	SNP	A	A	C	rs7090312	byfrequency	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	.	GPRIN2	NM_014696	exon3	c.A298C	p.T100P	.	.	25	6	26	1	A|0.444;C|0.556	90
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	.	.	143	17	161	1	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	.	.	9	6	15	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	.	.	116	63	159	0	.	1
HMGXB4	10042	broad.mit.edu	37	22	35689017	35689017	+	Silent	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	.	HMGXB4	NM_001003681	exon10	c.G1671C	p.V557V	.	.	203	5	292	0	.	272
HOOK3	84376	broad.mit.edu	37	8	42865516	42865516	+	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	.	HOOK3	NM_032410	exon19	c.C1807T	p.R603X	.	.	219	5	195	0	.	154
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	.	.	86	7	129	0	.	90
HTR2B	3357	mdanderson.org	37	2	231973416	231973416	+	Missense_Mutation	SNP	T	T	A	rs6736017	byfrequency;alternate_allele	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	.	HTR2B	NM_000867	exon4	c.A1261T	p.M421L	.	.	228	18	136	0	T|0.967;C|0.033	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	.	WGS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	IGF1R	NM_000875	exon7	c.G1573A	p.V525I	.	.	173	71	198	2	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	.	.	246	72	210	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	.	.	77	8	37	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	.	.	175	72	169	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	.	.	45	5	89	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	.	.	308	62	299	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	.	.	102	34	182	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	.	.	126	60	129	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	.	.	179	22	225	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	.	.	207	75	152	2	C|0.999;T|0.000	137
KRT2	3849	broad.mit.edu	37	12	53045610	53045610	+	Missense_Mutation	SNP	C	C	T	rs74660757	byfrequency	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	.	KRT2	NM_000423	exon1	c.G317A	p.S106N	.	.	124	4	164	0	C|0.993;T|0.007	92
KRTAP4-3	85290	bcgsc.ca	37	17	39324333	39324333	+	Missense_Mutation	SNP	T	T	A	rs12953139	byfrequency	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	KRTAP4-3	NM_033187	exon1	c.A92T	p.Q31L	.	.	48	21	52	0	A|0.046;T|0.954	22
KRTAP5-7	440050	hgsc.bcm.edu	37	11	71238736	71238762	+	In_Frame_Del	DEL	CTGCTGTTCCTCAGGCTGTGGGTCATC	CTGCTGTTCCTCAGGCTGTGGGTCATC	-	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	CTGCTGTTCCTCAGGCTGTGGGTCATC	CTGCTGTTCCTCAGGCTGTGGGTCATC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	KRTAP5-7	NM_001012503	exon1	c.390_416del	p.130_139del	.	.	148	13	176	0	.	68
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	.	.	143	65	158	1	.	92
LHFPL4	375323	broad.mit.edu	37	3	9594219	9594219	+	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	.	LHFPL4	NM_198560	exon2	c.G145A	p.D49N	.	.	116	5	115	0	.	71
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	.	.	235	36	284	2	.	90
MARVELD2	153562	broad.mit.edu	37	5	68728896	68728896	+	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	.	MARVELD2	NM_001038603	exon5	c.G1479T	p.L493F	.	.	83	3	94	0	.	22
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	.	.	158	52	126	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	.	.	54	8	104	0	.	23
MFSD1	64747	bcgsc.ca	37	3	158538056	158538056	+	Silent	SNP	T	T	C	rs4680469	byfrequency	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	MFSD1	NM_022736	exon9	c.T951C	p.L317L	.	.	65	4	113	0	T|0.820;C|0.180	90
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	.	.	170	94	189	1	.	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	.	.	139	39	183	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	.	.	64	16	69	0	.	47
NOTCH1	4851	hgsc.bcm.edu	37	9	139395193	139395193	+	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	.	NOTCH1	NM_017617	exon31	c.C5745T	p.Y1915Y	.	.	8	5	5	0	.	5459
NPAS2	4862	broad.mit.edu	37	2	101607320	101607320	+	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	.	NPAS2	NM_002518	exon19	c.G2097T	p.T699T	.	.	170	5	209	0	.	94
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	.	.	75	8	100	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	.	.	298	22	183	1	.	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	.	.	163	7	242	1	.	205
OMA1	115209	bcgsc.ca	37	1	59002221	59002221	+	Silent	SNP	T	T	C	rs7537470	byfrequency	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	OMA1	NM_145243	exon3	c.A693G	p.E231E	.	.	99	5	222	2	T|0.862;C|0.138	131
OR10G8	219869	bcgsc.ca	37	11	123900967	123900967	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	OR10G8	NM_001004464	exon1	c.638delT	p.I213fs	.	.	296	84	353	1	.	92
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	.	.	156	44	136	0	.	548
PDGFRA	5156	broad.mit.edu	37	4	55152040	55152040	+	Silent	SNP	C	C	T	rs2228230	byfrequency	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	PDGFRA,fibrous_tissue_and_uncertain_origin,gastrointestinal_stromal_tumour,0	PDGFRA	NM_006206	exon18	c.C2472T	p.V824V	.	.	113	4	174	1	C|0.801;T|0.199	9497
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	.	.	57	34	44	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	.	.	102	19	112	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	.	.	161	85	164	1	.	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	.	.	117	15	80	1	.	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	.	.	109	44	117	0	.	137
SLC25A52	147407	broad.mit.edu	37	18	29340564	29340564	+	Missense_Mutation	SNP	T	T	C	rs138259275	byfrequency	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	.	.	NM_001034172	exon1	c.A91G	p.I31V	.	.	90	4	142	0	T|0.998;C|0.002	.
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	.	.	166	64	179	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	.	.	101	60	117	0	.	156
SLC4A9	83697	broad.mit.edu	37	5	139743761	139743761	+	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	.	SLC4A9	NM_001258428	exon10	c.C1449T	p.F483F	.	.	85	3	114	2	.	67
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	.	.	54	4	131	0	.	94
SMARCA2	6595	hgsc.bcm.edu	37	9	2039815	2039815	+	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	.	SMARCA2	NM_139045	exon4	c.G705A	p.Q235Q	.	.	27	5	35	0	.	653
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	.	.	71	25	100	0	.	90
SPATC1	375686	broad.mit.edu	37	8	145095469	145095469	+	Missense_Mutation	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	.	SPATC1	NM_001134374	exon3	c.T767C	p.V256A	.	.	187	7	131	0	.	91
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	.	.	128	64	137	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	.	.	20	7	18	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	.	.	189	18	156	0	.	.
SVEP1	79987	broad.mit.edu	37	9	113173620	113173620	+	Missense_Mutation	SNP	A	A	G	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	.	SVEP1	NM_153366	exon37	c.T6371C	p.I2124T	.	.	113	3	79	0	.	75
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	.	.	163	7	183	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	.	.	65	29	72	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	.	.	491	82	367	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	.	.	58	32	53	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	.	.	145	78	132	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	.	.	130	31	141	0	.	91
TRPM6	140803	bcgsc.ca	37	9	77415284	77415284	+	Silent	SNP	A	A	C	rs7859201	byfrequency	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	TRPM6	NM_017662	exon17	c.T2124G	p.L708L	.	.	245	8	267	2	A|0.532;C|0.468	335
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	.	.	132	38	121	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	.	.	170	36	99	0	.	636
UBA6	55236	broad.mit.edu	37	4	68529631	68529631	+	Missense_Mutation	SNP	C	C	A	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	.	UBA6	NM_018227	exon11	c.G932T	p.C311F	.	.	115	4	128	1	.	90
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	.	.	33	13	52	0	.	90
XRCC6BP1	91419	bcgsc.ca	37	12	58345606	58345606	+	Silent	SNP	T	T	C	rs17120203	byfrequency	TCGA-BW-A5NP-01A-11D-A27I-10	TCGA-BW-A5NP-10A-01D-A27I-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	1c00925b-7328-4db0-b930-04aab2d80719	600ba105-b0f1-4fba-b1ec-0bbfe622e6cf	.	XRCC6BP1	NM_033276	exon4	c.T381C	p.L127L	.	.	137	6	137	0	T|0.861;C|0.139	515
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	.	.	38	21	38	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	.	.	103	6	101	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	.	.	148	72	174	0	.	.
ZZZ3	26009	broad.mit.edu	37	1	78098409	78098409	+	Missense_Mutation	SNP	C	C	T	rs116097859	byfrequency	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	.	ZZZ3	NM_015534	exon5	c.G631A	p.A211T	.	.	109	4	208	0	C|0.999;T|0.001	157
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	.	.	.	.	.	.	.	
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	.	.	.	.	.	.	.	
