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
AADACL3	126767	bcgsc.ca	37	1	12776346	12776346	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AADACL3	NM_001103169	exon1	c.G3T	p.M1I	.	.	472	14	460	0	.	22
AADACL4	343066	hgsc.bcm.edu;broad.mit.edu	37	1	12704616	12704616	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AADACL4	NM_001013630	exon1	c.51delG	p.L17fs	.	.	190	12	155	0	.	68
AASS	10157	hgsc.bcm.edu;broad.mit.edu	37	7	121758669	121758669	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AASS	NM_005763	exon5	c.488delT	p.L163fs	.	.	204	14	168	0	.	92
ABCA13	154664	hgsc.bcm.edu;broad.mit.edu	37	7	48391899	48391899	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ABCA13	NM_152701	exon31	c.10503delA	p.V3501fs	.	.	163	10	124	0	.	521
ABCA13	154664	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	48313397	48313397	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ABCA13	NM_152701	exon17	c.A4134G	p.L1378L	.	.	82	20	66	0	.	521
ABCB4	5244	hgsc.bcm.edu;broad.mit.edu	37	7	87081038	87081038	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ABCB4	NM_018850	exon7	c.609delT	p.F203fs	.	.	183	13	138	0	.	96
ABCC5	10057	hgsc.bcm.edu;broad.mit.edu	37	3	183699624	183699624	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ABCC5	NM_005688	exon8	c.1038delA	p.K346fs	.	.	167	12	107	0	.	137
ABCF1	23	hgsc.bcm.edu;broad.mit.edu	37	6	30553664	30553664	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ABCF1	NM_001025091	exon17	c.1609delA	p.K537fs	.	.	123	10	57	0	.	92
ABL1	25	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	9	133759994	133759995	+	Frame_Shift_Del	DEL	GA	GA	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ABL1	NM_007313	exon11	c.2374_2375del	p.792_792del	.	.	32	0	37	0	.	3810
ABL2	27	hgsc.bcm.edu;broad.mit.edu	37	1	179078242	179078242	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ABL2	NM_007314	exon12	c.2160delG	p.G720fs	.	.	149	10	80	0	.	1081
ACACA	31	hgsc.bcm.edu;broad.mit.edu	37	17	35487101	35487101	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ACACA	NM_198834	exon46	c.5723delG	p.G1908fs	.	.	195	13	202	0	.	154
ACADL	33	hgsc.bcm.edu;broad.mit.edu	37	2	211082784	211082784	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ACADL	NM_001608	exon3	c.276delA	p.K92fs	.	.	189	15	135	0	.	90
ACIN1	22985	hgsc.bcm.edu;broad.mit.edu	37	14	23549379	23549379	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ACIN1	NM_001164814	exon6	c.1339delG	p.A447fs	.	.	161	10	130	0	.	156
ACSS3	79611	hgsc.bcm.edu;broad.mit.edu	37	12	81647384	81647384	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ACSS3	NM_024560	exon15	c.1930delA	p.K644fs	.	.	108	10	94	0	.	71
ACTN4	81	bcgsc.ca	37	19	39191331	39191331	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ACTN4	NM_004924	exon2	c.T254C	p.M85T	.	.	122	5	91	0	.	90
ACVR2B	93	hgsc.bcm.edu;broad.mit.edu	37	3	38519754	38519754	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ACVR2B	NM_001106	exon4	c.493delC	p.P165fs	.	.	149	12	102	0	.	942
ACYP1	97	hgsc.bcm.edu;broad.mit.edu	37	14	75520310	75520310	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ACYP1	NM_001107	exon3	c.137delG	p.G46fs	.	.	151	10	140	0	.	226
ADAM22	53616	hgsc.bcm.edu	37	7	87808298	87808298	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADAM22	NM_021723	exon27	c.2349delT	p.S783fs	.	.	243	16	188	0	.	230
ADAMTS7	11173	broad.mit.edu;bcgsc.ca	37	15	79065508	79065508	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADAMTS7	NM_014272	exon14	c.2048delT	p.M683fs	.	.	529	10	486	0	.	226
ADAMTSL3	57188	bcgsc.ca	37	15	84539616	84539616	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADAMTSL3	NM_207517	exon9	c.T865C	p.F289L	.	.	40	4	37	0	.	1153
ADAMTSL3	57188	hgsc.bcm.edu;broad.mit.edu	37	15	84592778	84592778	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADAMTSL3	NM_207517	exon17	c.2110delC	p.P704fs	.	.	173	11	158	0	.	1153
ADAMTSL4	54507	hgsc.bcm.edu;broad.mit.edu	37	1	150532255	150532255	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADAMTSL4	NM_019032	exon18	c.2962delG	p.G988fs	.	.	165	10	72	0	.	92
ADCY10	55811	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	1	167874253	167874253	+	Silent	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADCY10	NM_018417	exon2	c.C126G	p.V42V	.	.	375	84	167	0	.	493
ADCY1	107	hgsc.bcm.edu;broad.mit.edu	37	7	45743294	45743294	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADCY1	NM_021116	exon16	c.2667delG	p.M889fs	.	.	252	15	220	0	.	95
ADCY6	112	hgsc.bcm.edu;broad.mit.edu	37	12	49170245	49170245	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADCY6	NM_020983	exon7	c.1501delC	p.L501fs	.	.	107	9	132	0	.	90
ADH1B	125	hgsc.bcm.edu;broad.mit.edu	37	4	100231959	100231959	+	Nonsense_Mutation	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADH1B	NM_000668	exon8	c.1066delA	p.I356X	.	.	204	14	166	0	.	136
ADIPOR1	51094	hgsc.bcm.edu;broad.mit.edu	37	1	202917518	202917518	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADIPOR1	NM_015999	exon3	c.172delC	p.Q58fs	.	.	135	10	80	0	.	90
ADRBK1	156	hgsc.bcm.edu;broad.mit.edu	37	11	67048975	67048975	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ADRBK1	NM_001619	exon9	c.693delG	p.Q231fs	.	.	157	10	91	0	.	521
AFG3L2	10939	hgsc.bcm.edu;broad.mit.edu	37	18	12370885	12370885	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AFG3L2	NM_006796	exon3	c.255delA	p.K85fs	.	.	250	17	188	0	.	90
AGFG1	3267	hgsc.bcm.edu;broad.mit.edu	37	2	228418462	228418462	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AGFG1	NM_001135187	exon13	c.1646delC	p.T549fs	.	.	185	12	109	0	.	228
AGK	55750	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	141333731	141333731	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AGK	NM_018238	exon10	c.A619T	p.T207S	.	.	59	19	34	0	.	290
AGL	178	hgsc.bcm.edu;broad.mit.edu	37	1	100380997	100380997	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AGL	NM_000644	exon31	c.4214delA	p.E1405fs	.	.	173	11	162	0	.	92
AGO2	27161	hgsc.bcm.edu;broad.mit.edu	37	8	141595382	141595382	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_012154	exon2	c.51delC	p.P17fs	.	.	183	12	99	0	.	.
AHCTF1	25909	hgsc.bcm.edu;broad.mit.edu	37	1	247007131	247007131	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AHCTF1	NM_015446	exon34	c.6518delA	p.N2173fs	.	.	980	62	661	0	.	97
AHDC1	27245	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	27876868	27876868	+	Silent	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AHDC1	NM_001029882	exon6	c.C1759A	p.R587R	.	.	257	24	236	0	.	90
AHNAK2	113146	hgsc.bcm.edu;broad.mit.edu	37	14	105418454	105418454	+	Frame_Shift_Del	DEL	T	T	-	rs71975166		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AHNAK2	NM_138420	exon7	c.3334delA	p.S1112fs	.	.	181	11	155	0	.	47
AIM1	202	hgsc.bcm.edu;broad.mit.edu	37	6	106973032	106973032	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AIM1	NM_001624	exon3	c.3046delA	p.K1016fs	.	.	203	12	171	0	.	139
AIP	9049	bcgsc.ca	37	11	67258394	67258394	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AIP	NM_003977	exon6	c.C923G	p.A308G	.	.	192	8	125	0	.	90
AKAP3	10566	bcgsc.ca	37	12	4736678	4736678	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AKAP3	NM_006422	exon4	c.A1390G	p.T464A	.	.	141	7	122	0	.	292
AKAP6	9472	hgsc.bcm.edu;broad.mit.edu	37	14	33290855	33290855	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AKAP6	NM_004274	exon13	c.3836delC	p.A1279fs	.	.	158	11	121	0	.	733
AKAP7	9465	hgsc.bcm.edu;broad.mit.edu	37	6	131481221	131481221	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AKAP7	NM_016377	exon3	c.174delT	p.N58fs	.	.	164	10	145	0	.	228
AKAP7	9465	hgsc.bcm.edu;broad.mit.edu	37	6	131540900	131540900	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AKAP7	NM_016377	exon7	c.802delA	p.K268fs	.	.	211	15	247	0	.	228
ALB	213	broad.mit.edu;bcgsc.ca	37	4	74279314	74279314	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ALB	NM_000477	exon8	c.1021delA	p.K341fs	.	.	82	9	104	0	.	96
ALDH3B1	221	bcgsc.ca	37	11	67789293	67789293	+	Splice_Site	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	247	3	257	0	.	.
ALDH4A1	8659	hgsc.bcm.edu;broad.mit.edu	37	1	19213000	19213000	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ALDH4A1	NM_003748	exon4	c.255delT	p.F85fs	.	.	143	13	140	0	.	226
ALG10B	144245	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	12	38714473	38714473	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ALG10B	NM_001013620	exon3	c.880delT	p.F294fs	.	.	335	29	225	0	.	93
ALOX15	246	bcgsc.ca	37	17	4540426	4540426	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ALOX15	NM_001140	exon7	c.935delT	p.L312fs	.	.	53	5	67	0	.	229
ALPK1	80216	broad.mit.edu;bcgsc.ca	37	4	113356326	113356326	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ALPK1	NM_001102406	exon12	c.3057delA	p.S1019fs	.	.	76	8	67	0	.	337
ALPK1	80216	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	4	113356354	113356354	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ALPK1	NM_001102406	exon12	c.G3085A	p.E1029K	.	.	124	20	130	0	.	337
ALPP	250	bcgsc.ca	37	2	233244588	233244588	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ALPP	NM_001632	exon5	c.C599G	p.A200G	.	.	415	13	278	0	.	91
ALS2CL	259173	hgsc.bcm.edu;broad.mit.edu	37	3	46724741	46724741	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ALS2CL	NM_001190707	exon10	c.988delG	p.A330fs	.	.	144	10	115	0	.	155
AMD1	262	hgsc.bcm.edu	37	6	111213937	111213937	+	Splice_Site	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AMD1	NM_001634	exon7	c.616-1G>A	.	.	.	173	7	215	0	.	91
ANAPC2	29882	broad.mit.edu;bcgsc.ca	37	9	140076268	140076268	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANAPC2	NM_013366	exon7	c.1333delG	p.D445fs	.	.	77	8	71	0	.	227
ANK2	287	hgsc.bcm.edu;broad.mit.edu	37	4	114278579	114278579	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANK2	NM_001148	exon38	c.8805delT	p.S2935fs	.	.	166	10	130	0	.	583
ANKAR	150709	hgsc.bcm.edu;broad.mit.edu	37	2	190611122	190611122	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANKAR	NM_144708	exon23	c.4074delA	p.R1358fs	.	.	159	10	147	0	.	72
ANKFN1	162282	hgsc.bcm.edu;broad.mit.edu	37	17	54428181	54428181	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANKFN1	NM_153228	exon4	c.252delA	p.S84fs	.	.	116	10	89	0	.	136
ANKMY1	51281	hgsc.bcm.edu;broad.mit.edu	37	2	241465814	241465814	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANKMY1	NM_016552	exon5	c.735delG	p.G245fs	.	.	186	11	171	0	.	90
ANKRD12	23253	hgsc.bcm.edu;broad.mit.edu	37	18	9279637	9279637	+	Nonsense_Mutation	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANKRD12	NM_015208	exon12	c.5998delT	p.L2000X	.	.	182	12	145	0	.	92
ANKRD20A1	84210	hgsc.bcm.edu	37	9	67934789	67934789	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANKRD20A1	NM_032250	exon4	c.559delA	p.K187fs	.	.	197	12	196	0	.	68
ANKRD20A4	728747	hgsc.bcm.edu	37	9	69386012	69386012	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001098805	exon3	c.449delA	p.E150fs	.	.	92	11	102	0	.	.
ANKRD26	22852	hgsc.bcm.edu;broad.mit.edu	37	10	27324168	27324168	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANKRD26	NM_014915	exon24	c.3211delA	p.S1071fs	.	.	136	10	140	0	.	138
ANKS1B	56899	hgsc.bcm.edu;broad.mit.edu	37	12	99446958	99446958	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_152788	exon17	c.2755delA	p.I919fs	.	.	201	12	187	0	.	.
ANXA2P3	305	ucsc.edu;bcgsc.ca	37	10	66586162	66586162	+	RNA	SNP	C	C	A	rs201740231		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	81	1	56	0	.	.
ANXA6	309	bcgsc.ca	37	5	150506002	150506002	+	Silent	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ANXA6	NM_001155	exon14	c.C1017G	p.A339A	.	.	92	6	49	0	.	22
AP1B1	162	hgsc.bcm.edu;broad.mit.edu	37	22	29736724	29736724	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AP1B1	NM_001127	exon14	c.1919delC	p.P640fs	.	.	137	11	115	0	.	92
AP1G2	8906	hgsc.bcm.edu;broad.mit.edu	37	14	24032654	24032654	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AP1G2	NM_003917	exon14	c.1345delG	p.A449fs	.	.	152	11	169	0	.	45
AP4E1	23431	hgsc.bcm.edu;broad.mit.edu	37	15	51289642	51289642	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AP4E1	NM_007347	exon18	c.2466delA	p.S822fs	.	.	164	11	108	0	.	90
APAF1	317	hgsc.bcm.edu;broad.mit.edu	37	12	99119233	99119233	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	APAF1	NM_181861	exon25	c.3371delG	p.R1124fs	.	.	169	11	130	0	.	229
APBA2	321	hgsc.bcm.edu;broad.mit.edu	37	15	29346583	29346583	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	APBA2	NM_005503	exon3	c.496delC	p.P166fs	.	.	160	10	159	0	.	90
APEX2	27301	hgsc.bcm.edu;broad.mit.edu	37	X	55033694	55033694	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	APEX2	NM_014481	exon6	c.1383delG	p.A461fs	.	.	149	10	122	0	.	659
APOA2	336	hgsc.bcm.edu;broad.mit.edu	37	1	161192790	161192790	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	APOA2	NM_001643	exon3	c.103delT	p.S35fs	.	.	161	10	90	0	.	91
APOD	347	hgsc.bcm.edu;broad.mit.edu	37	3	195295847	195295847	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	APOD	NM_001647	exon5	c.494delA	p.N165fs	.	.	180	11	198	0	.	516
AQR	9716	bcgsc.ca	37	15	35149009	35149009	+	Missense_Mutation	SNP	G	G	T	rs192419915	alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AQR	NM_014691	exon35	c.C4442A	p.P1481Q	.	.	184	6	180	0	G|0.997;A|0.003	135
ARAP1	116985	hgsc.bcm.edu;broad.mit.edu	37	11	72437746	72437746	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARAP1	NM_001040118	exon3	c.428delC	p.P143fs	.	.	137	11	87	0	.	91
ARCN1	372	hgsc.bcm.edu;broad.mit.edu	37	11	118454608	118454608	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARCN1	NM_001655	exon4	c.532delA	p.K178fs	.	.	221	15	190	0	.	90
ARF1	375	hgsc.bcm.edu;broad.mit.edu	37	1	228284858	228284858	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARF1	NM_001024228	exon2	c.43delA	p.K15fs	.	.	165	10	105	0	.	227
ARHGAP10	79658	hgsc.bcm.edu;broad.mit.edu	37	4	148744064	148744064	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARHGAP10	NM_024605	exon3	c.268delT	p.F90fs	.	.	158	10	124	0	.	229
ARHGAP11A	9824	bcgsc.ca	37	15	32928096	32928096	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARHGAP11A	NM_199357	exon11	c.A1463G	p.D488G	.	.	119	4	82	0	.	292
ARHGAP22	58504	hgsc.bcm.edu;broad.mit.edu	37	10	49661399	49661399	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARHGAP22	NM_001256024	exon8	c.984delT	p.F328fs	.	.	194	12	169	0	.	228
ARHGEF1	9138	hgsc.bcm.edu;broad.mit.edu	37	19	42407036	42407036	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARHGEF1	NM_199002	exon18	c.1771delG	p.G591fs	.	.	108	10	102	0	.	293
ARID4A	5926	hgsc.bcm.edu;broad.mit.edu	37	14	58796774	58796774	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARID4A	NM_002892	exon11	c.793delA	p.K265fs	.	.	148	10	167	0	.	231
ARNT2	9915	hgsc.bcm.edu;broad.mit.edu	37	15	80867380	80867380	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARNT2	NM_014862	exon14	c.1442delA	p.E481fs	.	.	166	10	126	0	.	175
ARNT	405	hgsc.bcm.edu;broad.mit.edu	37	1	150808762	150808762	+	Nonsense_Mutation	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ARNT	NM_001668	exon7	c.694delC	p.L232X	.	.	194	12	76	0	.	1085
ASB18	401036	hgsc.bcm.edu;broad.mit.edu	37	2	237103580	237103580	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ASB18	NM_212556	exon6	c.1336delC	p.L446fs	.	.	143	10	132	0	.	227
ASB6	140459	broad.mit.edu;bcgsc.ca	37	9	132404201	132404201	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ASB6	NM_017873	exon1	c.78delG	p.G26fs	.	.	83	8	101	0	.	226
ASIC4	55515	hgsc.bcm.edu;broad.mit.edu	37	2	220402417	220402417	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_182847	exon8	c.1789delG	p.G597fs	.	.	161	10	127	0	.	.
ASPM	259266	hgsc.bcm.edu;broad.mit.edu	37	1	197115430	197115430	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ASPM	NM_001206846	exon1	c.138delG	p.R46fs	.	.	104	9	58	0	.	615
ASPN	54829	hgsc.bcm.edu	37	9	95237024	95237024	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ASPN	NM_001193335	exon2	c.G156T	p.E52D	.	.	98	8	113	0	.	514
ATF4	468	hgsc.bcm.edu;broad.mit.edu	37	22	39918398	39918398	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATF4	NM_001675	exon2	c.847delA	p.K283fs	.	.	230	14	195	0	.	90
ATG14	22863	hgsc.bcm.edu;broad.mit.edu	37	14	55852688	55852688	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATG14	NM_014924	exon5	c.536delA	p.K179fs	.	.	208	16	200	0	.	90
ATG2A	23130	hgsc.bcm.edu;broad.mit.edu	37	11	64665805	64665805	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATG2A	NM_015104	exon33	c.4701delC	p.P1567fs	.	.	142	11	102	0	.	69
ATG2A	23130	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	11	64664282	64664282	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATG2A	NM_015104	exon38	c.G5210T	p.R1737L	.	.	143	27	109	0	.	69
ATG2B	55102	hgsc.bcm.edu;broad.mit.edu	37	14	96807965	96807965	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATG2B	NM_018036	exon6	c.818delA	p.N273fs	.	.	104	10	96	0	.	93
ATG5	9474	hgsc.bcm.edu;broad.mit.edu	37	6	106727570	106727570	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATG5	NM_004849	exon5	c.444delA	p.K148fs	.	.	162	10	182	0	.	153
ATG9A	79065	hgsc.bcm.edu;broad.mit.edu	37	2	220088847	220088847	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATG9A	NM_001077198	exon8	c.1246delG	p.V416fs	.	.	173	11	140	0	.	91
ATN1	1822	hgsc.bcm.edu	37	12	7045900	7045900	+	Missense_Mutation	SNP	G	G	C	rs142238167	byfrequency;alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATN1	NM_001007026	exon5	c.G1470C	p.Q490H	.	.	73	19	91	0	G|0.985;A|0.015	139
ATP10D	57205	hgsc.bcm.edu;broad.mit.edu	37	4	47574996	47574996	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATP10D	NM_020453	exon18	c.3348delT	p.Y1116fs	.	.	208	14	161	0	.	93
ATP11C	286410	hgsc.bcm.edu;broad.mit.edu	37	X	138869386	138869386	+	Nonsense_Mutation	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATP11C	NM_001010986	exon15	c.1547delT	p.L516X	.	.	147	10	151	0	.	198
ATP13A1	57130	hgsc.bcm.edu;broad.mit.edu	37	19	19774122	19774122	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATP13A1	NM_020410	exon1	c.354delG	p.G118fs	.	.	192	12	189	0	.	138
ATP2C2	9914	hgsc.bcm.edu;broad.mit.edu	37	16	84456800	84456800	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATP2C2	NM_014861	exon10	c.850delA	p.K284fs	.	.	163	10	172	0	.	91
ATP2C2	9914	hgsc.bcm.edu;broad.mit.edu	37	16	84486788	84486788	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATP2C2	NM_014861	exon19	c.1876delG	p.G626fs	.	.	150	10	103	0	.	91
ATP8A1	10396	hgsc.bcm.edu;broad.mit.edu	37	4	42588395	42588395	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATP8A1	NM_001105529	exon9	c.693delT	p.F231fs	.	.	180	11	183	0	.	92
ATP8B2	57198	hgsc.bcm.edu;broad.mit.edu	37	1	154318344	154318344	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATP8B2	NM_020452	exon24	c.2862delG	p.M954fs	.	.	201	13	89	0	.	92
ATR	545	hgsc.bcm.edu;broad.mit.edu	37	3	142178110	142178110	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATR	NM_001184	exon43	c.7308delT	p.F2436fs	.	.	140	10	114	0	.	1139
ATR	545	hgsc.bcm.edu;broad.mit.edu	37	3	142281476	142281476	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATR	NM_001184	exon4	c.768delT	p.F256fs	.	.	171	11	130	0	.	1139
ATRX	546	hgsc.bcm.edu;broad.mit.edu	37	X	76938413	76938413	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATRX	NM_000489	exon9	c.2335delA	p.R779fs	.	.	198	12	136	0	.	248
ATXN1	6310	hgsc.bcm.edu;broad.mit.edu	37	6	16327684	16327684	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ATXN1	NM_001128164	exon7	c.858delC	p.P286fs	.	.	337	21	183	0	.	93
ATXN7L2	127002	hgsc.bcm.edu;broad.mit.edu	37	1	110033680	110033680	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	ATXN7L2,NS,carcinoma,-1	ATXN7L2	NM_153340	exon10	c.1495delC	p.P499fs	.	.	164	11	166	0	.	92
AZI2	64343	hgsc.bcm.edu;broad.mit.edu	37	3	28373874	28373874	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	AZI2	NM_001134432	exon6	c.633delA	p.K211fs	.	.	199	16	144	0	.	92
BACE1	23621	hgsc.bcm.edu;broad.mit.edu	37	11	117186306	117186306	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BACE1	NM_138972	exon1	c.206delG	p.G69fs	.	.	168	12	140	0	.	91
BAI2	576	hgsc.bcm.edu;broad.mit.edu	37	1	32196841	32196841	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BAI2	NM_001703	exon29	c.3940delG	p.E1314fs	.	.	180	12	183	0	.	526
BAIAP2L1	55971	hgsc.bcm.edu;broad.mit.edu	37	7	97939854	97939854	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BAIAP2L1	NM_018842	exon9	c.858delC	p.P286fs	.	.	173	13	112	0	.	91
BANK1	55024	bcgsc.ca	37	4	102946503	102946503	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BANK1	NM_017935	exon9	c.T1431C	p.S477S	.	.	91	4	107	0	.	93
BBS2	583	hgsc.bcm.edu;broad.mit.edu	37	16	56534909	56534909	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BBS2	NM_031885	exon11	c.1254delT	p.F418fs	.	.	213	14	191	0	.	91
BCL10	8915	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	85733444	85733444	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BCL10	NM_003921	exon3	c.A568G	p.T190A	.	.	78	15	74	0	.	659
BCL11A	53335	hgsc.bcm.edu;broad.mit.edu	37	2	60688969	60688969	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BCL11A	NM_018014	exon4	c.1078delC	p.L360fs	.	.	149	10	147	0	.	1149
BCL9	607	hgsc.bcm.edu;broad.mit.edu	37	1	147084890	147084890	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BCL9	NM_004326	exon5	c.262delG	p.G88fs	.	.	246	16	108	0	.	707
BICD1	636	bcgsc.ca	37	12	32369392	32369392	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BICD1	NM_001714	exon2	c.A425G	p.E142G	.	.	76	4	53	0	.	153
BIRC6	57448	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	32733177	32733177	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BIRC6	NM_016252	exon51	c.T9831C	p.A3277A	.	.	217	92	167	0	.	233
BIVM-ERCC5	0	bcgsc.ca	37	13	103486900	103486900	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001204425	exon7	c.A1119G	p.K373K	.	.	99	4	59	0	.	.
BMPER	168667	hgsc.bcm.edu;ucsc.edu	37	7	33976996	33976996	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BMPER	NM_133468	exon4	c.C315A	p.C105X	.	.	100	24	109	0	.	92
BRCA2	675	hgsc.bcm.edu;broad.mit.edu	37	13	32907421	32907421	+	Frame_Shift_Del	DEL	A	A	-	rs80359307		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BRCA2	NM_000059	exon10	c.1806delA	p.G602fs	.	.	161	14	163	0	.	3153
BRE	9577	hgsc.bcm.edu;broad.mit.edu	37	2	28521301	28521301	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BRE	NM_199191	exon11	c.1031delA	p.Q344fs	.	.	244	15	156	0	.	228
BRWD3	254065	bcgsc.ca	37	X	79943570	79943570	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BRWD3	NM_153252	exon34	c.A3862G	p.K1288E	.	.	267	8	190	0	.	134
BSN	8927	hgsc.bcm.edu;broad.mit.edu	37	3	49692373	49692373	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BSN	NM_003458	exon5	c.5384delG	p.R1795fs	.	.	166	10	144	0	.	97
BUB1	699	hgsc.bcm.edu;broad.mit.edu	37	2	111406915	111406915	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	BUB1	NM_004336	exon19	c.2243delT	p.F748fs	.	.	244	16	164	0	.	1060
C10orf105	414152	hgsc.bcm.edu;broad.mit.edu	37	10	73476077	73476077	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001168390	exon2	c.18delC	p.P6fs	.	.	180	11	184	0	.	.
C11orf40	143501	hgsc.bcm.edu	37	11	4592708	4592708	+	Missense_Mutation	SNP	C	C	G	rs79804156		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C11orf40	NM_144663	exon4	c.G599C	p.C200S	.	.	126	1	122	0	.	92
C11orf84	144097	hgsc.bcm.edu;broad.mit.edu	37	11	63586276	63586276	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C11orf84	NM_138471	exon5	c.736delC	p.P246fs	.	.	117	10	98	0	.	90
C12orf50	160419	hgsc.bcm.edu;broad.mit.edu	37	12	88390376	88390376	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C12orf50	NM_152589	exon5	c.337delA	p.R113fs	.	.	153	11	152	0	.	93
C12orf65	91574	hgsc.bcm.edu;broad.mit.edu	37	12	123741526	123741526	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C12orf65	NM_001194995	exon3	c.449delA	p.E150fs	.	.	135	10	112	0	.	90
C14orf23	387978	ucsc.edu;bcgsc.ca;mdanderson.org	37	14	29242038	29242038	+	RNA	SNP	T	T	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C14orf23	.	.	.	.	.	.	108	32	117	0	.	23
C15orf55	256646	bcgsc.ca	37	15	34640379	34640379	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C15orf55	NM_175741	exon2	c.G226C	p.G76R	.	.	95	4	106	0	.	206
C16orf96	342346	bcgsc.ca	37	16	4625336	4625336	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001145011	exon5	c.855delC	p.V285fs	.	.	59	6	77	0	.	.
C19orf44	84167	broad.mit.edu;bcgsc.ca	37	19	16612295	16612295	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C19orf44	NM_032207	exon2	c.692delA	p.E231fs	.	.	76	8	87	0	.	90
C19orf66	55337	bcgsc.ca	37	19	10202279	10202279	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_018381	exon7	c.T616C	p.S206P	.	.	129	5	121	2	.	.
C1D	10438	hgsc.bcm.edu;broad.mit.edu	37	2	68270088	68270088	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C1D	NM_001190263	exon6	c.359delA	p.N120fs	.	.	164	10	122	0	.	186
C1orf173	127254	hgsc.bcm.edu;broad.mit.edu	37	1	75112405	75112405	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C1orf173	NM_001002912	exon3	c.189delA	p.K63fs	.	.	208	14	166	0	.	94
C1orf200	644997	hgsc.bcm.edu;broad.mit.edu	37	1	9713912	9713912	+	RNA	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	182	11	169	0	.	.
C1orf226	400793	bcgsc.ca	37	1	162351912	162351912	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C1orf226	NM_001135240	exon2	c.T350C	p.L117P	.	.	121	4	61	0	.	1
C1orf228	339541	hgsc.bcm.edu;broad.mit.edu	37	1	45155414	45155414	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001145636	exon2	c.45delT	p.S15fs	.	.	181	15	128	0	.	.
C1orf27	54953	hgsc.bcm.edu;broad.mit.edu	37	1	186367553	186367553	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C1orf27	NM_017847	exon10	c.889delA	p.K297fs	.	.	161	14	103	0	.	23
C21orf49	54067	ucsc.edu	37	21	34169318	34169318	+	RNA	SNP	G	G	T	rs28662924		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	83	11	89	0	G|1.000	.
C22orf28	51493	hgsc.bcm.edu;broad.mit.edu	37	22	32784009	32784009	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C22orf28	NM_014306	exon12	c.1488delA	p.K496fs	.	.	199	12	193	0	.	90
C2CD3	26005	hgsc.bcm.edu;broad.mit.edu	37	11	73803501	73803501	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C2CD3	NM_015531	exon19	c.3477delC	p.P1159fs	.	.	178	11	137	0	.	75
C2orf71	388939	hgsc.bcm.edu;broad.mit.edu	37	2	29294038	29294038	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C2orf71	NM_001029883	exon1	c.3090delC	p.P1030fs	.	.	192	12	130	0	.	91
C3	718	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	6718129	6718129	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C3	NM_000064	exon4	c.C480T	p.G160G	.	.	98	31	91	0	.	95
C3orf20	84077	ucsc.edu;bcgsc.ca	37	3	14799024	14799024	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C3orf20	NM_032137	exon13	c.A2087G	p.E696G	.	.	341	79	263	1	.	94
C3orf22	152065	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	126270923	126270923	+	Silent	SNP	G	G	A	rs34760151	byfrequency;alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C3orf22	NM_152533	exon3	c.C132T	p.P44P	.	.	113	30	93	0	G|0.687;C|0.313	90
C3orf35	339883	hgsc.bcm.edu;broad.mit.edu	37	3	37476531	37476531	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C3orf35	NM_178339	exon6	c.423delA	p.T141fs	.	.	140	10	96	0	.	112
C4A	720	hgsc.bcm.edu	37	6	31964732	31964732	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C4A	NM_007293	exon29	c.3803delC	p.A1268fs	.	.	151	10	91	0	.	44
C4orf47	441054	hgsc.bcm.edu;broad.mit.edu	37	4	186353241	186353241	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001114357	exon2	c.206delT	p.I69fs	.	.	165	11	176	0	.	.
C5orf42	65250	hgsc.bcm.edu;broad.mit.edu	37	5	37108533	37108533	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C5orf42	NM_023073	exon51	c.9279delA	p.K3093fs	.	.	165	13	123	0	.	94
C5orf51	285636	hgsc.bcm.edu;broad.mit.edu	37	5	41909898	41909898	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C5orf51	NM_175921	exon3	c.258delT	p.D86fs	.	.	172	13	129	0	.	68
C6orf47	57827	hgsc.bcm.edu;broad.mit.edu	37	6	31627213	31627213	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C6orf47	NM_021184	exon1	c.512delG	p.G171fs	.	.	158	10	108	0	.	91
C7orf10	79783	hgsc.bcm.edu;broad.mit.edu	37	7	40899967	40899967	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C7orf10	NM_001193311	exon15	c.1305delG	p.P435fs	.	.	200	14	212	0	.	24
C7orf31	136895	hgsc.bcm.edu;broad.mit.edu	37	7	25200833	25200833	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	C7orf31	NM_138811	exon4	c.358delA	p.S120fs	.	.	229	16	146	0	.	90
C9orf53	51198	hgsc.bcm.edu	37	9	21967542	21967542	+	RNA	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	179	11	123	0	.	.
CAB39L	81617	hgsc.bcm.edu;broad.mit.edu	37	13	49957037	49957037	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CAB39L	NM_030925	exon2	c.10delA	p.M4fs	.	.	142	10	105	0	.	90
CABP2	51475	hgsc.bcm.edu;broad.mit.edu	37	11	67290137	67290137	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CABP2	NM_016366	exon2	c.93delC	p.P31fs	.	.	141	10	40	0	.	91
CACNA2D1	781	hgsc.bcm.edu;broad.mit.edu	37	7	81624216	81624216	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CACNA2D1	NM_000722	exon20	c.1702delA	p.T568fs	.	.	240	16	216	0	.	96
CADM1	23705	bcgsc.ca	37	11	115099840	115099840	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CADM1	NM_014333	exon5	c.A714G	p.E238E	.	.	72	6	54	0	.	92
CALHM1	255022	hgsc.bcm.edu;broad.mit.edu	37	10	105215220	105215220	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CALHM1	NM_001001412	exon2	c.840delC	p.P280fs	.	.	173	11	186	0	.	91
CAMK1D	57118	hgsc.bcm.edu	37	10	12856212	12856212	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CAMK1D	NM_153498	exon7	c.660delT	p.P220fs	.	.	192	13	160	0	.	334
CAMK2A	815	hgsc.bcm.edu;broad.mit.edu	37	5	149636381	149636381	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CAMK2A	NM_171825	exon5	c.286delG	p.E96fs	.	.	178	12	158	0	.	333
CAND1	55832	bcgsc.ca	37	12	67698891	67698891	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CAND1	NM_018448	exon10	c.T1443C	p.I481I	.	.	59	4	48	0	.	516
CAND2	23066	bcgsc.ca	37	3	12856858	12856858	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CAND2	NM_001162499	exon8	c.C1225G	p.P409A	.	.	298	10	260	0	.	72
CAPN2	824	hgsc.bcm.edu;broad.mit.edu	37	1	223934727	223934727	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CAPN2	NM_001748	exon5	c.589delG	p.G197fs	.	.	196	14	135	0	.	523
CAPRIN1	4076	hgsc.bcm.edu;broad.mit.edu	37	11	34074178	34074178	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CAPRIN1	NM_203364	exon2	c.211delA	p.K71fs	.	.	151	10	131	0	.	91
CATSPERG	57828	bcgsc.ca	37	19	38828049	38828049	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CATSPERG	NM_021185	exon2	c.A175G	p.S59G	.	.	99	5	83	0	.	92
CBLB	868	hgsc.bcm.edu;broad.mit.edu	37	3	105452913	105452913	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CBLB	NM_170662	exon9	c.1143delA	p.K381fs	.	.	255	15	217	0	.	849
CCDC110	256309	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	4	186379943	186379943	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CCDC110	NM_152775	exon6	c.1798delA	p.S600fs	.	.	101	10	118	0	.	90
CCDC11	220136	hgsc.bcm.edu;broad.mit.edu	37	18	47787507	47787507	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CCDC11	NM_145020	exon3	c.400delA	p.T134fs	.	.	156	11	91	0	.	93
CCDC144A	9720	broad.mit.edu;bcgsc.ca	37	17	16676005	16676005	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_014695	exon17	c.4233delT	p.P1411fs	.	.	980	40	1021	0	.	.
CCDC144B	284047	bcgsc.ca	37	17	18454927	18454927	+	RNA	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CCDC144B	.	.	.	.	.	.	97	12	123	0	.	70
CCDC14	64770	hgsc.bcm.edu;broad.mit.edu	37	3	123675247	123675247	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CCDC14	NM_022757	exon3	c.258delT	p.F86fs	.	.	189	12	98	0	.	68
CCDC168	643677	bcgsc.ca	37	13	103388221	103388221	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001146197	exon4	c.A14826C	p.K4942N	.	.	137	5	77	1	.	.
CCDC168	643677	hgsc.bcm.edu	37	13	103394930	103394930	+	Nonsense_Mutation	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001146197	exon4	c.8117delT	p.L2706X	.	.	144	10	95	0	.	.
CCDC168	643677	hgsc.bcm.edu;broad.mit.edu	37	13	103383806	103383806	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001146197	exon4	c.19241delA	p.N6414fs	.	.	207	13	132	0	.	.
CCDC171	203238	hgsc.bcm.edu;broad.mit.edu	37	9	15623298	15623298	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_173550	exon7	c.709delA	p.K237fs	.	.	182	11	148	0	.	.
CCDC174	51244	hgsc.bcm.edu;broad.mit.edu	37	3	14709638	14709638	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_016474	exon9	c.902delA	p.Q301fs	.	.	223	16	153	0	.	.
CCDC33	80125	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	15	74560701	74560701	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CCDC33	NM_025055	exon5	c.G448A	p.A150T	.	.	160	42	131	0	.	95
CCDC38	120935	hgsc.bcm.edu;broad.mit.edu	37	12	96292432	96292432	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CCDC38	NM_182496	exon6	c.447delA	p.K149fs	.	.	317	19	313	0	.	91
CCDC60	160777	hgsc.bcm.edu;broad.mit.edu	37	12	119968734	119968734	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CCDC60	NM_178499	exon13	c.1417delA	p.K473fs	.	.	164	10	149	0	.	93
CCDC80	151887	hgsc.bcm.edu;broad.mit.edu	37	3	112335650	112335650	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CCDC80	NM_199511	exon5	c.2228delT	p.F743fs	.	.	160	11	125	0	.	92
CCP110	9738	broad.mit.edu;bcgsc.ca	37	16	19539229	19539229	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CCP110	NM_001199022	exon2	c.26delA	p.E9fs	.	.	149	14	144	0	.	90
CD163L1	283316	bcgsc.ca	37	12	7521548	7521548	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CD163L1	NM_174941	exon16	c.A4053G	p.K1351K	.	.	61	5	43	0	.	100
CD207	50489	ucsc.edu;bcgsc.ca	37	2	71062835	71062835	+	Silent	SNP	T	T	C	rs79763209		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CD207	NM_015717	exon1	c.A72G	p.R24R	.	.	250	34	216	1	.	46
CD5	921	broad.mit.edu;bcgsc.ca	37	11	60886419	60886419	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CD5	NM_014207	exon4	c.433delC	p.P145fs	.	.	74	8	76	0	.	91
CD68	968	bcgsc.ca	37	17	7484813	7484813	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CD68	NM_001251	exon6	c.C1049A	p.A350D	.	.	103	4	111	0	.	90
CD86	942	hgsc.bcm.edu;broad.mit.edu	37	3	121838287	121838287	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CD86	NM_175862	exon7	c.896delA	p.E299fs	.	.	177	11	166	0	.	92
CDC73	79577	hgsc.bcm.edu;broad.mit.edu	37	1	193111006	193111006	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDC73	NM_024529	exon7	c.539delA	p.E180fs	.	.	153	10	103	0	.	1009
CDCP2	200008	ucsc.edu;bcgsc.ca	37	1	54605320	54605320	+	Missense_Mutation	SNP	G	G	C	rs75306471		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDCP2	NM_201546	exon4	c.C1223G	p.P408R	.	.	91	13	112	0	G|0.999;C|0.001	69
CDH16	1014	hgsc.bcm.edu;broad.mit.edu	37	16	66947073	66947073	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDH16	NM_004062	exon9	c.1015delC	p.R339fs	.	.	128	10	121	0	.	93
CDH20	28316	hgsc.bcm.edu;broad.mit.edu	37	18	59167713	59167713	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDH20	NM_031891	exon3	c.639delT	p.Y213fs	.	.	164	11	108	0	.	155
CDH9	1007	hgsc.bcm.edu;broad.mit.edu	37	5	26988315	26988315	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDH9	NM_016279	exon2	c.126delA	p.K42fs	.	.	208	14	210	0	.	99
CDK5RAP2	55755	hgsc.bcm.edu;broad.mit.edu	37	9	123152026	123152026	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDK5RAP2	NM_018249	exon37	c.5618delA	p.N1873fs	.	.	157	11	156	0	.	229
CDKL2	8999	hgsc.bcm.edu;broad.mit.edu	37	4	76551036	76551036	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDKL2	NM_003948	exon2	c.137delA	p.K46fs	.	.	128	11	103	0	.	454
CDR1	1038	hgsc.bcm.edu;broad.mit.edu	37	X	139866088	139866088	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDR1	NM_004065	exon1	c.444delT	p.F148fs	.	.	214	14	136	0	.	130
CDV3	55573	bcgsc.ca	37	3	133306750	133306750	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CDV3	NM_017548	exon5	c.A637G	p.M213V	.	.	208	6	145	0	.	90
CEACAM20	125931	hgsc.bcm.edu	37	19	45016992	45016992	+	Splice_Site	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CEACAM20	NM_001102600	exon9	c.1447+1A>G	.	.	.	228	8	210	0	.	67
CEACAM3	1084	hgsc.bcm.edu;broad.mit.edu	37	19	42314895	42314895	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CEACAM3	NM_001815	exon6	c.653delC	p.A218fs	.	.	167	13	133	0	.	91
CEBPZ	10153	hgsc.bcm.edu;broad.mit.edu	37	2	37449611	37449611	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CEBPZ	NM_005760	exon4	c.1977delA	p.K659fs	.	.	193	12	151	0	.	91
CECR1	51816	hgsc.bcm.edu;broad.mit.edu	37	22	17690247	17690247	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CECR1	NM_017424	exon1	c.321delA	p.K107fs	.	.	163	10	163	0	.	91
CELA2A	63036	hgsc.bcm.edu;broad.mit.edu	37	1	15783592	15783592	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CELA2A	NM_033440	exon2	c.52delG	p.G18fs	.	.	240	15	208	0	.	92
CELSR2	1952	hgsc.bcm.edu;broad.mit.edu	37	1	109810210	109810210	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CELSR2	NM_001408	exon16	c.6054delC	p.L2018fs	.	.	146	11	158	0	.	526
CENPE	1062	hgsc.bcm.edu;broad.mit.edu	37	4	104095902	104095902	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CENPE	NM_001813	exon16	c.1638delA	p.K546fs	.	.	239	18	198	0	.	277
CENPI	2491	bcgsc.ca	37	X	100357276	100357276	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CENPI	NM_006733	exon3	c.T240C	p.A80A	.	.	85	4	73	0	.	130
CEP120	153241	hgsc.bcm.edu;broad.mit.edu	37	5	122714083	122714083	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CEP120	NM_153223	exon16	c.2143delA	p.T715fs	.	.	134	9	110	0	.	91
CEP41	95681	hgsc.bcm.edu;broad.mit.edu	37	7	130039927	130039927	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_018718	exon10	c.926delA	p.K309fs	.	.	116	11	62	0	.	.
CFTR	1080	broad.mit.edu;bcgsc.ca	37	7	117188770	117188770	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CFTR	NM_000492	exon10	c.1285delT	p.F429fs	.	.	603	11	480	0	.	518
CHD1L	9557	bcgsc.ca	37	1	146731521	146731521	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHD1L	NM_004284	exon6	c.A525G	p.E175E	.	.	199	7	118	0	.	231
CHD2	1106	hgsc.bcm.edu;broad.mit.edu	37	15	93540530	93540530	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHD2	NM_001271	exon30	c.3782delG	p.W1261fs	.	.	171	12	145	0	.	229
CHD3	1107	bcgsc.ca	37	17	7806316	7806316	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHD3	NM_001005271	exon22	c.T3609C	p.N1203N	.	.	105	6	111	0	.	228
CHD5	26038	hgsc.bcm.edu;broad.mit.edu	37	1	6202277	6202277	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHD5	NM_015557	exon15	c.2347delG	p.D783fs	.	.	158	10	149	0	.	719
CHD8	57680	hgsc.bcm.edu;broad.mit.edu	37	14	21876929	21876929	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHD8	NM_001170629	exon11	c.2420delA	p.N807fs	.	.	165	11	119	0	.	277
CHGB	1114	hgsc.bcm.edu;broad.mit.edu	37	20	5904345	5904345	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHGB	NM_001819	exon4	c.1555delG	p.G519fs	.	.	167	10	97	0	.	96
CHM	1121	hgsc.bcm.edu;broad.mit.edu	37	X	85218838	85218838	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHM	NM_000390	exon5	c.534delA	p.K178fs	.	.	182	11	140	0	.	131
CHMP6	79643	hgsc.bcm.edu;broad.mit.edu	37	17	78969500	78969500	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHMP6	NM_024591	exon4	c.290delA	p.E97fs	.	.	200	14	163	0	.	91
CHPF2	54480	hgsc.bcm.edu;broad.mit.edu	37	7	150932436	150932436	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHPF2	NM_019015	exon2	c.566delC	p.A189fs	.	.	107	10	97	0	.	91
CHRNA4	1137	hgsc.bcm.edu;broad.mit.edu	37	20	61981195	61981195	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CHRNA4	NM_000744	exon5	c.1568delC	p.P523fs	.	.	150	10	69	0	.	91
CIB3	117286	hgsc.bcm.edu;bcgsc.ca	37	19	16275656	16275656	+	Missense_Mutation	SNP	C	C	T	rs200526470		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CIB3	NM_054113	exon5	c.G415A	p.G139R	.	.	171	12	159	0	.	131
CIB3	117286	hgsc.bcm.edu;broad.mit.edu	37	19	16275654	16275654	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CIB3	NM_054113	exon5	c.417delG	p.G139fs	.	.	172	15	157	0	.	131
CIDEC	63924	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	9911858	9911858	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CIDEC	NM_001199623	exon4	c.395delC	p.P132fs	.	.	132	13	93	0	.	90
CLASP1	23332	hgsc.bcm.edu;broad.mit.edu	37	2	122182819	122182819	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLASP1	NM_001142273	exon23	c.2132delG	p.G711fs	.	.	147	10	104	0	.	91
CLCA2	9635	hgsc.bcm.edu;broad.mit.edu	37	1	86916286	86916286	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLCA2	NM_006536	exon12	c.2025delT	p.Y675fs	.	.	128	11	79	0	.	155
CLEC18A	348174	broad.mit.edu;bcgsc.ca	37	16	69985289	69985289	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLEC18A	NM_001271197	exon2	c.20delC	p.S7fs	.	.	491	11	362	0	.	68
CLEC4F	165530	hgsc.bcm.edu;broad.mit.edu	37	2	71043906	71043906	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLEC4F	NM_173535	exon4	c.607delA	p.S203fs	.	.	173	11	149	0	.	95
CLK2	1196	hgsc.bcm.edu;broad.mit.edu	37	1	155240721	155240721	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLK2	NM_003993	exon2	c.48delG	p.G16fs	.	.	175	12	93	0	.	333
CLTC	1213	hgsc.bcm.edu;broad.mit.edu	37	17	57756782	57756782	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLTC	NM_004859	exon18	c.2821delA	p.K941fs	.	.	191	13	170	0	.	835
CLTCL1	8218	hgsc.bcm.edu	37	22	19189001	19189001	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLTCL1	NM_001835	exon23	c.G3604T	p.G1202X	.	.	102	7	85	0	.	230
CLTCL1	8218	hgsc.bcm.edu	37	22	19189005	19189005	+	Splice_Site	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLTCL1	NM_001835	exon24	c.3602-2A>G	.	.	.	92	10	80	0	.	230
CLTCL1	8218	hgsc.bcm.edu;broad.mit.edu	37	22	19209481	19209481	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CLTCL1	NM_001835	exon16	c.2554delA	p.R852fs	.	.	166	12	113	0	.	230
CMBL	134147	hgsc.bcm.edu;broad.mit.edu	37	5	10282342	10282342	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CMBL	NM_138809	exon5	c.525delT	p.F175fs	.	.	178	13	109	0	.	69
CMYA5	202333	hgsc.bcm.edu;broad.mit.edu	37	5	79031144	79031144	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CMYA5	NM_153610	exon2	c.6556delT	p.F2186fs	.	.	151	13	99	0	.	77
CNGB1	1258	hgsc.bcm.edu;broad.mit.edu	37	16	57949179	57949179	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CNGB1	NM_001297	exon23	c.2278delC	p.L760fs	.	.	135	10	136	0	.	137
CNGB1	1258	hgsc.bcm.edu;broad.mit.edu	37	16	57953155	57953155	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CNGB1	NM_001297	exon20	c.1805delC	p.P602fs	.	.	232	14	203	0	.	137
CNOT11	55571	hgsc.bcm.edu;broad.mit.edu	37	2	101885729	101885729	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_017546	exon7	c.1387delA	p.K463fs	.	.	162	10	130	0	.	.
CNOT1	23019	hgsc.bcm.edu;broad.mit.edu	37	16	58577533	58577533	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CNOT1	NM_206999	exon31	c.4412delA	p.N1471fs	.	.	152	11	95	0	.	95
CNOT6L	246175	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	4	78697453	78697453	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CNOT6L	NM_144571	exon2	c.99delA	p.K33fs	.	.	129	11	124	0	.	67
CNTFR	1271	hgsc.bcm.edu;broad.mit.edu	37	9	34556395	34556395	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CNTFR	NM_147164	exon7	c.626delA	p.N209fs	.	.	141	10	91	0	.	518
COBL	23242	hgsc.bcm.edu	37	7	51098573	51098573	+	Missense_Mutation	SNP	T	T	A	rs76265922	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COBL	NM_015198	exon9	c.A1440T	p.E480D	.	.	149	19	135	0	T|0.988;A|0.012	95
COG2	22796	hgsc.bcm.edu;broad.mit.edu	37	1	230800279	230800279	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COG2	NM_007357	exon5	c.431delA	p.E144fs	.	.	180	11	88	0	.	90
COG4	25839	bcgsc.ca	37	16	70514950	70514950	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COG4	NM_015386	exon19	c.A2333G	p.D778G	.	.	89	5	67	0	.	90
COL11A2	1302	hgsc.bcm.edu;broad.mit.edu	37	6	33132109	33132109	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL11A2	NM_080680	exon65	c.5005delG	p.A1669fs	.	.	177	13	127	0	.	95
COL11A2	1302	hgsc.bcm.edu;broad.mit.edu	37	6	33139837	33139837	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL11A2	NM_080680	exon41	c.3032delC	p.P1011fs	.	.	201	12	98	0	.	95
COL12A1	1303	hgsc.bcm.edu;broad.mit.edu	37	6	75818818	75818818	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL12A1	NM_004370	exon52	c.8016delA	p.K2672fs	.	.	174	11	176	0	.	142
COL18A1	80781	bcgsc.ca	37	21	46916981	46916981	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL18A1	NM_030582	exon30	c.3135delC	p.S1045fs	.	.	38	4	76	0	.	90
COL19A1	1310	hgsc.bcm.edu;broad.mit.edu	37	6	70610184	70610184	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL19A1	NM_001858	exon4	c.220delA	p.K74fs	.	.	165	11	165	0	.	156
COL1A2	1278	bcgsc.ca	37	7	94040253	94040253	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL1A2	NM_000089	exon22	c.T1250C	p.M417T	.	.	144	5	103	0	.	521
COL1A2	1278	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	7	94043219	94043219	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL1A2	NM_000089	exon28	c.G1625T	p.G542V	.	.	185	20	157	0	.	521
COL4A2	1284	bcgsc.ca	37	13	111155774	111155774	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL4A2	NM_001846	exon43	c.G4084C	p.G1362R	.	.	202	6	98	0	.	95
COL5A2	1290	bcgsc.ca	37	2	189951464	189951464	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL5A2	NM_000393	exon9	c.A678G	p.L226L	.	.	63	4	30	0	.	92
COL6A1	1291	hgsc.bcm.edu;broad.mit.edu	37	21	47418082	47418082	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL6A1	NM_001848	exon23	c.1572delC	p.F524fs	.	.	142	10	91	0	.	91
COL6A3	1293	hgsc.bcm.edu;broad.mit.edu	37	2	238277223	238277223	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL6A3	NM_004369	exon10	c.4883delC	p.P1628fs	.	.	129	10	117	0	.	526
COL6A3	1293	ucsc.edu;bcgsc.ca	37	2	238285641	238285641	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL6A3	NM_004369	exon7	c.C2844T	p.V948V	.	.	226	68	141	2	.	526
COL7A1	1294	hgsc.bcm.edu;broad.mit.edu	37	3	48610137	48610137	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL7A1	NM_000094	exon87	c.6867delA	p.K2289fs	.	.	193	12	137	0	.	160
COL7A1	1294	hgsc.bcm.edu;broad.mit.edu	37	3	48631052	48631052	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL7A1	NM_000094	exon3	c.344delG	p.G115fs	.	.	168	12	151	0	.	160
COL9A1	1297	hgsc.bcm.edu;broad.mit.edu	37	6	71010083	71010083	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL9A1	NM_001851	exon3	c.95delC	p.P32fs	.	.	166	12	135	0	.	94
COL9A2	1298	hgsc.bcm.edu;broad.mit.edu	37	1	40773421	40773421	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COL9A2	NM_001852	exon18	c.908delC	p.P303fs	.	.	179	11	181	0	.	92
COPB2	9276	hgsc.bcm.edu;broad.mit.edu	37	3	139096994	139096994	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COPB2	NM_004766	exon5	c.393delA	p.K131fs	.	.	130	10	111	0	.	92
COPS6	10980	hgsc.bcm.edu;broad.mit.edu	37	7	99687281	99687281	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COPS6	NM_006833	exon3	c.246delG	p.E82fs	.	.	201	12	202	0	.	658
CORO7-PAM16	100529144	hgsc.bcm.edu;broad.mit.edu	37	16	4391385	4391385	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001201479	exon29	c.2978delC	p.P993fs	.	.	203	15	195	0	.	.
COX5B	1329	hgsc.bcm.edu;broad.mit.edu	37	2	98264520	98264520	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	COX5B	NM_001862	exon4	c.339delC	p.C113fs	.	.	216	13	185	0	.	226
CP	1356	hgsc.bcm.edu;broad.mit.edu	37	3	148927955	148927955	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CP	NM_000096	exon3	c.606delA	p.K202fs	.	.	139	10	112	0	.	515
CPLX2	10814	hgsc.bcm.edu;broad.mit.edu	37	5	175305939	175305939	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CPLX2	NM_006650	exon4	c.60delG	p.L20fs	.	.	196	13	163	0	.	227
CPNE6	9362	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	14	24542776	24542776	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CPNE6	NM_006032	exon3	c.237delT	p.Y79fs	.	.	100	10	128	0	.	93
CPNE7	27132	hgsc.bcm.edu;broad.mit.edu	37	16	89649911	89649911	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CPNE7	NM_014427	exon4	c.557delG	p.R186fs	.	.	150	10	137	0	.	90
CPSF3L	54973	hgsc.bcm.edu;broad.mit.edu	37	1	1256455	1256455	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CPSF3L	NM_001256456	exon4	c.65delG	p.G22fs	.	.	203	12	195	0	.	90
CREB1	1385	hgsc.bcm.edu;broad.mit.edu	37	2	208442310	208442310	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CREB1	NM_134442	exon8	c.812delC	p.S271fs	.	.	184	12	139	0	.	946
CREBBP	1387	hgsc.bcm.edu;broad.mit.edu	37	16	3777763	3777763	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CREBBP	NM_004380	exon31	c.7285delG	p.D2429fs	.	.	124	11	83	0	.	1807
CRIPT	9419	hgsc.bcm.edu;broad.mit.edu	37	2	46851000	46851000	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CRIPT	NM_014171	exon4	c.235delA	p.K79fs	.	.	157	10	109	0	.	90
CRTAM	56253	hgsc.bcm.edu;broad.mit.edu	37	11	122722405	122722405	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CRTAM	NM_019604	exon3	c.198delA	p.L66fs	.	.	187	14	138	0	.	91
CS	1431	hgsc.bcm.edu;broad.mit.edu	37	12	56676682	56676682	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CS	NM_004077	exon5	c.361delT	p.W121fs	.	.	136	10	105	0	.	226
CSF1	1435	hgsc.bcm.edu;broad.mit.edu	37	1	110466713	110466713	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CSF1	NM_000757	exon6	c.1470delC	p.S490fs	.	.	181	11	136	0	.	91
CSGALNACT1	55790	hgsc.bcm.edu;broad.mit.edu	37	8	19263296	19263296	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CSGALNACT1	NM_018371	exon10	c.1594delA	p.T532fs	.	.	168	11	151	0	.	70
CSN2	1447	bcgsc.ca	37	4	70824773	70824773	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CSN2	NM_001891	exon3	c.A93G	p.E31E	.	.	41	4	32	0	.	90
CSNK1G1	53944	bcgsc.ca	37	15	64508813	64508813	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CSNK1G1	NM_022048	exon5	c.T392C	p.L131P	.	.	85	4	112	0	.	319
CSPG4	1464	hgsc.bcm.edu;broad.mit.edu	37	15	75980311	75980311	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CSPG4	NM_001897	exon3	c.3095delG	p.G1032fs	.	.	134	10	115	0	.	229
CTIF	9811	bcgsc.ca	37	18	46284308	46284308	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CTIF	NM_014772	exon8	c.603delG	p.P201fs	.	.	51	6	80	0	.	156
CTIF	9811	hgsc.bcm.edu;broad.mit.edu	37	18	46288021	46288021	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CTIF	NM_001142397	exon10	c.1338delG	p.E446fs	.	.	142	11	109	0	.	156
CTTNBP2	83992	broad.mit.edu	37	7	117398002	117398002	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CTTNBP2	NM_033427	exon11	c.T3195C	p.G1065G	.	.	33	4	59	0	.	94
CUL7	9820	bcgsc.ca	37	6	43014300	43014300	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CUL7	NM_001168370	exon11	c.C2689G	p.Q897E	.	.	443	9	246	0	.	229
CUL9	23113	hgsc.bcm.edu;broad.mit.edu	37	6	43172517	43172517	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CUL9	NM_015089	exon22	c.4371delC	p.S1457fs	.	.	174	11	100	0	.	529
CWC15	51503	bcgsc.ca	37	11	94699507	94699507	+	Splice_Site	SNP	A	A	T	rs200166995		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	185	1	198	0	.	.
CWF19L2	143884	bcgsc.ca	37	11	107197734	107197734	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CWF19L2	NM_152434	exon18	c.A2587G	p.K863E	.	.	74	4	65	0	.	68
CWH43	80157	bcgsc.ca	37	4	49063874	49063874	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CWH43	NM_025087	exon16	c.T2067A	p.H689Q	.	.	152	5	151	0	.	93
CYFIP2	26999	hgsc.bcm.edu	37	5	156721858	156721858	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CYFIP2	NM_001037332	exon4	c.G274C	p.A92P	.	.	259	11	213	0	.	22
CYFIP2	26999	hgsc.bcm.edu	37	5	156721868	156721868	+	Splice_Site	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CYFIP2	NM_001037333	exon4	c.282+2G>A	.	.	.	249	14	213	0	.	22
CYFIP2	26999	hgsc.bcm.edu;bcgsc.ca	37	5	156721863	156721863	+	Silent	SNP	T	T	C	rs200051515		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CYFIP2	NM_001037332	exon4	c.T279C	p.I93I	.	.	251	3	208	0	.	22
CYLC1	1538	broad.mit.edu;bcgsc.ca	37	X	83128981	83128981	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	CYLC1,NS,malignant_melanoma,+1	CYLC1	NM_021118	exon4	c.1265delA	p.E422fs	.	.	61	7	63	0	.	112
CYP4B1	1580	hgsc.bcm.edu;broad.mit.edu	37	1	47284387	47284387	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CYP4B1	NM_001099772	exon12	c.1440delC	p.D480fs	.	.	156	10	163	0	.	92
CYTB	0	broad.mit.edu	37	MT	15591	15591	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	ENST00000361789	exon1	c.G845T	p.R282L	.	.	15	7	15	0	.	.
CYTH3	9265	bcgsc.ca	37	7	6210573	6210573	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	CYTH3	NM_004227	exon8	c.T599C	p.L200P	.	.	152	6	94	0	.	227
DACH1	1602	hgsc.bcm.edu;broad.mit.edu	37	13	72440861	72440861	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DACH1	NM_080759	exon1	c.47delC	p.P16fs	.	.	180	11	182	0	.	135
DCAF8L1	139425	hgsc.bcm.edu;broad.mit.edu	37	X	27997984	27997984	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DCAF8L1	NM_001017930	exon1	c.1468delC	p.H490fs	.	.	168	10	143	0	.	112
DCBLD2	131566	hgsc.bcm.edu;broad.mit.edu	37	3	98544174	98544174	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DCBLD2	NM_080927	exon4	c.608delT	p.L203fs	.	.	134	10	103	0	.	92
DCDC5	100506627	hgsc.bcm.edu;broad.mit.edu	37	11	30921144	30921144	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DCDC5	NM_020869	exon15	c.2021delA	p.K674fs	.	.	198	12	131	0	.	23
DCHS1	8642	hgsc.bcm.edu;broad.mit.edu	37	11	6647877	6647877	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DCHS1	NM_003737	exon15	c.6270delC	p.P2090fs	.	.	164	10	119	0	.	73
DCLRE1C	64421	hgsc.bcm.edu;broad.mit.edu	37	10	14950883	14950883	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DCLRE1C	NM_001033855	exon14	c.1603delC	p.Q535fs	.	.	135	12	102	0	.	228
DCTN2	10540	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	12	57926541	57926541	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DCTN2	NM_001261412	exon10	c.833delT	p.L278fs	.	.	156	16	144	0	.	23
DDIT4L	115265	hgsc.bcm.edu;broad.mit.edu	37	4	101108955	101108955	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DDIT4L	NM_145244	exon3	c.461delT	p.F154fs	.	.	183	13	180	0	.	91
DDX11L10	100287029	bcgsc.ca	37	16	64384	64384	+	Silent	SNP	C	C	G	rs11490464	bycluster;byhapmap	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	170	19	130	0	.	.
DDX42	11325	hgsc.bcm.edu;broad.mit.edu	37	17	61877936	61877936	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DDX42	NM_203499	exon6	c.580delA	p.K194fs	.	.	193	15	136	0	.	230
DDX49	54555	hgsc.bcm.edu;broad.mit.edu	37	19	19030629	19030629	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DDX49	NM_019070	exon1	c.79delC	p.P27fs	.	.	166	10	143	0	.	227
DDX51	317781	bcgsc.ca	37	12	132627295	132627295	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DDX51	NM_175066	exon3	c.648delC	p.H216fs	.	.	53	5	66	0	.	227
DDX52	11056	hgsc.bcm.edu;broad.mit.edu	37	17	35988606	35988606	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DDX52	NM_007010	exon6	c.858delT	p.F286fs	.	.	143	11	102	0	.	228
DDX52	11056	hgsc.bcm.edu;broad.mit.edu	37	17	36002258	36002258	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DDX52	NM_007010	exon2	c.167delC	p.P56fs	.	.	183	11	188	0	.	228
DDX58	23586	hgsc.bcm.edu;broad.mit.edu	37	9	32488833	32488833	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DDX58	NM_014314	exon7	c.852delA	p.K284fs	.	.	190	13	143	0	.	230
DENND4A	10260	hgsc.bcm.edu;broad.mit.edu	37	15	65983623	65983623	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DENND4A	NM_001144823	exon23	c.3306delA	p.K1102fs	.	.	121	10	121	0	.	229
DENND4B	9909	hgsc.bcm.edu	37	1	153907287	153907287	+	Missense_Mutation	SNP	G	G	C	rs199597671		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DENND4B	NM_014856	exon18	c.C2722G	p.Q908E	.	.	169	13	102	0	.	69
DENND4B	9909	mdanderson.org	37	1	153907297	153907297	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DENND4B	NM_014856	exon18	c.G2712A	p.Q904Q	.	.	177	26	100	0	.	69
DENND6A	201627	hgsc.bcm.edu;broad.mit.edu	37	3	57620465	57620465	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_152678	exon13	c.1164delA	p.K388fs	.	.	165	14	128	0	.	.
DEPDC1B	55789	hgsc.bcm.edu;broad.mit.edu	37	5	59893603	59893603	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DEPDC1B	NM_018369	exon11	c.1567delA	p.R523fs	.	.	164	11	108	0	.	91
DES	1674	hgsc.bcm.edu;broad.mit.edu	37	2	220286238	220286238	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DES	NM_001927	exon6	c.1200delG	p.V400fs	.	.	107	10	91	0	.	514
DFNA5	1687	hgsc.bcm.edu;broad.mit.edu	37	7	24738821	24738821	+	Nonsense_Mutation	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DFNA5	NM_001127453	exon10	c.1315delC	p.L439X	.	.	312	22	229	0	.	91
DGCR8	54487	hgsc.bcm.edu;broad.mit.edu	37	22	20094164	20094164	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DGCR8	NM_022720	exon11	c.1939delA	p.K647fs	.	.	236	14	197	0	.	90
DGKZ	8525	hgsc.bcm.edu;broad.mit.edu	37	11	46396358	46396358	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DGKZ	NM_001105540	exon19	c.2131delC	p.P711fs	.	.	161	10	97	0	.	676
DHX30	22907	hgsc.bcm.edu;broad.mit.edu	37	3	47884619	47884619	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DHX30	NM_138615	exon9	c.813delG	p.V271fs	.	.	180	12	148	0	.	228
DHX32	55760	hgsc.bcm.edu;broad.mit.edu	37	10	127542640	127542640	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DHX32	NM_018180	exon4	c.982delA	p.R328fs	.	.	157	10	149	0	.	290
DHX34	9704	hgsc.bcm.edu;broad.mit.edu	37	19	47884149	47884149	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DHX34	NM_014681	exon15	c.3059delC	p.T1020fs	.	.	161	11	106	0	.	231
DHX40	79665	hgsc.bcm.edu	37	17	57656854	57656854	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DHX40	NM_024612	exon9	c.1095delC	p.F365fs	.	.	13	10	4	0	.	226
DHX57	90957	hgsc.bcm.edu;broad.mit.edu	37	2	39033812	39033812	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DHX57	NM_198963	exon22	c.3705delT	p.F1235fs	.	.	185	12	127	0	.	228
DIEXF	27042	hgsc.bcm.edu;broad.mit.edu	37	1	210010321	210010321	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DIEXF	NM_014388	exon6	c.827delC	p.T276fs	.	.	162	11	111	0	.	91
DIP2A	23181	hgsc.bcm.edu;broad.mit.edu	37	21	47977529	47977529	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DIP2A	NM_015151	exon31	c.3661delC	p.P1221fs	.	.	126	11	124	0	.	24
DLC1	10395	hgsc.bcm.edu;broad.mit.edu	37	8	13356655	13356655	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DLC1	NM_182643	exon2	c.926delA	p.K309fs	.	.	163	10	188	0	.	657
DMRTB1	63948	hgsc.bcm.edu	37	1	53925136	53925136	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DMRTB1	NM_033067	exon1	c.10delA	p.K4fs	.	.	176	11	185	0	.	92
DMXL2	23312	bcgsc.ca	37	15	51914663	51914663	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DMXL2	NM_001174117	exon1	c.C80T	p.P27L	.	.	161	6	129	0	.	99
DMXL2	23312	hgsc.bcm.edu;broad.mit.edu	37	15	51914662	51914662	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DMXL2	NM_001174117	exon1	c.81delC	p.P27fs	.	.	157	10	129	0	.	99
DNAH10	196385	hgsc.bcm.edu;broad.mit.edu	37	12	124289391	124289391	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNAH10	NM_207437	exon17	c.2437delT	p.F813fs	.	.	161	10	149	0	.	95
DNAH14	127602	hgsc.bcm.edu;broad.mit.edu	37	1	225328686	225328686	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNAH14	NM_001373	exon27	c.4420delA	p.K1474fs	.	.	160	10	89	0	.	23
DNAH6	1768	hgsc.bcm.edu;broad.mit.edu	37	2	84861633	84861633	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNAH6	NM_001370	exon30	c.4521delG	p.M1507fs	.	.	144	10	101	0	.	69
DNAH6	1768	hgsc.bcm.edu;broad.mit.edu	37	2	84913642	84913642	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNAH6	NM_001370	exon44	c.7098delT	p.Y2366fs	.	.	254	16	251	0	.	69
DNAJC22	79962	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	49743118	49743118	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNAJC22	NM_024902	exon2	c.A463G	p.I155V	.	.	86	18	54	0	.	159
DNM3	26052	hgsc.bcm.edu;broad.mit.edu	37	1	172356459	172356459	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DNM3	NM_015569	exon19	c.2245delC	p.P749fs	.	.	158	11	82	0	.	90
DOCK1	1793	bcgsc.ca	37	10	128829990	128829990	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DOCK1	NM_001380	exon17	c.C1638T	p.D546D	.	.	107	4	106	0	.	698
DOCK5	80005	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	8	25240190	25240190	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DOCK5	NM_024940	exon40	c.4027delA	p.K1343fs	.	.	78	10	74	0	.	71
DOCK8	81704	broad.mit.edu;bcgsc.ca	37	9	441952	441952	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DOCK8	NM_203447	exon42	c.5433delG	p.E1811fs	.	.	69	9	67	0	.	517
DONSON	29980	hgsc.bcm.edu;broad.mit.edu	37	21	34954281	34954281	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DONSON	NM_017613	exon7	c.1127delA	p.K376fs	.	.	165	11	197	0	.	91
DOT1L	84444	hgsc.bcm.edu;broad.mit.edu	37	19	2191141	2191141	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DOT1L	NM_032482	exon5	c.395delC	p.S132fs	.	.	160	10	157	0	.	132
DPP10	57628	bcgsc.ca	37	2	116447448	116447448	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DPP10	NM_001178034	exon7	c.A539G	p.E180G	.	.	71	5	57	0	.	142
DPP3	10072	hgsc.bcm.edu;broad.mit.edu	37	11	66252728	66252728	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DPP3	NM_130443	exon3	c.355delC	p.P119fs	.	.	111	10	105	0	.	46
DRD3	1814	bcgsc.ca	37	3	113858352	113858352	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DRD3	NM_033663	exon5	c.C718A	p.Q240K	.	.	218	7	191	0	.	93
DSC2	1824	hgsc.bcm.edu;broad.mit.edu	37	18	28649035	28649035	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DSC2	NM_024422	exon15	c.2333delA	p.N778fs	.	.	158	11	120	0	.	517
DSCAM	1826	hgsc.bcm.edu;broad.mit.edu	37	21	41452224	41452224	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DSCAM	NM_001271534	exon25	c.4275delG	p.G1425fs	.	.	184	11	184	0	.	101
DSG3	1830	hgsc.bcm.edu;broad.mit.edu	37	18	29037066	29037066	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DSG3	NM_001944	exon3	c.195delA	p.S65fs	.	.	140	10	88	0	.	98
DSG4	147409	hgsc.bcm.edu;broad.mit.edu	37	18	28986275	28986275	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DSG4	NM_001134453	exon12	c.1872delA	p.S624fs	.	.	181	12	157	0	.	177
DSN1	79980	bcgsc.ca	37	20	35386959	35386959	+	Splice_Site	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DSN1	NM_024918	exon8	c.650+2T>C	.	.	.	62	4	42	0	.	92
DST	667	hgsc.bcm.edu;broad.mit.edu	37	6	56434717	56434717	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DST	NM_015548	exon35	c.5946delA	p.K1982fs	.	.	179	12	87	0	.	523
DTNBP1	84062	hgsc.bcm.edu;broad.mit.edu	37	6	15615504	15615504	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DTNBP1	NM_183040	exon6	c.482delA	p.N161fs	.	.	252	18	164	0	.	90
DUOX2	50506	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	45386375	45386375	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DUOX2	NM_014080	exon34	c.C4620T	p.H1540H	.	.	171	50	126	0	.	95
DYNC1H1	1778	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	102489191	102489191	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DYNC1H1	NM_001376	exon43	c.A8611G	p.I2871V	.	.	125	22	128	0	.	98
DYRK1A	1859	hgsc.bcm.edu;broad.mit.edu	37	21	38852951	38852951	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DYRK1A	NM_001396	exon4	c.339delA	p.A113fs	.	.	110	10	101	0	.	792
DYSF	8291	broad.mit.edu;bcgsc.ca	37	2	71908149	71908149	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	DYSF	NM_001130987	exon54	c.6082delT	p.L2028fs	.	.	73	7	72	0	.	158
ECM1	1893	hgsc.bcm.edu;broad.mit.edu	37	1	150484838	150484838	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ECM1	NM_001202858	exon8	c.1175delC	p.T392fs	.	.	230	14	100	0	.	92
EDAR	10913	hgsc.bcm.edu;broad.mit.edu	37	2	109546604	109546604	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EDAR	NM_022336	exon3	c.146delC	p.P49fs	.	.	260	17	198	0	.	92
EFCAB13	124989	bcgsc.ca	37	17	45451902	45451902	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_152347	exon12	c.A942G	p.G314G	.	.	92	4	76	0	.	.
EFCAB13	124989	hgsc.bcm.edu;broad.mit.edu	37	17	45468832	45468832	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_152347	exon15	c.1612delA	p.K538fs	.	.	161	10	134	0	.	.
EFTUD2	9343	hgsc.bcm.edu;broad.mit.edu	37	17	42929803	42929803	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EFTUD2	NM_004247	exon26	c.2689delT	p.S897fs	.	.	157	13	157	0	.	91
EGFR	1956	hgsc.bcm.edu;broad.mit.edu	37	7	55220290	55220290	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EGFR	NM_201283	exon6	c.680delC	p.S227fs	.	.	180	11	160	0	.	44910
EHBP1	23301	bcgsc.ca	37	2	62934345	62934345	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EHBP1	NM_001142616	exon2	c.A19G	p.R7G	.	.	158	6	159	0	.	154
EIF2A	83939	hgsc.bcm.edu;broad.mit.edu	37	3	150299510	150299510	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EIF2A	NM_032025	exon12	c.1603delA	p.K535fs	.	.	190	13	178	0	.	22
EIF3M	10480	hgsc.bcm.edu;broad.mit.edu	37	11	32610663	32610663	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EIF3M	NM_006360	exon4	c.420delC	p.I140fs	.	.	108	10	95	0	.	155
ELF1	1997	hgsc.bcm.edu;broad.mit.edu	37	13	41523943	41523943	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ELF1	NM_172373	exon5	c.528delA	p.K176fs	.	.	271	17	214	0	.	227
ELOVL4	6785	hgsc.bcm.edu;broad.mit.edu	37	6	80626356	80626356	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ELOVL4	NM_022726	exon6	c.914delA	p.K305fs	.	.	229	14	226	0	.	92
ELOVL7	79993	hgsc.bcm.edu;mdanderson.org	37	5	60050627	60050627	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ELOVL7	NM_001104558	exon8	c.C670T	p.Q224X	.	.	112	33	82	0	.	90
EML6	400954	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	2	55040425	55040425	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001039753	exon2	c.C254T	p.P85L	.	.	127	39	99	0	.	.
EP300	2033	hgsc.bcm.edu;broad.mit.edu	37	22	41574679	41574679	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EP300	NM_001429	exon31	c.6964delC	p.P2322fs	.	.	154	11	118	0	.	2011
EP400	57634	hgsc.bcm.edu;broad.mit.edu	37	12	132502833	132502833	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EP400	NM_015409	exon21	c.4189delA	p.K1397fs	.	.	160	11	148	0	.	520
EPB41L3	23136	hgsc.bcm.edu;broad.mit.edu	37	18	5428316	5428316	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EPB41L3	NM_012307	exon9	c.1061delG	p.G354fs	.	.	160	10	123	0	.	95
EPHA5	2044	bcgsc.ca	37	4	66467955	66467955	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EPHA5	NM_004439	exon3	c.T314C	p.M105T	.	.	32	4	41	0	.	1430
EPN1	29924	hgsc.bcm.edu;broad.mit.edu	37	19	56206189	56206189	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001130071	exon10	c.1620delC	p.S540fs	.	.	189	13	158	0	.	.
ERG	2078	hgsc.bcm.edu;broad.mit.edu	37	21	39755389	39755389	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ERG	NM_001136154	exon12	c.1397delG	p.G466fs	.	.	150	10	131	0	.	848
ERO1L	30001	hgsc.bcm.edu;broad.mit.edu	37	14	53119839	53119839	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ERO1L	NM_014584	exon12	c.1003delA	p.I335fs	.	.	143	10	142	0	.	90
ETV1	2115	hgsc.bcm.edu;broad.mit.edu	37	7	14027750	14027750	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ETV1	NM_001163149	exon3	c.94delA	p.R32fs	.	.	185	12	189	0	.	659
EXOC2	55770	hgsc.bcm.edu;broad.mit.edu	37	6	556513	556513	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EXOC2	NM_018303	exon18	c.1903delG	p.V635fs	.	.	244	15	182	0	.	662
EXOSC10	5394	broad.mit.edu;bcgsc.ca	37	1	11128120	11128120	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	EXOSC10	NM_001001998	exon24	c.2572delA	p.I858fs	.	.	111	11	88	0	.	116
F2RL1	2150	bcgsc.ca	37	5	76129056	76129056	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	F2RL1	NM_005242	exon2	c.T624C	p.P208P	.	.	438	12	351	1	.	226
F8A2	474383	hgsc.bcm.edu	37	X	154612857	154612857	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001007523	exon1	c.1094delC	p.S365fs	.	.	235	14	200	0	.	.
FAM115C	285966	broad.mit.edu;bcgsc.ca	37	7	143400355	143400355	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM115C	NM_173678	exon2	c.268delG	p.G90fs	.	.	522	24	360	0	.	68
FAM120AOS	158293	hgsc.bcm.edu;broad.mit.edu	37	9	96209929	96209929	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM120AOS	NM_198841	exon3	c.735delA	p.K245fs	.	.	158	12	150	0	.	90
FAM135A	57579	hgsc.bcm.edu;broad.mit.edu	37	6	71191751	71191751	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM135A	NM_001162529	exon8	c.717delT	p.R239fs	.	.	157	11	144	0	.	90
FAM157A	728262	hgsc.bcm.edu	37	3	197880164	197880164	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001145248	exon2	c.G243A	p.Q81Q	.	.	284	28	282	0	.	.
FAM157B	100132403	hgsc.bcm.edu	37	9	141107561	141107561	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001145249	exon2	c.G243A	p.Q81Q	.	.	235	27	221	0	.	.
FAM160A1	729830	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	4	152571011	152571011	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001109977	exon11	c.1818delC	p.G606fs	.	.	113	12	144	0	.	.
FAM184B	27146	bcgsc.ca	37	4	17654515	17654515	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM184B	NM_015688	exon11	c.A2129G	p.K710R	.	.	226	6	210	0	.	23
FAM184B	27146	hgsc.bcm.edu;broad.mit.edu	37	4	17660011	17660011	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM184B	NM_015688	exon10	c.1999delC	p.L667fs	.	.	158	10	147	0	.	23
FAM186A	121006	hgsc.bcm.edu;broad.mit.edu	37	12	50748485	50748485	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM186A	NM_001145475	exon4	c.2130delA	p.K710fs	.	.	152	10	114	0	.	68
FAM187B	148109	hgsc.bcm.edu;broad.mit.edu	37	19	35715793	35715793	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM187B	NM_152481	exon2	c.1045delG	p.A349fs	.	.	190	12	148	0	.	92
FAM207A	85395	bcgsc.ca	37	21	46359986	46359986	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_058190	exon1	c.14delG	p.R5fs	.	.	43	5	61	0	.	.
FAM21B	55747	hgsc.bcm.edu;broad.mit.edu	37	10	47915896	47915896	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM21B	NM_018232	exon15	c.1303delA	p.K435fs	.	.	192	16	202	0	.	23
FAM22D	728130	bcgsc.ca	37	10	89118054	89118054	+	RNA	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM22D	.	.	.	.	.	.	1713	73	1531	2	.	22
FAM45A	404636	bcgsc.ca	37	10	120896028	120896028	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM45A	NM_207009	exon9	c.T943A	p.F315I	.	.	513	12	433	0	.	91
FAM65B	9750	hgsc.bcm.edu;broad.mit.edu	37	6	24843580	24843580	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM65B	NM_014722	exon14	c.1430delG	p.G477fs	.	.	178	11	104	0	.	91
FAM71B	153745	hgsc.bcm.edu;broad.mit.edu	37	5	156592606	156592606	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM71B	NM_130899	exon1	c.574delG	p.D192fs	.	.	266	17	211	0	.	96
FAM71D	161142	bcgsc.ca	37	14	67665015	67665015	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM71D	NM_173526	exon3	c.T137C	p.M46T	.	.	136	5	122	0	.	23
FAM72B	653820	broad.mit.edu;bcgsc.ca	37	1	120838006	120838006	+	Splice_Site	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAM72B	.	.	.	.	.	.	1167	22	752	0	.	68
FANCA	2175	bcgsc.ca	37	16	89849481	89849481	+	Silent	SNP	G	G	T	rs139276494	alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	FANCA,NS,carcinoma,-2	FANCA	NM_000135	exon16	c.C1500A	p.P500P	.	.	279	7	258	0	G|1.000;A|0.000	1130
FANCI	55215	hgsc.bcm.edu;broad.mit.edu	37	15	89803947	89803947	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FANCI	NM_001113378	exon4	c.161delC	p.S54fs	.	.	150	10	93	0	.	92
FANCI	55215	hgsc.bcm.edu;broad.mit.edu	37	15	89837107	89837107	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FANCI	NM_001113378	exon23	c.2335delA	p.K779fs	.	.	182	11	103	0	.	92
FARP2	9855	hgsc.bcm.edu;broad.mit.edu	37	2	242373660	242373660	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FARP2	NM_014808	exon10	c.955delT	p.F319fs	.	.	161	12	128	0	.	93
FASN	2194	broad.mit.edu;bcgsc.ca	37	17	80041652	80041652	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FASN	NM_004104	exon30	c.5214delG	p.G1738fs	.	.	68	8	75	0	.	90
FAT1	2195	hgsc.bcm.edu;broad.mit.edu	37	4	187539266	187539266	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAT1	NM_005245	exon10	c.8474delG	p.G2825fs	.	.	133	11	155	0	.	34
FAT1	2195	hgsc.bcm.edu;broad.mit.edu	37	4	187628769	187628769	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAT1	NM_005245	exon2	c.2213delT	p.F738fs	.	.	127	10	124	0	.	34
FAT3	120114	hgsc.bcm.edu;broad.mit.edu	37	11	92533028	92533028	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FAT3	NM_001008781	exon9	c.6849delC	p.N2283fs	.	.	120	10	86	0	.	73
FBXO46	23403	hgsc.bcm.edu;broad.mit.edu	37	19	46216117	46216117	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FBXO46	NM_001080469	exon2	c.637delG	p.V213fs	.	.	130	10	131	0	.	159
FBXO47	494188	broad.mit.edu;bcgsc.ca	37	17	37093513	37093513	+	Nonsense_Mutation	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FBXO47	NM_001008777	exon11	c.1274delT	p.L425X	.	.	67	8	79	0	.	90
FCGBP	8857	bcgsc.ca	37	19	40368396	40368396	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FCGBP	NM_003890	exon28	c.C12952A	p.R4318S	.	.	492	12	368	1	.	98
FCGR2A	2212	bcgsc.ca	37	1	161479746	161479746	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FCGR2A	NM_001136219	exon4	c.T501G	p.H167Q	.	.	1161	20	610	2	.	91
FER1L6	654463	hgsc.bcm.edu;broad.mit.edu	37	8	125115501	125115501	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FER1L6	NM_001039112	exon39	c.5240delA	p.Q1747fs	.	.	188	12	94	0	.	100
FER1L6	654463	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	8	125103757	125103757	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FER1L6	NM_001039112	exon34	c.C4485T	p.H1495H	.	.	208	122	99	0	.	100
FFAR4	338557	bcgsc.ca	37	10	95338962	95338962	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_181745	exon3	c.A743G	p.E248G	.	.	80	4	53	0	.	.
FFAR4	338557	hgsc.bcm.edu;broad.mit.edu	37	10	95347278	95347278	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_181745	exon4	c.1046delT	p.I349fs	.	.	199	12	170	0	.	.
FGF13	2258	ucsc.edu;bcgsc.ca	37	X	137717737	137717737	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FGF13	NM_001139500	exon6	c.G512A	p.R171H	.	.	168	60	118	1	.	626
FIP1L1	81608	hgsc.bcm.edu;broad.mit.edu	37	4	54265950	54265950	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FIP1L1	NM_030917	exon10	c.759delA	p.T253fs	.	.	138	11	116	0	.	1083
FLNA	2316	hgsc.bcm.edu;broad.mit.edu	37	X	153596402	153596402	+	Nonsense_Mutation	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FLNA	NM_001456	exon3	c.430delC	p.L144X	.	.	182	11	123	0	.	599
FLOT1	10211	hgsc.bcm.edu;broad.mit.edu	37	6	30698207	30698207	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FLOT1	NM_005803	exon11	c.1087delC	p.Q363fs	.	.	211	14	122	0	.	90
FN1	2335	hgsc.bcm.edu;broad.mit.edu	37	2	216230250	216230250	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FN1	NM_212482	exon43	c.7122delA	p.K2374fs	.	.	151	11	163	0	.	584
FOSL2	2355	hgsc.bcm.edu;broad.mit.edu	37	2	28635091	28635091	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FOSL2	NM_005253	exon4	c.757delG	p.G253fs	.	.	139	11	93	0	.	712
FOXD4L1	200350	hgsc.bcm.edu;broad.mit.edu	37	2	114257385	114257385	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FOXD4L1	NM_012184	exon1	c.552delC	p.D184fs	.	.	181	11	126	0	.	84
FPGT-TNNI3K	100526835	hgsc.bcm.edu;broad.mit.edu	37	1	74930379	74930379	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001199327	exon24	c.2485delA	p.K829fs	.	.	144	10	128	0	.	.
FREM2	341640	hgsc.bcm.edu;broad.mit.edu	37	13	39265691	39265691	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FREM2	NM_207361	exon1	c.4210delC	p.P1404fs	.	.	158	10	89	0	.	100
FRG1B	284802	bcgsc.ca	37	20	29624070	29624070	+	RNA	SNP	G	G	A	rs79198850		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FRG1B	.	.	.	.	.	.	349	27	147	12	.	22
FRG1B	284802	bcgsc.ca	37	20	29628278	29628278	+	RNA	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FRG1B	.	.	.	.	.	.	678	29	565	8	.	22
FRMD7	90167	hgsc.bcm.edu;broad.mit.edu	37	X	131211907	131211907	+	Nonsense_Mutation	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FRMD7	NM_194277	exon12	c.2138delT	p.L713X	.	.	237	14	181	0	.	228
FSCB	84075	bcgsc.ca	37	14	44975511	44975511	+	Missense_Mutation	SNP	G	G	T	rs45478391	byfrequency;alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FSCB	NM_032135	exon1	c.C680A	p.P227Q	.	.	152	5	102	0	G|0.852;A|0.148	587
FSIP1	161835	hgsc.bcm.edu;broad.mit.edu	37	15	39910069	39910069	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FSIP1	NM_152597	exon11	c.1566delT	p.F522fs	.	.	203	13	126	0	.	517
FST	10468	hgsc.bcm.edu;broad.mit.edu	37	5	52779494	52779494	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FST	NM_013409	exon3	c.438delA	p.L146fs	.	.	215	15	139	0	.	90
FSTL4	23105	hgsc.bcm.edu;broad.mit.edu	37	5	132553042	132553042	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FSTL4	NM_015082	exon13	c.1487delA	p.N496fs	.	.	184	12	138	0	.	91
FUS	2521	hgsc.bcm.edu;broad.mit.edu	37	16	31202283	31202283	+	Splice_Site	DEL	G	G	-	rs35711706		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	FUS	NM_001170937	exon14	c.1382-1G>-	.	.	.	135	10	111	0	.	1719
GABRA4	2557	hgsc.bcm.edu;broad.mit.edu	37	4	46979532	46979532	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GABRA4	NM_000809	exon4	c.389delC	p.P130fs	.	.	194	12	185	0	.	156
GALNT4	8693	hgsc.bcm.edu;broad.mit.edu	37	12	89918093	89918093	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_003774	exon1	c.234delG	p.G78fs	.	.	165	10	144	0	.	.
GALR1	2587	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	18	74962810	74962810	+	Silent	SNP	G	G	A	rs5375	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GALR1	NM_001480	exon1	c.G306A	p.V102V	.	.	182	55	127	0	G|0.936;T|0.064	522
GBP7	388646	hgsc.bcm.edu;broad.mit.edu	37	1	89613446	89613446	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GBP7	NM_207398	exon8	c.1169delA	p.K390fs	.	.	185	11	122	0	.	92
GCC2	9648	hgsc.bcm.edu;broad.mit.edu	37	2	109088158	109088158	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GCC2	NM_181453	exon6	c.2373delA	p.A791fs	.	.	348	21	274	0	.	91
GCM2	9247	hgsc.bcm.edu;broad.mit.edu	37	6	10876681	10876681	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GCM2	NM_004752	exon3	c.453delT	p.F151fs	.	.	177	14	99	0	.	92
GGCT	79017	hgsc.bcm.edu;broad.mit.edu	37	7	30540183	30540183	+	Nonsense_Mutation	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GGCT	NM_024051	exon2	c.256delA	p.M86X	.	.	136	10	98	0	.	90
GGPS1	9453	hgsc.bcm.edu;broad.mit.edu	37	1	235505913	235505913	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GGPS1	NM_001037277	exon4	c.729delA	p.I243fs	.	.	115	12	49	0	.	90
GH2	2689	hgsc.bcm.edu;broad.mit.edu	37	17	61958073	61958073	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GH2	NM_022557	exon4	c.515delG	p.G172fs	.	.	168	11	126	0	.	93
GHITM	27069	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	85904722	85904722	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GHITM	NM_014394	exon5	c.A433C	p.I145L	.	.	182	67	175	0	.	90
GHRHR	2692	hgsc.bcm.edu;broad.mit.edu	37	7	31015405	31015405	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GHRHR	NM_000823	exon10	c.896delT	p.L299fs	.	.	184	12	129	0	.	586
GK	2710	hgsc.bcm.edu;broad.mit.edu	37	X	30719015	30719015	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GK	NM_203391	exon11	c.844delA	p.K282fs	.	.	142	10	100	0	.	130
GK5	256356	hgsc.bcm.edu;broad.mit.edu	37	3	141917719	141917719	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GK5	NM_001039547	exon5	c.468delT	p.F156fs	.	.	194	12	159	0	.	90
GLG1	2734	hgsc.bcm.edu;broad.mit.edu	37	16	74525009	74525009	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GLG1	NM_001145667	exon8	c.1339delG	p.E447fs	.	.	185	12	189	0	.	136
GMCL1	64395	hgsc.bcm.edu;broad.mit.edu	37	2	70076825	70076825	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GMCL1	NM_178439	exon8	c.885delA	p.L295fs	.	.	222	14	177	0	.	93
GMPPB	29925	bcgsc.ca	37	3	49759218	49759218	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GMPPB	NM_013334	exon8	c.C1131T	p.G377G	.	.	36	4	32	0	.	90
GOLGA2	2801	hgsc.bcm.edu;broad.mit.edu	37	9	131036199	131036199	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GOLGA2	NM_004486	exon2	c.137delA	p.K46fs	.	.	192	14	186	0	.	91
GOLIM4	27333	hgsc.bcm.edu;broad.mit.edu	37	3	167766089	167766089	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GOLIM4	NM_014498	exon2	c.252delA	p.K84fs	.	.	314	19	243	0	.	291
GOPC	57120	bcgsc.ca	37	6	117923306	117923306	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GOPC	NM_001017408	exon1	c.A146G	p.D49G	.	.	63	4	74	0	.	676
GOT1L1	137362	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	8	37791908	37791908	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GOT1L1	NM_152413	exon9	c.A1169G	p.Y390C	.	.	305	64	331	0	.	23
GPATCH1	55094	hgsc.bcm.edu;broad.mit.edu	37	19	33605287	33605287	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPATCH1	NM_018025	exon15	c.2158delA	p.K720fs	.	.	159	10	130	0	.	91
GPATCH4	54865	hgsc.bcm.edu	37	1	156565049	156565049	+	Missense_Mutation	SNP	A	A	C	rs77528517	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPATCH4	NM_015590	exon8	c.T1084G	p.F362V	.	.	496	8	298	0	A|0.333;C|0.333;G|0.333	91
GPATCH8	23131	hgsc.bcm.edu;broad.mit.edu	37	17	42478249	42478249	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPATCH8	NM_001002909	exon8	c.1196delC	p.P399fs	.	.	124	10	111	0	.	94
GPR113	165082	hgsc.bcm.edu;broad.mit.edu	37	2	26540962	26540962	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR113	NM_001145168	exon2	c.208delC	p.L70fs	.	.	162	13	110	0	.	94
GPR119	139760	hgsc.bcm.edu;broad.mit.edu	37	X	129518461	129518461	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR119	NM_178471	exon1	c.961delA	p.S321fs	.	.	128	10	78	0	.	132
GPR126	57211	hgsc.bcm.edu;broad.mit.edu	37	6	142741019	142741019	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR126	NM_198569	exon22	c.3097delT	p.F1033fs	.	.	221	15	216	0	.	91
GPR155	151556	hgsc.bcm.edu;broad.mit.edu	37	2	175326315	175326315	+	Splice_Site	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR155	NM_001267051	exon8	c.1385+1G>-	.	.	.	178	13	139	0	.	91
GPR158	57512	hgsc.bcm.edu;broad.mit.edu	37	10	25887118	25887118	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR158	NM_020752	exon11	c.2563delA	p.K855fs	.	.	149	11	95	0	.	141
GPR180	160897	bcgsc.ca	37	13	95273448	95273448	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR180	NM_180989	exon6	c.C853A	p.P285T	.	.	137	6	119	0	.	153
GPR180	160897	hgsc.bcm.edu;broad.mit.edu	37	13	95278272	95278272	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR180	NM_180989	exon8	c.1139delT	p.I380fs	.	.	161	12	79	0	.	153
GPR22	2845	hgsc.bcm.edu;broad.mit.edu	37	7	107115730	107115730	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR22	NM_005295	exon3	c.1225delA	p.K409fs	.	.	167	10	121	0	.	92
GPR64	10149	hgsc.bcm.edu	37	X	19026119	19026119	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPR64	NM_001184834	exon19	c.1545delT	p.F515fs	.	.	127	11	80	0	.	130
GPSM1	26086	bcgsc.ca	37	9	139252496	139252496	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPSM1	NM_001145638	exon14	c.C1852A	p.P618T	.	.	202	7	192	0	.	90
GPX7	2882	hgsc.bcm.edu;broad.mit.edu	37	1	53074002	53074002	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GPX7	NM_015696	exon3	c.469delG	p.G157fs	.	.	103	10	78	0	.	90
GRB14	2888	hgsc.bcm.edu;broad.mit.edu	37	2	165378510	165378510	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GRB14	NM_004490	exon6	c.796delT	p.S266fs	.	.	213	13	138	0	.	420
GRIA3	2892	hgsc.bcm.edu	37	X	122336604	122336604	+	Missense_Mutation	SNP	C	C	G	rs72609489		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GRIA3	NM_001256743	exon3	c.C385G	p.P129A	.	.	60	15	56	0	.	134
GRIA3	2892	hgsc.bcm.edu	37	X	122336607	122336607	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GRIA3	NM_001256743	exon3	c.G388C	p.A130P	.	.	55	9	54	0	.	134
GRIA3	2892	hgsc.bcm.edu;broad.mit.edu	37	X	122528895	122528895	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GRIA3	NM_000828	exon6	c.827delA	p.E276fs	.	.	185	12	146	0	.	134
GRIP2	80852	bcgsc.ca	37	3	14561630	14561630	+	RNA	SNP	C	C	G	rs76085016		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GRIP2	.	.	.	.	.	.	96	11	101	0	.	69
GRK6	2870	bcgsc.ca	37	5	176867945	176867945	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GRK6	NM_002082	exon15	c.A1568G	p.E523G	.	.	121	5	109	1	.	602
GSTT2	2953	broad.mit.edu;bcgsc.ca	37	22	24300570	24300570	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GSTT2	NM_000854	exon4	c.427delC	p.L143fs	.	.	907	30	758	0	.	68
GTF2H2B	653238	broad.mit.edu;bcgsc.ca	37	5	69730848	69730848	+	RNA	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	863	15	734	0	.	.
GTF2IRD2B	389524	broad.mit.edu;bcgsc.ca	37	7	74564270	74564270	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GTF2IRD2B	NM_001003795	exon16	c.2017delG	p.V673fs	.	.	846	9	591	0	.	45
GTF2IRD2B	389524	broad.mit.edu;bcgsc.ca	37	7	74564272	74564272	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GTF2IRD2B	NM_001003795	exon16	c.2019delG	p.V673fs	.	.	847	10	603	0	.	45
GTF2IRD2P1	401375	broad.mit.edu;bcgsc.ca	37	7	72663998	72663998	+	RNA	SNP	T	T	G	rs2539034	bycluster	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	332	128	133	1	T|0.500;G|0.500	.
GTF2IRD2P1	401375	broad.mit.edu;bcgsc.ca	37	7	72664010	72664010	+	RNA	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	282	19	64	1	.	.
GTPBP2	54676	hgsc.bcm.edu;broad.mit.edu	37	6	43596730	43596730	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GTPBP2	NM_019096	exon1	c.170delC	p.P57fs	.	.	209	14	141	0	.	92
GTSE1	51512	hgsc.bcm.edu;broad.mit.edu	37	22	46704068	46704068	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GTSE1	NM_016426	exon3	c.101delA	p.E34fs	.	.	175	11	127	0	.	187
GUSB	2990	hgsc.bcm.edu;broad.mit.edu	37	7	65444761	65444761	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GUSB	NM_000181	exon3	c.534delC	p.P178fs	.	.	124	10	80	0	.	90
GYPB	2994	bcgsc.ca	37	4	144920597	144920597	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	GYPB	NM_002100	exon3	c.A142T	p.T48S	.	.	278	7	261	0	.	515
HAP1	9001	bcgsc.ca	37	17	39881221	39881221	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HAP1	NM_177977	exon11	c.A1592G	p.E531G	.	.	49	4	36	0	.	92
HAVCR1	26762	bcgsc.ca	37	5	156479568	156479568	+	Silent	SNP	C	C	T	rs10068551		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HAVCR1	NM_001099414	exon4	c.G477A	p.T159T	.	.	480	21	388	0	C|0.500;T|0.500	92
HAVCR1	26762	hgsc.bcm.edu;bcgsc.ca	37	5	156479571	156479571	+	Missense_Mutation	SNP	C	C	T	rs183130208		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HAVCR1	NM_001099414	exon4	c.G474A	p.M158I	.	.	447	33	367	0	.	92
HBS1L	10767	bcgsc.ca	37	6	135323883	135323883	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HBS1L	NM_006620	exon5	c.T528C	p.F176F	.	.	124	5	118	0	.	92
HDX	139324	hgsc.bcm.edu;broad.mit.edu	37	X	83730320	83730320	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HDX	NM_144657	exon2	c.86delA	p.N29fs	.	.	149	10	151	0	.	132
HEATR1	55127	bcgsc.ca	37	1	236719194	236719194	+	Missense_Mutation	SNP	C	C	G	rs201959745	alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HEATR1	NM_018072	exon39	c.G5560C	p.V1854L	.	.	234	7	142	0	C|0.999;T|0.000	93
HEATR4	399671	hgsc.bcm.edu;broad.mit.edu	37	14	73945358	73945358	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HEATR4	NM_203309	exon17	c.3034delT	p.S1012fs	.	.	132	10	122	0	.	91
HECTD1	25831	hgsc.bcm.edu;broad.mit.edu	37	14	31617938	31617938	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HECTD1	NM_015382	exon15	c.2485delA	p.T829fs	.	.	142	10	133	0	.	570
HECTD1	25831	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	14	31626433	31626433	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HECTD1	NM_015382	exon11	c.G1699A	p.D567N	.	.	188	70	194	0	.	570
HELLS	3070	hgsc.bcm.edu;broad.mit.edu	37	10	96348094	96348094	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HELLS	NM_018063	exon13	c.1435delT	p.F479fs	.	.	131	10	136	0	.	92
HELQ	113510	hgsc.bcm.edu;broad.mit.edu	37	4	84361142	84361142	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HELQ	NM_133636	exon8	c.1682delA	p.K561fs	.	.	369	24	355	0	.	155
HERC2	8924	hgsc.bcm.edu;broad.mit.edu	37	15	28366565	28366565	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HERC2	NM_004667	exon86	c.13199delT	p.F4400fs	.	.	162	10	133	0	.	234
HERC2	8924	hgsc.bcm.edu;broad.mit.edu	37	15	28436339	28436339	+	Nonsense_Mutation	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HERC2	NM_004667	exon54	c.8503delA	p.M2835X	.	.	116	11	87	0	.	234
HFM1	164045	hgsc.bcm.edu;broad.mit.edu	37	1	91846518	91846518	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HFM1	NM_001017975	exon7	c.824delT	p.F275fs	.	.	170	11	150	0	.	112
HGC6.3	0	hgsc.bcm.edu;broad.mit.edu	37	6	168377111	168377111	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001129895	exon1	c.222delC	p.P74fs	.	.	166	10	110	0	.	.
HGD	3081	hgsc.bcm.edu;broad.mit.edu	37	3	120352071	120352071	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HGD	NM_000187	exon13	c.1111delC	p.H371fs	.	.	182	15	121	0	.	68
HHLA1	10086	hgsc.bcm.edu;broad.mit.edu	37	8	133116366	133116366	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001145095	exon2	c.128delT	p.L43fs	.	.	192	14	79	0	.	.
HIAT1	64645	hgsc.bcm.edu;broad.mit.edu	37	1	100525518	100525518	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HIAT1	NM_033055	exon4	c.328delT	p.F110fs	.	.	198	12	178	0	.	90
HIST1H2AM	8336	hgsc.bcm.edu;broad.mit.edu	37	6	27860701	27860701	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HIST1H2AM	NM_003514	exon1	c.227delA	p.K76fs	.	.	416	26	201	0	.	92
HKDC1	80201	hgsc.bcm.edu;broad.mit.edu	37	10	71017124	71017124	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HKDC1	NM_025130	exon14	c.1974delG	p.V658fs	.	.	183	12	149	0	.	95
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32487268	32487268	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HLA-DRB5	NM_002125	exon3	c.531delT	p.I177fs	.	.	150	10	120	0	.	90
HLTF	6596	hgsc.bcm.edu;broad.mit.edu	37	3	148778638	148778638	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HLTF	NM_139048	exon11	c.1168delA	p.T390fs	.	.	146	10	120	0	.	659
HMCN1	83872	bcgsc.ca	37	1	186086675	186086675	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HMCN1	NM_031935	exon77	c.T11768C	p.V3923A	.	.	146	6	73	0	.	113
HMGCLL1	54511	hgsc.bcm.edu;broad.mit.edu	37	6	55364043	55364043	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HMGCLL1	NM_019036	exon7	c.687delA	p.K229fs	.	.	181	12	110	0	.	94
HMGXB3	22993	hgsc.bcm.edu;broad.mit.edu	37	5	149386090	149386090	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HMGXB3	NM_014983	exon3	c.192delC	p.L64fs	.	.	123	11	103	0	.	24
HNRNPUL1	11100	hgsc.bcm.edu;broad.mit.edu	37	19	41811722	41811722	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HNRNPUL1	NM_007040	exon14	c.2404delC	p.P802fs	.	.	112	10	100	0	.	69
HNRPDL	9987	hgsc.bcm.edu;broad.mit.edu	37	4	83348625	83348625	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HNRPDL	NM_031372	exon4	c.867delA	p.K289fs	.	.	125	11	136	0	.	91
HOOK3	84376	broad.mit.edu;bcgsc.ca	37	8	42828529	42828529	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HOOK3	NM_032410	exon12	c.1220delA	p.Q407fs	.	.	74	7	80	0	.	154
HOXA13	3209	bcgsc.ca	37	7	27239669	27239669	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HOXA13	NM_000522	exon1	c.28delC	p.R10fs	.	.	51	6	68	0	.	658
HOXB2	3212	hgsc.bcm.edu;broad.mit.edu	37	17	46620942	46620942	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HOXB2	NM_002145	exon2	c.559delG	p.V187fs	.	.	183	11	219	0	.	90
HOXC10	3226	bcgsc.ca	37	12	54383171	54383171	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HOXC10	NM_017409	exon2	c.A970G	p.K324E	.	.	86	4	95	0	.	91
HRC	3270	hgsc.bcm.edu	37	19	49657751	49657751	+	Silent	SNP	A	A	G	rs142699460	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HRC	NM_002152	exon1	c.T744C	p.D248D	.	.	129	6	99	0	A|0.998;G|0.002	91
HRNR	388697	broad.mit.edu;bcgsc.ca	37	1	152188997	152188997	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HRNR	NM_001009931	exon3	c.5108delG	p.G1703fs	.	.	735	24	354	0	.	93
HRNR	388697	hgsc.bcm.edu	37	1	152189055	152189055	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HRNR	NM_001009931	exon3	c.5050delC	p.R1684fs	.	.	235	18	102	0	.	93
HS3ST3A1	9955	broad.mit.edu;bcgsc.ca	37	17	13399566	13399566	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HS3ST3A1	NM_006042	exon2	c.1169delT	p.F390fs	.	.	291	13	359	0	.	515
HS3ST4	9951	hgsc.bcm.edu;broad.mit.edu	37	16	25704315	25704315	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HS3ST4	NM_006040	exon1	c.577delG	p.G193fs	.	.	148	10	94	0	.	67
HSP90AA1	3320	hgsc.bcm.edu	37	14	102551254	102551254	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HSP90AA1	NM_001017963	exon6	c.G1111A	p.E371K	.	.	122	13	103	0	.	949
HSP90AA1	3320	hgsc.bcm.edu	37	14	102551272	102551272	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HSP90AA1	NM_001017963	exon6	c.G1093A	p.E365K	.	.	109	13	102	0	.	949
HSP90AB1	3326	hgsc.bcm.edu;broad.mit.edu	37	6	44218079	44218079	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HSP90AB1	NM_007355	exon6	c.700delA	p.K234fs	.	.	166	10	102	0	.	658
HSP90B1	7184	hgsc.bcm.edu;broad.mit.edu	37	12	104331534	104331534	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HSP90B1	NM_003299	exon6	c.805delA	p.K269fs	.	.	181	11	165	0	.	93
HTR1E	3354	hgsc.bcm.edu;broad.mit.edu	37	6	87725971	87725971	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HTR1E	NM_000865	exon2	c.919delT	p.F307fs	.	.	201	12	198	0	.	93
HTR2C	3358	hgsc.bcm.edu;broad.mit.edu	37	X	114141772	114141772	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HTR2C	NM_000868	exon6	c.1171delA	p.K391fs	.	.	167	11	132	0	.	133
HTT	3064	hgsc.bcm.edu;broad.mit.edu	37	4	3129309	3129309	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HTT	NM_002111	exon12	c.1721delC	p.T574fs	.	.	255	17	228	0	.	281
HTT	3064	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	3241656	3241656	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HTT	NM_002111	exon67	c.G9299A	p.R3100K	.	.	176	26	139	0	.	281
HUNK	30811	bcgsc.ca	37	21	33312481	33312481	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HUNK	NM_014586	exon3	c.T559C	p.L187L	.	.	51	4	57	0	.	334
HUWE1	10075	broad.mit.edu;bcgsc.ca	37	X	53607818	53607818	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HUWE1	NM_031407	exon43	c.5689delC	p.L1897fs	.	.	77	9	77	0	.	280
HYOU1	10525	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	118926262	118926262	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	HYOU1	NM_006389	exon4	c.G207A	p.P69P	.	.	152	20	107	0	.	90
IDH1	3417	hgsc.bcm.edu;broad.mit.edu	37	2	209110110	209110110	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IDH1	NM_005896	exon5	c.453delA	p.K151fs	.	.	208	13	148	0	.	23522
IDI2	91734	hgsc.bcm.edu;broad.mit.edu	37	10	1065633	1065633	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IDI2	NM_033261	exon5	c.508delA	p.S170fs	.	.	183	11	182	0	.	90
IFNAR1	3454	hgsc.bcm.edu;broad.mit.edu	37	21	34707933	34707933	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IFNAR1	NM_000629	exon2	c.180delT	p.T60fs	.	.	117	11	100	0	.	91
IFT52	51098	hgsc.bcm.edu;broad.mit.edu	37	20	42249541	42249541	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IFT52	NM_016004	exon9	c.744delC	p.N248fs	.	.	169	11	161	0	.	92
IFT88	8100	hgsc.bcm.edu;broad.mit.edu	37	13	21148532	21148532	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IFT88	NM_175605	exon4	c.35delA	p.Q12fs	.	.	322	21	211	0	.	91
IGF2BP3	10643	hgsc.bcm.edu;broad.mit.edu	37	7	23387322	23387322	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IGF2BP3	NM_006547	exon7	c.715delG	p.A239fs	.	.	208	14	167	0	.	92
IKZF1	10320	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	50467992	50467992	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IKZF1	NM_006060	exon8	c.C1227T	p.S409S	.	.	117	20	71	0	.	1242
IKZF5	64376	hgsc.bcm.edu;broad.mit.edu	37	10	124753859	124753859	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IKZF5	NM_001271840	exon5	c.697delA	p.T233fs	.	.	248	17	211	0	.	90
IL17RE	132014	hgsc.bcm.edu;broad.mit.edu	37	3	9952818	9952818	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IL17RE	NM_153483	exon11	c.1106delT	p.V369fs	.	.	212	13	160	0	.	90
IL32	9235	ucsc.edu	37	16	3119304	3119304	+	Missense_Mutation	SNP	A	A	G	rs2981599		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IL32	NM_004221	exon7	c.A515G	p.D172G	.	.	219	82	193	72	.	92
IMPDH2	3615	broad.mit.edu;bcgsc.ca	37	3	49061820	49061820	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IMPDH2	NM_000884	exon14	c.1541delT	p.F514fs	.	.	84	9	79	0	.	227
INADL	10207	bcgsc.ca	37	1	62483532	62483532	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	INADL	NM_176877	exon29	c.A3872G	p.N1291S	.	.	74	4	82	0	.	94
INTS4L2	644619	broad.mit.edu	37	7	65150699	65150699	+	RNA	SNP	C	C	T	rs78915230	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	110	16	40	0	C|0.500;T|0.500	.
INTS4L2	644619	broad.mit.edu	37	7	65150720	65150720	+	RNA	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	98	6	22	1	.	.
IPMK	253430	bcgsc.ca	37	10	59986874	59986874	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IPMK	NM_152230	exon3	c.T303C	p.G101G	.	.	58	4	57	0	.	228
IQCG	84223	hgsc.bcm.edu;broad.mit.edu	37	3	197659165	197659165	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IQCG	NM_032263	exon6	c.524delT	p.F175fs	.	.	166	11	113	0	.	90
IQGAP1	8826	hgsc.bcm.edu;broad.mit.edu	37	15	91009653	91009653	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IQGAP1	NM_003870	exon17	c.2020delA	p.K674fs	.	.	146	11	97	0	.	950
ISG20L2	81875	hgsc.bcm.edu;broad.mit.edu	37	1	156697122	156697122	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ISG20L2	NM_030980	exon1	c.323delA	p.K108fs	.	.	181	13	91	0	.	91
ITGB1	3688	bcgsc.ca	37	10	33218965	33218965	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ITGB1	NM_002211	exon4	c.161delT	p.L54fs	.	.	59	6	74	0	.	1084
ITGB2	3689	hgsc.bcm.edu;broad.mit.edu	37	21	46309403	46309403	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ITGB2	NM_000211	exon13	c.1665delG	p.G555fs	.	.	177	11	161	0	.	717
ITGB8	3696	hgsc.bcm.edu;broad.mit.edu	37	7	20438514	20438514	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ITGB8	NM_002214	exon9	c.1178delA	p.E393fs	.	.	182	12	135	0	.	227
ITM2C	81618	hgsc.bcm.edu;broad.mit.edu	37	2	231741644	231741644	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ITM2C	NM_030926	exon4	c.523delC	p.P175fs	.	.	180	11	124	0	.	90
IWS1	55677	hgsc.bcm.edu;broad.mit.edu	37	2	128252502	128252502	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	IWS1	NM_017969	exon8	c.1745delA	p.K582fs	.	.	167	10	143	0	.	91
KALRN	8997	hgsc.bcm.edu;broad.mit.edu	37	3	124210257	124210257	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KALRN	NM_003947	exon31	c.4669delA	p.K1557fs	.	.	105	10	75	0	.	738
KANK4	163782	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	62739460	62739460	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KANK4	NM_181712	exon3	c.G1316C	p.S439T	.	.	199	47	121	0	.	74
KATNAL1	84056	hgsc.bcm.edu;broad.mit.edu	37	13	30815176	30815176	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KATNAL1	NM_001014380	exon5	c.540delA	p.K180fs	.	.	146	10	72	0	.	90
KCNAB1	7881	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	155838473	155838473	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KCNAB1	NM_172160	exon1	c.73delG	p.G25fs	.	.	129	26	110	0	.	94
KCNH5	27133	hgsc.bcm.edu;broad.mit.edu	37	14	63174303	63174303	+	Frame_Shift_Del	DEL	G	G	-	rs35940222		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KCNH5	NM_139318	exon11	c.2890delC	p.Q964fs	.	.	159	11	147	0	.	98
KCNN3	3782	bcgsc.ca	37	1	154842199	154842199	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KCNN3	NM_001204087	exon1	c.C242A	p.P81Q	.	.	197	6	70	0	.	91
KCNT1	57582	hgsc.bcm.edu;broad.mit.edu	37	9	138594208	138594208	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KCNT1	NM_001272003	exon1	c.104delC	p.A35fs	.	.	186	13	147	0	.	137
KCNT2	343450	hgsc.bcm.edu;broad.mit.edu	37	1	196227429	196227429	+	Nonsense_Mutation	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KCNT2	NM_198503	exon26	c.3106delA	p.I1036X	.	.	348	22	232	0	.	159
KCTD13	253980	hgsc.bcm.edu;broad.mit.edu	37	16	29922397	29922397	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KCTD13	NM_178863	exon5	c.655delG	p.D219fs	.	.	171	12	145	0	.	90
KDELC1	79070	hgsc.bcm.edu	37	13	103449216	103449216	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KDELC1	NM_024089	exon2	c.326delA	p.N109fs	.	.	147	11	118	0	.	91
KDM4C	23081	hgsc.bcm.edu;broad.mit.edu	37	9	7169999	7169999	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KDM4C	NM_001146694	exon21	c.3103delA	p.K1035fs	.	.	136	11	104	0	.	228
KIAA0040	9674	bcgsc.ca	37	1	175129955	175129955	+	Missense_Mutation	SNP	G	G	T	rs3208835	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001162895	exon3	c.C195A	p.N65K	.	.	149	55	80	26	T|0.500;G|0.500	.
KIAA0368	23392	bcgsc.ca	37	9	114213753	114213753	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIAA0368	NM_001080398	exon4	c.T639C	p.P213P	.	.	75	4	60	0	.	68
KIAA1199	57214	hgsc.bcm.edu;broad.mit.edu	37	15	81221438	81221438	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIAA1199	NM_018689	exon20	c.2535delG	p.V845fs	.	.	315	19	230	0	.	93
KIAA1468	57614	hgsc.bcm.edu;broad.mit.edu	37	18	59936142	59936142	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIAA1468	NM_020854	exon20	c.2721delC	p.V907fs	.	.	211	18	170	0	.	158
KIAA1731	85459	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	93432541	93432541	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIAA1731	NM_033395	exon15	c.T4463A	p.F1488Y	.	.	149	43	106	0	.	22
KIAA1841	84542	hgsc.bcm.edu;broad.mit.edu	37	2	61308630	61308630	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIAA1841	NM_032506	exon7	c.714delA	p.L238fs	.	.	153	10	135	0	.	90
KIF1B	23095	hgsc.bcm.edu;broad.mit.edu	37	1	10327488	10327488	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIF1B	NM_183416	exon6	c.480delA	p.P160fs	.	.	160	10	145	0	.	93
KIF20B	9585	bcgsc.ca	37	10	91497743	91497743	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIF20B	NM_016195	exon20	c.A3025G	p.R1009G	.	.	103	3	89	0	.	93
KIF21B	23046	hgsc.bcm.edu;broad.mit.edu	37	1	200944033	200944033	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIF21B	NM_001252102	exon34	c.4623delC	p.P1541fs	.	.	169	10	111	0	.	96
KIF24	347240	hgsc.bcm.edu;broad.mit.edu	37	9	34306393	34306393	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIF24	NM_194313	exon3	c.670delA	p.I224fs	.	.	208	13	194	0	.	22
KIF3C	3797	bcgsc.ca	37	2	26203679	26203679	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIF3C	NM_002254	exon1	c.C1108G	p.Q370E	.	.	387	11	260	1	.	94
KIF9	64147	hgsc.bcm.edu;broad.mit.edu	37	3	47282419	47282419	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIF9	NM_182902	exon17	c.1796delA	p.N599fs	.	.	146	10	122	0	.	91
KIFC2	90990	hgsc.bcm.edu;broad.mit.edu	37	8	145693776	145693776	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KIFC2	NM_145754	exon8	c.875delC	p.A292fs	.	.	166	10	101	0	.	92
KL	9365	hgsc.bcm.edu;broad.mit.edu	37	13	33628034	33628034	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KL	NM_004795	exon2	c.950delA	p.Q317fs	.	.	144	10	123	0	.	155
KLHDC4	54758	hgsc.bcm.edu;broad.mit.edu	37	16	87788891	87788891	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLHDC4	NM_001184856	exon4	c.278delT	p.L93fs	.	.	169	11	155	0	.	182
KLHDC7A	127707	bcgsc.ca	37	1	18808294	18808294	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLHDC7A	NM_152375	exon1	c.T819A	p.H273Q	.	.	97	5	69	0	.	93
KLHDC7B	113730	hgsc.bcm.edu;broad.mit.edu	37	22	50988068	50988068	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLHDC7B	NM_138433	exon1	c.1473delG	p.L491fs	.	.	106	10	82	0	.	90
KLHDC8A	55220	hgsc.bcm.edu;broad.mit.edu	37	1	205308534	205308534	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLHDC8A	NM_018203	exon4	c.545delG	p.G182fs	.	.	163	10	67	0	.	91
KLHL14	57565	hgsc.bcm.edu;broad.mit.edu	37	18	30349862	30349862	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLHL14	NM_020805	exon2	c.693delC	p.P231fs	.	.	195	12	162	0	.	91
KLHL5	51088	hgsc.bcm.edu;broad.mit.edu	37	4	39064232	39064232	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLHL5	NM_015990	exon1	c.98delT	p.L33fs	.	.	261	16	203	0	.	91
KLRC4	8302	bcgsc.ca	37	12	10562090	10562090	+	Missense_Mutation	SNP	T	T	C	rs139613925		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KLRC4	NM_013431	exon1	c.A85G	p.I29V	.	.	343	9	277	0	T|1.000;C|0.000	90
KRTAP10-2	386679	hgsc.bcm.edu	37	21	45970771	45970771	+	Missense_Mutation	SNP	C	C	T	rs200215960	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KRTAP10-2	NM_198693	exon1	c.G571A	p.V191I	.	.	139	11	105	0	C|0.956;T|0.044	135
KRTAP10-4	386672	hgsc.bcm.edu;broad.mit.edu	37	21	45993943	45993943	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KRTAP10-4	NM_198687	exon1	c.308delC	p.S103fs	.	.	264	17	232	0	.	90
KRTAP4-11	653240	ucsc.edu	37	17	39274311	39274311	+	Missense_Mutation	SNP	T	T	C	rs425755		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_033059	exon1	c.A257G	p.K86R	.	.	112	23	77	6	.	.
KRTAP5-10	387273	hgsc.bcm.edu;broad.mit.edu	37	11	71276925	71276925	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KRTAP5-10	NM_001012710	exon1	c.292delG	p.G98fs	.	.	168	11	78	0	.	91
KTN1	3895	hgsc.bcm.edu;broad.mit.edu	37	14	56114751	56114751	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	KTN1	NM_004986	exon20	c.2216delA	p.E739fs	.	.	160	10	176	0	.	1147
L3MBTL1	26013	hgsc.bcm.edu;broad.mit.edu	37	20	42143323	42143323	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	L3MBTL1	NM_032107	exon4	c.343delC	p.P115fs	.	.	160	10	104	0	.	227
LAMA2	3908	hgsc.bcm.edu;broad.mit.edu	37	6	129826417	129826417	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LAMA2	NM_000426	exon61	c.8620delA	p.K2874fs	.	.	175	13	187	0	.	162
LAMP1	3916	hgsc.bcm.edu;broad.mit.edu	37	13	113960838	113960838	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LAMP1	NM_005561	exon2	c.100delA	p.K34fs	.	.	165	10	155	0	.	514
LARP1	23367	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	5	154181822	154181822	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LARP1	NM_015315	exon11	c.1741delG	p.G581fs	.	.	159	16	119	0	.	94
LARP7	51574	bcgsc.ca	37	4	113565838	113565838	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LARP7	NM_001267039	exon4	c.A34G	p.S12G	.	.	45	4	47	0	.	93
LATS1	9113	bcgsc.ca	37	6	150001577	150001577	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LATS1	NM_004690	exon5	c.A2027G	p.D676G	.	.	79	4	60	0	.	992
LCE4A	199834	hgsc.bcm.edu	37	1	152681696	152681696	+	Missense_Mutation	SNP	G	G	T	rs79268808		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LCE4A	NM_178356	exon1	c.G145T	p.G49C	.	.	283	14	138	0	.	90
LDHAL6B	92483	bcgsc.ca	37	15	59499975	59499975	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LDHAL6B	NM_033195	exon1	c.T836C	p.V279A	.	.	68	4	54	0	.	226
LDLRAD4	753	hgsc.bcm.edu;broad.mit.edu	37	18	13612766	13612766	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001003674	exon1	c.63delA	p.L21fs	.	.	155	10	141	0	.	.
LENG8	114823	hgsc.bcm.edu;broad.mit.edu	37	19	54967951	54967951	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LENG8	NM_052925	exon11	c.1582delC	p.P528fs	.	.	127	10	73	0	.	91
LEPR	3953	hgsc.bcm.edu;broad.mit.edu	37	1	66038049	66038049	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LEPR	NM_001003680	exon5	c.411delA	p.L137fs	.	.	131	12	85	0	.	91
LEPREL4	10609	hgsc.bcm.edu;broad.mit.edu	37	17	39959614	39959614	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LEPREL4	NM_006455	exon7	c.1216delG	p.E406fs	.	.	220	14	252	0	.	90
LGI4	163175	hgsc.bcm.edu	37	19	35617456	35617456	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LGI4	NM_139284	exon8	c.G1017A	p.A339A	.	.	7	6	2	0	.	91
LIFR	3977	bcgsc.ca	37	5	38510584	38510584	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LIFR	NM_002310	exon7	c.A973G	p.T325A	.	.	114	5	62	0	.	1173
LILRA2	11027	hgsc.bcm.edu;broad.mit.edu	37	19	55098671	55098671	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LILRA2	NM_001130917	exon8	c.1310delC	p.S437fs	.	.	208	13	199	0	.	91
LILRB2	10288	hgsc.bcm.edu;broad.mit.edu	37	19	54781769	54781769	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LILRB2	NM_005874	exon8	c.1283delC	p.P428fs	.	.	243	16	148	0	.	91
LIMCH1	22998	hgsc.bcm.edu;broad.mit.edu	37	4	41668635	41668635	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LIMCH1	NM_014988	exon16	c.2194delA	p.K732fs	.	.	148	11	104	0	.	26
LINGO4	339398	hgsc.bcm.edu;broad.mit.edu	37	1	151773948	151773948	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LINGO4	NM_001004432	exon2	c.1233delA	p.K411fs	.	.	162	10	91	0	.	90
LIPG	9388	hgsc.bcm.edu;broad.mit.edu	37	18	47095818	47095818	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LIPG	NM_006033	exon4	c.471delT	p.D157fs	.	.	164	10	154	0	.	92
LIPH	200879	ucsc.edu;bcgsc.ca	37	3	185252690	185252690	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LIPH	NM_139248	exon2	c.G280A	p.G94S	.	.	208	61	164	1	.	92
LIPI	149998	broad.mit.edu;bcgsc.ca	37	21	15561488	15561488	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LIPI	NM_198996	exon2	c.362delT	p.L121fs	.	.	72	7	78	0	.	70
LMBR1	64327	hgsc.bcm.edu;broad.mit.edu	37	7	156589160	156589160	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LMBR1	NM_022458	exon5	c.346delT	p.S116fs	.	.	160	10	102	0	.	90
LMO7	4008	hgsc.bcm.edu	37	13	76381924	76381924	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LMO7	NM_015842	exon7	c.G806A	p.C269Y	.	.	93	5	54	0	.	586
LOC283922	0	broad.mit.edu;bcgsc.ca	37	16	74378730	74378730	+	RNA	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	114	10	98	0	.	.
LOC286238	0	bcgsc.ca	37	9	91262553	91262553	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001100111	exon2	c.G90A	p.Q30Q	.	.	86	4	130	1	.	.
LOC541471	0	bcgsc.ca	37	2	112229625	112229625	+	RNA	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	213	16	184	0	.	.
LOC642236	0	bcgsc.ca	37	9	68452947	68452947	+	RNA	SNP	T	T	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	112	13	58	0	.	.
LOC642236	0	bcgsc.ca	37	9	68452987	68452987	+	RNA	SNP	G	G	C	rs62545408		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	98	27	36	0	.	.
LOC728554	0	broad.mit.edu	37	5	177302747	177302747	+	RNA	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	75	4	65	0	.	.
LONP2	83752	hgsc.bcm.edu;broad.mit.edu	37	16	48295434	48295434	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LONP2	NM_031490	exon5	c.823delA	p.K275fs	.	.	173	11	128	0	.	90
LRFN4	78999	hgsc.bcm.edu;broad.mit.edu	37	11	66627324	66627324	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LRFN4	NM_024036	exon2	c.1566delG	p.V522fs	.	.	125	11	67	0	.	90
LRFN5	145581	bcgsc.ca	37	14	42360472	42360472	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LRFN5	NM_152447	exon4	c.1405delA	p.K469fs	.	.	40	4	65	0	.	97
LRP10	26020	bcgsc.ca	37	14	23342642	23342642	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LRP10	NM_014045	exon3	c.A202G	p.T68A	.	.	89	4	103	1	.	90
LRP1B	53353	hgsc.bcm.edu;broad.mit.edu	37	2	141272298	141272298	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LRP1B	NM_018557	exon51	c.8193delA	p.K2731fs	.	.	198	12	146	0	.	311
LRRC1	55227	bcgsc.ca	37	6	53787490	53787490	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LRRC1	NM_018214	exon14	c.A1474G	p.T492A	.	.	115	6	68	0	.	91
LRRC2	79442	hgsc.bcm.edu;broad.mit.edu	37	3	46580564	46580564	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LRRC2	NM_024512	exon4	c.461delA	p.N154fs	.	.	163	10	119	0	.	91
LRRC34	151827	hgsc.bcm.edu;broad.mit.edu	37	3	169514647	169514647	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LRRC34	NM_001172779	exon8	c.794delA	p.N265fs	.	.	217	13	153	0	.	90
LRRC36	55282	hgsc.bcm.edu;broad.mit.edu	37	16	67381385	67381385	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LRRC36	NM_001161575	exon1	c.16delT	p.F6fs	.	.	153	10	125	0	.	90
LRRIQ1	84125	broad.mit.edu;bcgsc.ca	37	12	85450835	85450835	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LRRIQ1	NM_001079910	exon8	c.2264delT	p.I755fs	.	.	68	7	79	0	.	95
LTBP2	4053	ucsc.edu;bcgsc.ca;mdanderson.org	37	14	75018978	75018978	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LTBP2	NM_000428	exon6	c.G1311A	p.E437E	.	.	117	24	102	1	.	92
LTF	4057	hgsc.bcm.edu;broad.mit.edu	37	3	46479553	46479553	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LTF	NM_002343	exon16	c.1976delA	p.N659fs	.	.	195	12	136	0	.	703
LTK	4058	hgsc.bcm.edu;broad.mit.edu	37	15	41796336	41796336	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LTK	NM_002344	exon20	c.2453delC	p.P818fs	.	.	158	11	171	0	.	1377
LTK	4058	hgsc.bcm.edu;broad.mit.edu	37	15	41797198	41797198	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LTK	NM_002344	exon16	c.1990delG	p.D664fs	.	.	140	10	127	0	.	1377
LUZP4	51213	hgsc.bcm.edu;broad.mit.edu	37	X	114537909	114537909	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LUZP4	NM_016383	exon3	c.268delA	p.K90fs	.	.	197	12	132	0	.	132
LY6G5B	58496	bcgsc.ca	37	6	31639675	31639675	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LY6G5B	NM_021221	exon3	c.A222G	p.G74G	.	.	147	6	59	1	.	90
LY86	9450	hgsc.bcm.edu;broad.mit.edu	37	6	6588976	6588976	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LY86	NM_004271	exon1	c.9delT	p.G3fs	.	.	136	10	55	0	.	90
LYST	1130	hgsc.bcm.edu;broad.mit.edu	37	1	235880039	235880039	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LYST	NM_000081	exon41	c.9600delA	p.K3200fs	.	.	221	15	104	0	.	143
LZTFL1	54585	bcgsc.ca	37	3	45874602	45874602	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	LZTFL1	NM_020347	exon5	c.T396C	p.D132D	.	.	70	4	79	0	.	90
MADD	8567	hgsc.bcm.edu;broad.mit.edu	37	11	47315481	47315481	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MADD	NM_130475	exon22	c.3463delA	p.K1155fs	.	.	151	12	112	0	.	682
MAML2	84441	mdanderson.org	37	11	95825407	95825407	+	Silent	SNP	C	C	T	rs61901862		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAML2	NM_032427	exon2	c.G1788A	p.Q596Q	.	.	172	32	171	0	C|0.250;T|0.750	850
MAN2C1	4123	bcgsc.ca	37	15	75653486	75653486	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAN2C1	NM_001256494	exon12	c.A1361G	p.H454R	.	.	138	7	88	0	.	90
MAP1B	4131	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	71492183	71492183	+	Missense_Mutation	SNP	G	G	A	rs144088322		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAP1B	NM_005909	exon5	c.G3001A	p.E1001K	.	.	127	43	128	0	G|1.000;A|0.000	155
MAP2K6	5608	hgsc.bcm.edu;broad.mit.edu	37	17	67537867	67537867	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAP2K6	NM_002758	exon12	c.978delT	p.S326fs	.	.	172	11	163	0	.	1404
MAP3K13	9175	hgsc.bcm.edu;broad.mit.edu	37	3	185165720	185165720	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAP3K13	NM_004721	exon5	c.995delA	p.E332fs	.	.	165	12	153	0	.	548
MAP3K1	4214	hgsc.bcm.edu;broad.mit.edu	37	5	56170970	56170970	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAP3K1	NM_005921	exon10	c.1798delG	p.G600fs	.	.	195	14	200	0	.	956
MAP3K14	9020	bcgsc.ca	37	17	43364293	43364293	+	Splice_Site	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAP3K14	.	.	.	.	.	.	90	0	89	0	.	1453
MAP3K8	1326	hgsc.bcm.edu;broad.mit.edu	37	10	30740592	30740592	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAP3K8	NM_001244134	exon5	c.792delA	p.T264fs	.	.	121	11	94	0	.	981
MAP4K5	11183	hgsc.bcm.edu;broad.mit.edu	37	14	50933308	50933308	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAP4K5	NM_006575	exon11	c.730delA	p.T244fs	.	.	160	10	113	0	.	546
MAP7D3	79649	hgsc.bcm.edu;broad.mit.edu	37	X	135323367	135323367	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAP7D3	NM_024597	exon5	c.487delA	p.R163fs	.	.	158	10	147	0	.	110
MAPK11	5600	bcgsc.ca	37	22	50705467	50705467	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAPK11	NM_002751	exon7	c.T506C	p.F169S	.	.	125	6	58	0	.	1402
MAPK15	225689	hgsc.bcm.edu;broad.mit.edu	37	8	144802914	144802914	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAPK15	NM_139021	exon9	c.821delC	p.S274fs	.	.	201	13	61	0	.	1378
MAPK4	5596	hgsc.bcm.edu;broad.mit.edu	37	18	48190827	48190827	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAPK4	NM_002747	exon2	c.499delG	p.G167fs	.	.	157	10	107	0	.	1404
MAPT	4137	hgsc.bcm.edu	37	17	44060593	44060593	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MAPT	NM_001123066	exon6	c.423delC	p.G141fs	.	.	166	10	174	0	.	91
MATN2	4147	bcgsc.ca	37	8	98991222	98991222	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MATN2	NM_002380	exon6	c.A1067G	p.K356R	.	.	203	7	85	0	.	24
MBD1	4152	ucsc.edu;bcgsc.ca;mdanderson.org	37	18	47796066	47796066	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MBD1	NM_001204136	exon16	c.C1901T	p.S634L	.	.	207	52	171	1	.	228
MCCC1	56922	hgsc.bcm.edu;broad.mit.edu	37	3	182788998	182788998	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MCCC1	NM_020166	exon6	c.639delA	p.K213fs	.	.	250	17	145	0	.	92
MCM3AP	8888	hgsc.bcm.edu;broad.mit.edu	37	21	47700452	47700452	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MCM3AP	NM_003906	exon3	c.1481delT	p.L494fs	.	.	261	16	229	0	.	291
MCMBP	79892	bcgsc.ca	37	10	121607167	121607167	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MCMBP	NM_024834	exon8	c.T785C	p.L262P	.	.	79	4	72	0	.	93
MDGA1	266727	hgsc.bcm.edu	37	6	37616904	37616904	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MDGA1	NM_153487	exon9	c.C1748A	p.P583Q	.	.	9	8	0	0	.	91
MED14	9282	hgsc.bcm.edu	37	X	40562784	40562784	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MED14	NM_004229	exon11	c.1323delC	p.P441fs	.	.	200	14	135	0	.	289
MEF2A	4205	hgsc.bcm.edu;broad.mit.edu	37	15	100252908	100252908	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MEF2A	NM_005587	exon11	c.1432delC	p.P478fs	.	.	196	12	195	0	.	455
MEF2C	4208	hgsc.bcm.edu;broad.mit.edu	37	5	88119592	88119592	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MEF2C	NM_001193350	exon2	c.14delA	p.K5fs	.	.	247	18	190	0	.	704
MEGF8	1954	bcgsc.ca	37	19	42840481	42840481	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MEGF8	NM_001271938	exon6	c.C1227T	p.H409H	.	.	54	4	43	0	.	23
MERTK	10461	hgsc.bcm.edu;broad.mit.edu	37	2	112754915	112754915	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MERTK	NM_006343	exon10	c.1466delC	p.A489fs	.	.	174	11	117	0	.	1463
MFAP5	8076	broad.mit.edu;bcgsc.ca	37	12	8804269	8804269	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MFAP5	NM_003480	exon7	c.236delA	p.N79fs	.	.	83	9	85	0	.	577
MFN1	55669	hgsc.bcm.edu;broad.mit.edu	37	3	179082955	179082955	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MFN1	NM_033540	exon7	c.695delT	p.I232fs	.	.	155	11	154	0	.	155
MFSD4	148808	bcgsc.ca	37	1	205561373	205561373	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MFSD4	NM_181644	exon7	c.C1255T	p.P419S	.	.	315	7	207	0	.	92
MICA	100507436	hgsc.bcm.edu	37	6	31380101	31380101	+	Splice_Site	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001177519	exon5	c.893-1G>A	.	.	.	218	9	138	0	.	.
MICA	100507436	hgsc.bcm.edu;bcgsc.ca	37	6	31380100	31380100	+	Splice_Site	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001177519	exon5	c.893-2A>C	.	.	.	218	13	137	0	.	.
MICAL3	57553	bcgsc.ca	37	22	18310443	18310443	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MICAL3	NM_015241	exon22	c.A3160G	p.M1054V	.	.	60	5	86	0	.	68
MICAL3	57553	hgsc.bcm.edu;broad.mit.edu	37	22	18387542	18387542	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MICAL3	NM_015241	exon3	c.328delG	p.A110fs	.	.	167	12	159	0	.	68
MICALCL	84953	hgsc.bcm.edu;broad.mit.edu	37	11	12345559	12345559	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MICALCL	NM_032867	exon5	c.1577delA	p.E526fs	.	.	178	11	137	0	.	91
MINK1	50488	hgsc.bcm.edu;broad.mit.edu	37	17	4794826	4794826	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MINK1	NM_170663	exon16	c.1816delC	p.P606fs	.	.	153	10	180	0	.	943
MIR133B	442890	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	6	52013737	52013737	+	RNA	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	95	10	68	0	.	.
MIR135A1	406925	hgsc.bcm.edu	37	3	52328238	52328238	+	RNA	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	154	10	166	0	.	.
MIS18BP1	55320	hgsc.bcm.edu;broad.mit.edu	37	14	45696022	45696022	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MIS18BP1	NM_018353	exon10	c.1764delA	p.K588fs	.	.	117	12	76	0	.	90
MLL2	8085	hgsc.bcm.edu;broad.mit.edu	37	12	49438211	49438211	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MLL2	NM_003482	exon20	c.5058delA	p.K1686fs	.	.	415	25	391	0	.	612
MLL3	58508	bcgsc.ca	37	7	151945051	151945051	+	Missense_Mutation	SNP	A	A	G	rs57000893	bycluster	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MLL3	NM_170606	exon14	c.T2468C	p.I823T	.	.	490	17	306	2	A|0.500;G|0.500	1398
MLL3	58508	hgsc.bcm.edu;broad.mit.edu	37	7	151874093	151874093	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MLL3	NM_170606	exon38	c.8445delA	p.K2815fs	.	.	225	16	161	0	.	1398
MLL4	8085	broad.mit.edu;bcgsc.ca	37	19	36211899	36211899	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MLL4	NM_014727	exon3	c.1650delC	p.D550fs	.	.	54	7	65	0	.	697
MLL4	8085	bcgsc.ca	37	19	36214634	36214634	+	Silent	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MLL4	NM_014727	exon8	c.C3060G	p.G1020G	.	.	67	6	34	0	.	697
MME	4311	hgsc.bcm.edu;broad.mit.edu	37	3	154834710	154834710	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MME	NM_007287	exon7	c.589delA	p.K197fs	.	.	222	14	133	0	.	516
MMP27	64066	hgsc.bcm.edu;broad.mit.edu	37	11	102564704	102564704	+	Nonsense_Mutation	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MMP27	NM_022122	exon8	c.1126delA	p.I376X	.	.	167	10	152	0	.	229
MMRN1	22915	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	4	90816715	90816715	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MMRN1	NM_007351	exon1	c.593delA	p.Q198fs	.	.	76	11	75	0	.	94
MORN1	79906	hgsc.bcm.edu;broad.mit.edu	37	1	2268183	2268183	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MORN1	NM_024848	exon11	c.1143delC	p.P381fs	.	.	151	11	143	0	.	92
MOV10	4343	hgsc.bcm.edu;broad.mit.edu	37	1	113243060	113243060	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MOV10	NM_020963	exon21	c.2943delC	p.L981fs	.	.	175	12	173	0	.	95
MPG	4350	hgsc.bcm.edu;broad.mit.edu	37	16	129299	129299	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MPG	NM_002434	exon2	c.8delC	p.T3fs	.	.	179	11	161	0	.	228
MROH5	389690	bcgsc.ca	37	8	142490080	142490080	+	RNA	SNP	T	T	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	208	9	91	0	.	.
MRS2	57380	hgsc.bcm.edu;broad.mit.edu	37	6	24423175	24423175	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MRS2	NM_020662	exon10	c.1118delT	p.I373fs	.	.	246	17	128	0	.	68
MSH2	4436	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	2	47639551	47639551	+	Splice_Site	SNP	A	A	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MSH2	NM_000251	exon4	c.646-2A>T	.	.	.	293	82	211	0	.	2445
MSH3	4437	broad.mit.edu;bcgsc.ca	37	5	79970915	79970915	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MSH3	NM_002439	exon7	c.1141delA	p.K381fs	.	.	143	17	110	0	.	661
MSH6	2956	hgsc.bcm.edu;broad.mit.edu	37	2	48025968	48025968	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MSH6	NM_000179	exon4	c.846delG	p.V282fs	.	.	130	10	80	0	.	3014
MSL3	10943	hgsc.bcm.edu;broad.mit.edu	37	X	11776451	11776451	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MSL3	NM_078628	exon1	c.69delC	p.D23fs	.	.	129	11	111	0	.	131
MST1L	11223	broad.mit.edu;bcgsc.ca	37	1	17083868	17083868	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001271733	exon15	c.1929delT	p.L643fs	.	.	325	11	267	0	.	.
MTF1	4520	broad.mit.edu;bcgsc.ca	37	1	38288175	38288175	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MTF1	NM_005955	exon9	c.1385delC	p.P462fs	.	.	71	7	68	0	.	92
MTFR2	113115	hgsc.bcm.edu;broad.mit.edu	37	6	136562707	136562707	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_138419	exon5	c.389delA	p.N130fs	.	.	139	10	121	0	.	.
MTHFD1L	25902	bcgsc.ca	37	6	151209073	151209073	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MTHFD1L	NM_001242767	exon7	c.A739G	p.M247V	.	.	84	4	105	0	.	292
MTHFSD	64779	hgsc.bcm.edu;broad.mit.edu	37	16	86565823	86565823	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MTHFSD	NM_001159377	exon8	c.946delG	p.D316fs	.	.	159	11	108	0	.	90
MTOR	2475	hgsc.bcm.edu;broad.mit.edu	37	1	11292498	11292498	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MTOR	NM_004958	exon16	c.2509delA	p.R837fs	.	.	139	11	138	0	.	1439
MTRF1	9617	hgsc.bcm.edu;broad.mit.edu	37	13	41800662	41800662	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MTRF1	NM_004294	exon8	c.1031delA	p.N344fs	.	.	223	14	153	0	.	90
MTRR	4552	hgsc.bcm.edu;broad.mit.edu	37	5	7897029	7897029	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MTRR	NM_024010	exon13	c.1810delT	p.F604fs	.	.	295	18	271	0	.	91
MUC13	56667	hgsc.bcm.edu	37	3	124646709	124646709	+	Missense_Mutation	SNP	G	G	A	rs75727765		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MUC13	NM_033049	exon2	c.C181T	p.P61S	.	.	130	8	91	0	.	90
MUC16	94025	bcgsc.ca	37	19	9060543	9060543	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MUC16	NM_024690	exon3	c.C26903A	p.P8968Q	.	.	297	8	237	1	.	566
MUC16	94025	hgsc.bcm.edu;broad.mit.edu	37	19	9085053	9085053	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MUC16	NM_024690	exon1	c.6762delC	p.P2254fs	.	.	110	10	90	0	.	566
MUC2	4583	bcgsc.ca	37	11	1094691	1094691	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MUC2	NM_002457	exon32	c.G5767T	p.G1923W	.	.	146	6	108	0	.	90
MUC5B	727897	bcgsc.ca	37	11	1252709	1252709	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_002458	exon14	c.G1597C	p.G533R	.	.	196	7	140	0	.	.
MUC5B	727897	hgsc.bcm.edu;broad.mit.edu	37	11	1278487	1278487	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_002458	exon40	c.16255delG	p.G5419fs	.	.	210	13	191	0	.	.
MUC6	4588	bcgsc.ca	37	11	1016628	1016628	+	Missense_Mutation	SNP	G	G	A	rs202039948		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MUC6	NM_005961	exon31	c.C6173T	p.T2058I	.	.	679	21	454	11	.	23
MX2	4600	hgsc.bcm.edu;broad.mit.edu	37	21	42767625	42767625	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MX2	NM_002463	exon7	c.983delG	p.R328fs	.	.	152	10	138	0	.	92
MXRA7	439921	hgsc.bcm.edu;broad.mit.edu	37	17	74681205	74681205	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MXRA7	NM_001008529	exon3	c.449delG	p.G150fs	.	.	156	10	158	0	.	90
MYH10	4628	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	17	8455401	8455401	+	Silent	SNP	A	A	G	rs200432425		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYH10	NM_001256012	exon9	c.T882C	p.F294F	.	.	91	7	124	0	A|0.999;G|0.001	92
MYH2	4620	bcgsc.ca	37	17	10427784	10427784	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYH2	NM_017534	exon35	c.A5174G	p.Q1725R	.	.	120	8	120	0	.	194
MYH3	4621	hgsc.bcm.edu;broad.mit.edu	37	17	10535885	10535885	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYH3	NM_002470	exon34	c.4864delG	p.D1622fs	.	.	137	10	126	0	.	95
MYH3	4621	hgsc.bcm.edu;broad.mit.edu	37	17	10546255	10546255	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYH3	NM_002470	exon15	c.1469delT	p.F490fs	.	.	114	10	114	0	.	95
MYH8	4626	hgsc.bcm.edu;broad.mit.edu	37	17	10307697	10307697	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	MYH8,NS,carcinoma,+2	MYH8	NM_002472	exon22	c.2638delA	p.M880fs	.	.	277	17	281	0	.	101
MYLK2	85366	hgsc.bcm.edu;broad.mit.edu	37	20	30419520	30419520	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYLK2	NM_033118	exon11	c.1439delC	p.S480fs	.	.	145	11	89	0	.	760
MYNN	55892	hgsc.bcm.edu;broad.mit.edu	37	3	169504444	169504444	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYNN	NM_001185118	exon9	c.1811delT	p.I604fs	.	.	159	11	139	0	.	91
MYO15A	51168	broad.mit.edu;bcgsc.ca	37	17	18025232	18025232	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYO15A	NM_016239	exon2	c.3118delC	p.P1040fs	.	.	75	8	97	0	.	97
MYO18A	399687	hgsc.bcm.edu;broad.mit.edu	37	17	27438464	27438464	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYO18A	NM_078471	exon17	c.2878delC	p.R960fs	.	.	148	10	135	0	.	22
MYO18B	84700	hgsc.bcm.edu;broad.mit.edu	37	22	26164213	26164213	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYO18B	NM_032608	exon4	c.330delG	p.E110fs	.	.	159	10	120	0	.	142
MYO1C	4641	broad.mit.edu;bcgsc.ca	37	17	1373594	1373594	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYO1C	NM_001080779	exon24	c.2401delC	p.R801fs	.	.	62	7	82	0	.	90
MYO1H	283446	hgsc.bcm.edu;broad.mit.edu	37	12	109879445	109879445	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001101421	exon25	c.2516delA	p.E839fs	.	.	205	14	172	0	.	.
MYO7B	4648	hgsc.bcm.edu;broad.mit.edu	37	2	128384760	128384760	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYO7B	NM_001080527	exon32	c.4257delC	p.G1419fs	.	.	156	10	131	0	.	47
MYOCD	93649	hgsc.bcm.edu;broad.mit.edu	37	17	12666622	12666622	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYOCD	NM_001146312	exon14	c.2622delA	p.L874fs	.	.	181	11	170	0	.	93
MYOF	26509	bcgsc.ca	37	10	95111559	95111559	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYOF	NM_013451	exon33	c.G3526A	p.E1176K	.	.	79	5	58	0	.	93
MYSM1	114803	hgsc.bcm.edu	37	1	59156023	59156023	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	MYSM1	NM_001085487	exon4	c.285delA	p.K95fs	.	.	171	11	181	0	.	501
NAA15	80155	bcgsc.ca	37	4	140300010	140300010	+	Splice_Site	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NAA15	NM_057175	exon17	c.2155+2T>C	.	.	.	105	4	96	0	.	92
NAALAD2	10003	hgsc.bcm.edu;broad.mit.edu	37	11	89914796	89914796	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NAALAD2	NM_005467	exon17	c.1867delT	p.F623fs	.	.	147	10	141	0	.	92
NAALAD2	10003	hgsc.bcm.edu;broad.mit.edu	37	11	89914834	89914834	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NAALAD2	NM_005467	exon17	c.1905delT	p.D635fs	.	.	164	11	149	0	.	92
NAIP	4671	hgsc.bcm.edu;broad.mit.edu	37	5	70307197	70307197	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NAIP	NM_004536	exon5	c.573delA	p.K191fs	.	.	163	10	145	0	.	205
NALCN	259232	hgsc.bcm.edu;broad.mit.edu	37	13	102030966	102030966	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NALCN	NM_052867	exon4	c.330delT	p.F110fs	.	.	125	12	88	0	.	167
NAP1L1	4673	bcgsc.ca	37	12	76449901	76449901	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NAP1L1	NM_004537	exon7	c.A470G	p.K157R	.	.	362	10	320	1	.	92
NAV1	89796	hgsc.bcm.edu;broad.mit.edu	37	1	201750396	201750396	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NAV1	NM_020443	exon5	c.1622delC	p.S541fs	.	.	160	11	99	0	.	228
NAV2	89797	bcgsc.ca	37	11	20099121	20099121	+	Silent	SNP	A	A	G	rs79792934	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NAV2	NM_001244963	exon25	c.A5175G	p.E1725E	.	.	74	4	69	0	A|0.995;G|0.005	96
NBEA	26960	hgsc.bcm.edu;broad.mit.edu	37	13	36125104	36125104	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NBEA	NM_015678	exon43	c.6741delA	p.V2247fs	.	.	133	10	118	0	.	144
NBEAL1	65065	hgsc.bcm.edu;broad.mit.edu	37	2	203974873	203974873	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NBEAL1	NM_001114132	exon14	c.1863delT	p.S621fs	.	.	166	11	98	0	.	92
NBPF3	84224	broad.mit.edu	37	1	21806564	21806564	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NBPF3	NM_032264	exon11	c.A1229C	p.X410S	.	.	139	15	28	0	.	92
NBPF9	400818	broad.mit.edu	37	1	144815953	144815953	+	Missense_Mutation	SNP	A	A	G	rs79736150		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	10	3	12	0	A|0.500;G|0.500	.
NCAPD2	9918	bcgsc.ca	37	12	6620323	6620323	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NCAPD2	NM_014865	exon6	c.A492G	p.E164E	.	.	165	6	152	0	.	660
NCAPG	64151	hgsc.bcm.edu;broad.mit.edu	37	4	17816898	17816898	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NCAPG	NM_022346	exon5	c.692delT	p.V231fs	.	.	111	10	103	0	.	153
NCOA1	8648	hgsc.bcm.edu;broad.mit.edu	37	2	24920612	24920612	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NCOA1	NM_147223	exon9	c.894delT	p.A298fs	.	.	183	11	102	0	.	228
NDUFA8	4702	bcgsc.ca	37	9	124921925	124921925	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NDUFA8	NM_014222	exon1	c.A32G	p.E11G	.	.	163	6	149	2	.	153
NDUFAF6	137682	hgsc.bcm.edu;broad.mit.edu	37	8	96060727	96060727	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_152416	exon7	c.757delA	p.K253fs	.	.	179	11	70	0	.	.
NEDD9	4739	hgsc.bcm.edu;broad.mit.edu	37	6	11190264	11190264	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NEDD9	NM_001142393	exon6	c.1838delC	p.P613fs	.	.	165	13	112	0	.	226
NEFH	4744	hgsc.bcm.edu;broad.mit.edu	37	22	29885884	29885884	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NEFH	NM_021076	exon4	c.2255delC	p.S752fs	.	.	165	11	135	0	.	90
NEK11	79858	hgsc.bcm.edu;broad.mit.edu	37	3	130887702	130887702	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NEK11	NM_024800	exon13	c.1205delA	p.E402fs	.	.	160	10	102	0	.	848
NEK3	4752	bcgsc.ca	37	13	52709939	52709939	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NEK3	NM_002498	exon14	c.C1235G	p.P412R	.	.	128	6	93	0	.	359
NEK5	341676	hgsc.bcm.edu;broad.mit.edu	37	13	52650224	52650224	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NEK5	NM_199289	exon19	c.1703delA	p.N568fs	.	.	131	10	96	0	.	334
NEMF	9147	hgsc.bcm.edu;broad.mit.edu	37	14	50295460	50295460	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NEMF	NM_004713	exon14	c.1298delA	p.N433fs	.	.	150	10	136	0	.	90
NEUROD4	58158	bcgsc.ca	37	12	55420519	55420519	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NEUROD4	NM_021191	exon2	c.296delG	p.R99fs	.	.	50	5	71	0	.	94
NFATC1	4772	hgsc.bcm.edu;broad.mit.edu	37	18	77193695	77193695	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NFATC1	NM_006162	exon3	c.1343delG	p.R448fs	.	.	160	10	103	0	.	290
NFE2	4778	hgsc.bcm.edu;broad.mit.edu	37	12	54686722	54686722	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NFE2	NM_001261461	exon4	c.558delC	p.P186fs	.	.	157	11	142	0	.	226
NFIX	4784	hgsc.bcm.edu;broad.mit.edu	37	19	13184726	13184726	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NFIX	NM_001271043	exon5	c.728delT	p.V243fs	.	.	152	10	131	0	.	272
NID2	22795	hgsc.bcm.edu;broad.mit.edu	37	14	52505655	52505655	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NID2	NM_007361	exon9	c.2067delT	p.F689fs	.	.	158	11	124	0	.	158
NIP7	51388	broad.mit.edu;bcgsc.ca	37	16	69373741	69373741	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NIP7	NM_016101	exon1	c.9delT	p.P3fs	.	.	68	7	72	0	.	153
NIPSNAP1	8508	bcgsc.ca	37	22	29957568	29957568	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NIPSNAP1	NM_003634	exon6	c.A506G	p.E169G	.	.	75	4	72	0	.	91
NKTR	4820	hgsc.bcm.edu;broad.mit.edu	37	3	42679036	42679036	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NKTR	NM_005385	exon13	c.1840delC	p.P614fs	.	.	161	11	101	0	.	93
NLGN2	57555	hgsc.bcm.edu;broad.mit.edu	37	17	7319293	7319293	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NLGN2	NM_020795	exon6	c.1501delG	p.G501fs	.	.	155	10	175	0	.	90
NLRP6	171389	hgsc.bcm.edu;broad.mit.edu	37	11	281492	281492	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NLRP6	NM_138329	exon4	c.1758delC	p.C586fs	.	.	154	10	124	0	.	583
NMUR2	56923	bcgsc.ca	37	5	151771819	151771819	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NMUR2	NM_020167	exon4	c.C1181A	p.P394Q	.	.	372	8	251	0	.	526
NOB1	28987	hgsc.bcm.edu;broad.mit.edu	37	16	69782138	69782138	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOB1	NM_014062	exon7	c.821delT	p.F274fs	.	.	165	10	138	0	.	90
NOBOX	135935	hgsc.bcm.edu;broad.mit.edu	37	7	144096122	144096122	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOBOX	NM_001080413	exon8	c.1390delC	p.Q464fs	.	.	194	13	225	0	.	69
NOBOX	135935	hgsc.bcm.edu;broad.mit.edu	37	7	144096920	144096920	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOBOX	NM_001080413	exon6	c.1084delA	p.M362fs	.	.	164	12	169	0	.	69
NOL10	79954	hgsc.bcm.edu;broad.mit.edu	37	2	10742949	10742949	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_024894	exon16	c.1285delA	p.I429fs	.	.	158	10	96	0	.	.
NOL4	8715	hgsc.bcm.edu;broad.mit.edu	37	18	31803122	31803122	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOL4	NM_003787	exon1	c.96delA	p.K32fs	.	.	118	10	80	0	.	93
NOL6	65083	hgsc.bcm.edu;broad.mit.edu	37	9	33464082	33464082	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOL6	NM_022917	exon22	c.2857delC	p.Q953fs	.	.	170	11	138	0	.	92
NOM1	64434	hgsc.bcm.edu;broad.mit.edu	37	7	156754952	156754952	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOM1	NM_138400	exon5	c.1740delT	p.A580fs	.	.	229	14	174	0	.	90
NOP14	8602	hgsc.bcm.edu;broad.mit.edu	37	4	2950011	2950011	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOP14	NM_003703	exon9	c.1407delA	p.K469fs	.	.	159	10	134	0	.	91
NOP58	51602	hgsc.bcm.edu;broad.mit.edu	37	2	203168133	203168133	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOP58	NM_015934	exon15	c.1564delA	p.K522fs	.	.	273	19	194	0	.	90
NOP9	161424	hgsc.bcm.edu	37	14	24769849	24769849	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_174913	exon2	c.A483G	p.A161A	.	.	127	3	135	0	.	.
NOS3	4846	bcgsc.ca	37	7	150696112	150696112	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOS3	NM_001160111	exon7	c.C895G	p.P299A	.	.	212	8	161	0	.	1011
NOX5	79400	bcgsc.ca	37	15	69339868	69339868	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NOX5	NM_024505	exon12	c.T1808C	p.I603T	.	.	80	4	74	0	.	136
NOXRED1	122945	hgsc.bcm.edu;broad.mit.edu	37	14	77872475	77872475	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001113475	exon5	c.686delG	p.G229fs	.	.	154	10	173	0	.	.
NPAS1	4861	hgsc.bcm.edu;broad.mit.edu	37	19	47546077	47546077	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NPAS1	NM_002517	exon10	c.1227delG	p.E409fs	.	.	201	13	180	0	.	90
NPAS4	266743	hgsc.bcm.edu;broad.mit.edu	37	11	66193455	66193455	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NPAS4	NM_178864	exon8	c.2404delT	p.F802fs	.	.	184	12	130	0	.	90
NPAT	4863	hgsc.bcm.edu;broad.mit.edu	37	11	108043363	108043363	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NPAT	NM_002519	exon13	c.2348delA	p.N783fs	.	.	192	13	135	0	.	117
NPHP3	27031	hgsc.bcm.edu;broad.mit.edu	37	3	132438560	132438560	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NPHP3	NM_153240	exon2	c.508delA	p.R170fs	.	.	152	11	122	0	.	91
NPHP4	261734	bcgsc.ca	37	1	6046337	6046337	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NPHP4	NM_015102	exon2	c.C13T	p.H5Y	.	.	110	5	115	0	.	515
NR1H2	7376	hgsc.bcm.edu	37	19	50881825	50881825	+	Silent	SNP	G	G	A	rs55817866	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NR1H2	NM_007121	exon6	c.G519A	p.Q173Q	.	.	106	14	90	0	G|0.903;A|0.097	186
NR2E1	7101	hgsc.bcm.edu;broad.mit.edu	37	6	108499301	108499301	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NR2E1	NM_003269	exon5	c.498delC	p.Y166fs	.	.	157	11	124	0	.	187
NR3C1	2908	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	5	142680214	142680214	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NR3C1	NM_001024094	exon5	c.T1586G	p.L529R	.	.	252	76	234	0	.	92
NRBP2	340371	hgsc.bcm.edu;broad.mit.edu	37	8	144919257	144919257	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NRBP2	NM_178564	exon14	c.1217delA	p.K406fs	.	.	231	14	146	0	.	354
NSD1	64324	hgsc.bcm.edu;broad.mit.edu	37	5	176638499	176638499	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NSD1	NM_022455	exon5	c.3099delT	p.A1033fs	.	.	168	12	122	0	.	188
NTNG2	84628	hgsc.bcm.edu;broad.mit.edu	37	9	135042407	135042407	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NTNG2	NM_032536	exon2	c.189delC	p.D63fs	.	.	201	12	167	0	.	90
NTRK3	4916	broad.mit.edu;bcgsc.ca	37	15	88680772	88680772	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NTRK3	NM_001243101	exon7	c.485delT	p.F162fs	.	.	86	9	72	0	.	3538
NUAK2	81788	hgsc.bcm.edu;broad.mit.edu	37	1	205275421	205275421	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NUAK2	NM_030952	exon5	c.585delT	p.G195fs	.	.	169	11	94	0	.	391
NUDT6	11162	hgsc.bcm.edu;broad.mit.edu	37	4	123833749	123833749	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NUDT6	NM_007083	exon3	c.472delA	p.I158fs	.	.	184	11	123	0	.	90
NUP153	9972	hgsc.bcm.edu;broad.mit.edu	37	6	17665533	17665533	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NUP153	NM_005124	exon9	c.1152delA	p.K384fs	.	.	164	10	110	0	.	637
NUP210	23225	bcgsc.ca	37	3	13395580	13395580	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NUP210	NM_024923	exon17	c.C2356T	p.R786W	.	.	217	6	161	0	.	256
NWD1	284434	hgsc.bcm.edu;broad.mit.edu	37	19	16908642	16908642	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	NWD1	NM_001007525	exon16	c.3404delT	p.V1135fs	.	.	162	15	155	0	.	7
NYAP2	57624	hgsc.bcm.edu;broad.mit.edu	37	2	226491650	226491650	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_020864	exon5	c.1636delA	p.K546fs	.	.	149	10	104	0	.	.
OBSCN	84033	hgsc.bcm.edu;broad.mit.edu	37	1	228564975	228564975	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OBSCN	NM_001271223	exon112	c.26133delC	p.L8711fs	.	.	116	10	56	0	.	403
ODF1	4956	hgsc.bcm.edu	37	8	103573019	103573019	+	Silent	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ODF1	NM_024410	exon2	c.C660G	p.P220P	.	.	207	78	115	0	.	70
OGDH	4967	bcgsc.ca	37	7	44721320	44721320	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OGDH	NM_002541	exon10	c.T1208C	p.V403A	.	.	234	6	197	0	.	228
OGFR	11054	hgsc.bcm.edu;broad.mit.edu	37	20	61444462	61444462	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OGFR	NM_007346	exon7	c.1495delG	p.G499fs	.	.	157	10	64	0	.	68
OGT	8473	hgsc.bcm.edu;broad.mit.edu	37	X	70783055	70783055	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OGT	NM_181672	exon17	c.2224delA	p.K742fs	.	.	174	11	117	0	.	113
OIT3	170392	hgsc.bcm.edu;broad.mit.edu	37	10	74673122	74673122	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OIT3	NM_152635	exon6	c.847delG	p.G283fs	.	.	163	11	115	0	.	70
OLAH	55301	hgsc.bcm.edu;broad.mit.edu	37	10	15103848	15103848	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OLAH	NM_018324	exon5	c.448delT	p.F150fs	.	.	217	14	195	0	.	68
OR10G2	26534	hgsc.bcm.edu;broad.mit.edu	37	14	22102864	22102864	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR10G2	NM_001005466	exon1	c.135delG	p.G45fs	.	.	233	14	248	0	.	69
OR10P1	121130	bcgsc.ca	37	12	56031281	56031281	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR10P1	NM_206899	exon1	c.A606G	p.T202T	.	.	87	4	77	0	.	69
OR11G2	390439	hgsc.bcm.edu	37	14	20666182	20666182	+	Missense_Mutation	SNP	G	G	A	rs77471263		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR11G2	NM_001005503	exon1	c.G688A	p.G230S	.	.	185	15	127	0	.	70
OR11G2	390439	hgsc.bcm.edu	37	14	20666184	20666184	+	Silent	SNP	C	C	G	rs74538160		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR11G2	NM_001005503	exon1	c.C690G	p.G230G	.	.	185	12	130	0	.	70
OR14J1	442191	hgsc.bcm.edu;broad.mit.edu	37	6	29274914	29274914	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR14J1	NM_030946	exon1	c.448delG	p.G150fs	.	.	254	16	118	0	.	1
OR1J2	26740	hgsc.bcm.edu	37	9	125273393	125273393	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR1J2	NM_054107	exon1	c.A313T	p.I105L	.	.	134	4	108	0	.	72
OR1Q1	158131	bcgsc.ca	37	9	125377508	125377508	+	Silent	SNP	C	C	G	rs141074572	byfrequency;alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR1Q1	NM_012364	exon1	c.C492G	p.G164G	.	.	229	6	253	1	C|1.000;T|0.000	69
OR2AT4	341152	bcgsc.ca	37	11	74800205	74800205	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR2AT4	NM_001005285	exon1	c.A554G	p.D185G	.	.	125	5	93	1	.	69
OR2T8	343172	hgsc.bcm.edu;broad.mit.edu	37	1	248084801	248084801	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR2T8	NM_001005522	exon1	c.482delC	p.T161fs	.	.	192	12	119	0	.	68
OR2V2	285659	hgsc.bcm.edu	37	5	180582260	180582260	+	Silent	SNP	C	C	T	rs201952686		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR2V2	NM_206880	exon1	c.C318T	p.V106V	.	.	253	18	223	0	.	69
OR4C16	219428	hgsc.bcm.edu;bcgsc.ca	37	11	55339830	55339830	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR4C16	NM_001004701	exon1	c.C227G	p.T76S	.	.	217	11	145	0	.	70
OR4N3P	390539	bcgsc.ca	37	15	22413597	22413597	+	RNA	SNP	A	A	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	267	5	213	0	.	.
OR4Q3	441669	bcgsc.ca	37	14	20215702	20215702	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR4Q3	NM_172194	exon1	c.T116C	p.V39A	.	.	133	5	106	0	.	71
OR51A2	401667	bcgsc.ca	37	11	4976813	4976813	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR51A2	NM_001004748	exon1	c.A131T	p.N44I	.	.	529	10	346	0	.	68
OR5H1	26341	broad.mit.edu;bcgsc.ca	37	3	97851661	97851661	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR5H1	NM_001005338	exon1	c.120delG	p.M40fs	.	.	661	18	578	0	.	136
OR5M3	219482	hgsc.bcm.edu;broad.mit.edu	37	11	56237709	56237709	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR5M3	NM_001004742	exon1	c.265delA	p.T89fs	.	.	151	10	113	0	.	70
OR5T3	390154	hgsc.bcm.edu;broad.mit.edu	37	11	56020026	56020026	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR5T3	NM_001004747	exon1	c.351delA	p.A117fs	.	.	159	10	101	0	.	68
OR6S1	341799	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	21109487	21109487	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR6S1	NM_001001968	exon1	c.G364A	p.A122T	.	.	118	23	114	0	.	70
OR7A10	390892	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	14952035	14952035	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR7A10	NM_001005190	exon1	c.T655G	p.S219A	.	.	65	15	43	0	.	68
OR8H1	219469	hgsc.bcm.edu;broad.mit.edu	37	11	56057710	56057710	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OR8H1	NM_001005199	exon1	c.829delT	p.Y277fs	.	.	217	14	126	0	.	71
OSBP	5007	hgsc.bcm.edu;broad.mit.edu	37	11	59345771	59345771	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OSBP	NM_002556	exon12	c.1911delA	p.K637fs	.	.	239	15	214	0	.	267
OTOA	146183	hgsc.bcm.edu;broad.mit.edu	37	16	21742178	21742178	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OTOA	NM_144672	exon20	c.2228delC	p.A743fs	.	.	159	10	158	0	.	92
OTOP1	133060	bcgsc.ca	37	4	4204302	4204302	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OTOP1	NM_177998	exon4	c.T603G	p.F201L	.	.	91	5	66	0	.	92
OTUD7B	56957	hgsc.bcm.edu;broad.mit.edu	37	1	149922079	149922079	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OTUD7B	NM_020205	exon8	c.891delT	p.F297fs	.	.	179	12	85	0	.	502
OVGP1	5016	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	111957947	111957947	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OVGP1	NM_002557	exon11	c.A1176G	p.L392L	.	.	95	29	84	0	.	135
OXCT1	5019	hgsc.bcm.edu;broad.mit.edu	37	5	41862804	41862804	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	OXCT1	NM_000436	exon2	c.127delT	p.Y43fs	.	.	185	13	173	0	.	133
P4HTM	54681	hgsc.bcm.edu;broad.mit.edu	37	3	49043193	49043193	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	P4HTM	NM_177938	exon7	c.1240delC	p.P414fs	.	.	133	10	109	0	.	205
PA2G4P4	647033	bcgsc.ca	37	3	156528032	156528032	+	RNA	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	84	4	48	0	.	.
PACRG	135138	hgsc.bcm.edu;broad.mit.edu	37	6	163483224	163483224	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PACRG	NM_001080379	exon3	c.334delT	p.F112fs	.	.	211	13	169	0	.	69
PADI3	51702	hgsc.bcm.edu;broad.mit.edu	37	1	17593227	17593227	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PADI3	NM_016233	exon5	c.422delG	p.W141fs	.	.	186	12	153	0	.	132
PAK2	5062	hgsc.bcm.edu;broad.mit.edu	37	3	196541368	196541368	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PAK2	NM_002577	exon11	c.982delG	p.G328fs	.	.	222	14	154	0	.	957
PAPOLA	10914	hgsc.bcm.edu;broad.mit.edu	37	14	96991682	96991682	+	Frame_Shift_Del	DEL	A	A	-	rs35783174		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PAPOLA	NM_001252006	exon4	c.285delA	p.G95fs	.	.	135	10	114	0	.	68
PAPSS1	9061	hgsc.bcm.edu;broad.mit.edu	37	4	108615045	108615045	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PAPSS1	NM_005443	exon3	c.293delA	p.N98fs	.	.	108	11	103	0	.	94
PARG	8505	hgsc.bcm.edu;broad.mit.edu	37	10	51077558	51077558	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PARG	NM_003631	exon10	c.2032delA	p.T678fs	.	.	213	13	181	0	.	948
PARP14	54625	hgsc.bcm.edu;broad.mit.edu	37	3	122437236	122437236	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PARP14	NM_017554	exon14	c.4238delA	p.Q1413fs	.	.	159	13	89	0	.	525
PBX4	80714	hgsc.bcm.edu;broad.mit.edu	37	19	19681606	19681606	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PBX4	NM_025245	exon3	c.230delC	p.P77fs	.	.	133	10	97	0	.	154
PC	5091	hgsc.bcm.edu;broad.mit.edu	37	11	66638785	66638785	+	Splice_Site	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PC	NM_001040716	exon7	c.487+1G>-	.	.	.	154	10	108	0	.	228
PCBD2	84105	hgsc.bcm.edu;broad.mit.edu	37	5	134296318	134296318	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCBD2	NM_032151	exon4	c.340delA	p.K114fs	.	.	198	15	167	0	.	90
PCBP3	54039	hgsc.bcm.edu;ucsc.edu;mdanderson.org	37	21	47320946	47320946	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCBP3	NM_001130141	exon5	c.C258A	p.C86X	.	.	90	13	93	0	.	227
PCCB	5096	hgsc.bcm.edu;broad.mit.edu	37	3	135979364	135979364	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCCB	NM_001178014	exon5	c.476delA	p.Q159fs	.	.	152	10	123	0	.	90
PCDHAC1	56135	hgsc.bcm.edu;broad.mit.edu	37	5	140306876	140306876	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCDHAC1	NM_031882	exon1	c.399delC	p.I133fs	.	.	180	11	148	0	.	28
PCDHB12	56124	hgsc.bcm.edu;broad.mit.edu	37	5	140590838	140590838	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCDHB12	NM_018932	exon1	c.2359delC	p.P787fs	.	.	194	12	138	0	.	93
PCDHB2	56133	hgsc.bcm.edu	37	5	140475647	140475647	+	Missense_Mutation	SNP	G	G	A	rs149320062	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCDHB2	NM_018936	exon1	c.G1273A	p.V425I	.	.	246	26	185	0	G|0.999;A|0.001	96
PCDHGA1	56114	hgsc.bcm.edu;broad.mit.edu	37	5	140711785	140711785	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCDHGA1	NM_018912	exon1	c.1534delG	p.G512fs	.	.	150	11	113	0	.	137
PCDHGA5	56110	ucsc.edu;bcgsc.ca	37	5	140745972	140745972	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCDHGA5	NM_032054	exon1	c.A2075G	p.Y692C	.	.	208	67	199	0	.	35
PCMT1	5110	hgsc.bcm.edu;broad.mit.edu	37	6	150123486	150123486	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCMT1	NM_005389	exon7	c.829delA	p.K277fs	.	.	183	11	164	0	.	91
PCNXL3	399909	bcgsc.ca	37	11	65391400	65391400	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCNXL3	NM_032223	exon13	c.A2512G	p.S838G	.	.	125	5	98	0	.	46
PCOLCE2	26577	hgsc.bcm.edu;broad.mit.edu	37	3	142548586	142548586	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PCOLCE2	NM_013363	exon6	c.813delA	p.K271fs	.	.	155	10	187	0	.	93
PDE12	201626	hgsc.bcm.edu;broad.mit.edu	37	3	57545384	57545384	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PDE12	NM_177966	exon3	c.1483delG	p.G495fs	.	.	214	13	166	0	.	22
PDE1C	5137	hgsc.bcm.edu;broad.mit.edu	37	7	31793035	31793035	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PDE1C	NM_001191058	exon19	c.2273delA	p.K758fs	.	.	189	13	182	0	.	94
PDE2A	5138	hgsc.bcm.edu	37	11	72342169	72342169	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PDE2A	NM_001243784	exon2	c.34delC	p.L12fs	.	.	133	10	85	0	.	156
PDE4D	5144	hgsc.bcm.edu;broad.mit.edu	37	5	58271490	58271490	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PDE4D	NM_001104631	exon14	c.2007delA	p.K669fs	.	.	180	11	142	0	.	226
PDE7A	5150	hgsc.bcm.edu;broad.mit.edu	37	8	66753692	66753692	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PDE7A	NM_001242318	exon1	c.52delC	p.Q18fs	.	.	234	14	111	0	.	90
PDGFA	5154	hgsc.bcm.edu;broad.mit.edu	37	7	540104	540104	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PDGFA	NM_002607	exon6	c.613delA	p.R205fs	.	.	166	11	133	0	.	454
PEAK1	0	hgsc.bcm.edu;broad.mit.edu	37	15	77472174	77472174	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_024776	exon5	c.2095delA	p.R699fs	.	.	146	10	126	0	.	.
PEAR1	375033	bcgsc.ca	37	1	156878771	156878771	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PEAR1	NM_001080471	exon11	c.T1354C	p.S452P	.	.	240	7	97	0	.	71
PELP1	27043	broad.mit.edu;bcgsc.ca	37	17	4607257	4607257	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PELP1	NM_014389	exon1	c.150delG	p.G50fs	.	.	80	8	104	0	.	24
PER3	8863	hgsc.bcm.edu;broad.mit.edu	37	1	7895908	7895908	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PER3	NM_016831	exon19	c.3274delA	p.K1092fs	.	.	228	15	172	0	.	93
PFKFB4	5210	hgsc.bcm.edu;broad.mit.edu	37	3	48576735	48576735	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PFKFB4	NM_004567	exon6	c.462delT	p.F154fs	.	.	223	14	208	0	.	153
PGM1	5236	hgsc.bcm.edu;broad.mit.edu	37	1	64125267	64125267	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PGM1	NM_001172818	exon11	c.1664delC	p.A555fs	.	.	230	20	161	0	.	228
PHF23	79142	bcgsc.ca	37	17	7139358	7139358	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PHF23	NM_024297	exon4	c.T888C	p.A296A	.	.	43	4	69	0	.	90
PHGR1	644844	bcgsc.ca	37	15	40648462	40648462	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001145643	exon3	c.T207C	p.P69P	.	.	119	9	94	0	.	.
PHTF2	57157	hgsc.bcm.edu;broad.mit.edu	37	7	77579071	77579071	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PHTF2	NM_001127357	exon15	c.1934delT	p.L645fs	.	.	202	13	144	0	.	23
PIAS2	9063	hgsc.bcm.edu;broad.mit.edu	37	18	44444168	44444168	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PIAS2	NM_173206	exon3	c.543delT	p.F181fs	.	.	169	13	121	0	.	662
PIF1	80119	hgsc.bcm.edu;broad.mit.edu	37	15	65108937	65108937	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PIF1	NM_025049	exon12	c.1702delT	p.S568fs	.	.	213	13	180	0	.	227
PIH1D2	120379	hgsc.bcm.edu	37	11	111941932	111941932	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PIH1D2	NM_001082619	exon4	c.377delA	p.N126fs	.	.	225	14	169	0	.	69
PIK3C2A	5286	hgsc.bcm.edu;broad.mit.edu	37	11	17150951	17150951	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PIK3C2A	NM_002645	exon12	c.2295delT	p.F765fs	.	.	172	13	128	0	.	1310
PIK3CB	5291	hgsc.bcm.edu;broad.mit.edu	37	3	138461437	138461437	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PIK3CB	NM_006219	exon3	c.584delG	p.G195fs	.	.	147	10	134	0	.	1311
PIK3R4	30849	bcgsc.ca	37	3	130454770	130454770	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PIK3R4	NM_014602	exon3	c.A810G	p.G270G	.	.	64	4	58	0	.	1471
PIKFYVE	200576	bcgsc.ca	37	2	209190529	209190529	+	Silent	SNP	T	T	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PIKFYVE	NM_015040	exon20	c.T2994G	p.T998T	.	.	86	4	81	0	.	583
PITRM1	10531	hgsc.bcm.edu;broad.mit.edu	37	10	3207693	3207693	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PITRM1	NM_014889	exon5	c.445delT	p.S149fs	.	.	148	10	110	0	.	91
PKD1L1	168507	bcgsc.ca	37	7	47852838	47852838	+	Silent	SNP	G	G	T	rs148228674	alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PKD1L1	NM_138295	exon49	c.C7227A	p.P2409P	.	.	159	5	108	0	G|1.000;A|0.000	145
PKN2	5586	hgsc.bcm.edu;broad.mit.edu	37	1	89273411	89273411	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PKN2	NM_006256	exon15	c.2055delA	p.I685fs	.	.	135	11	106	0	.	522
PKN2	5586	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	89236054	89236054	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PKN2	NM_006256	exon4	c.C524A	p.T175K	.	.	141	34	132	0	.	522
PLAU	5328	hgsc.bcm.edu;broad.mit.edu	37	10	75673438	75673438	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PLAU	NM_002658	exon7	c.602delG	p.R201fs	.	.	187	12	156	0	.	118
PLEC	5339	hgsc.bcm.edu;broad.mit.edu	37	8	144991218	144991218	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PLEC	NM_201380	exon32	c.13182delC	p.P4394fs	.	.	251	15	99	0	.	141
PLEKHA3	65977	hgsc.bcm.edu;broad.mit.edu	37	2	179355529	179355529	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PLEKHA3	NM_019091	exon3	c.301delA	p.K101fs	.	.	194	14	131	0	.	227
PLEKHA8P1	51054	hgsc.bcm.edu;broad.mit.edu	37	12	45567655	45567655	+	RNA	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PLEKHA8P1	.	.	.	.	.	.	250	15	205	0	.	226
PLIN1	5346	hgsc.bcm.edu;broad.mit.edu	37	15	90210976	90210976	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PLIN1	NM_001145311	exon7	c.820delC	p.R274fs	.	.	154	11	103	0	.	91
PLK1	5347	hgsc.bcm.edu;broad.mit.edu	37	16	23695373	23695373	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PLK1	NM_005030	exon5	c.999delC	p.D333fs	.	.	153	10	116	0	.	766
PLOD2	5352	hgsc.bcm.edu;broad.mit.edu	37	3	145794581	145794581	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PLOD2	NM_182943	exon15	c.1665delT	p.F555fs	.	.	162	12	127	0	.	92
PLXNA1	5361	hgsc.bcm.edu;broad.mit.edu	37	3	126710277	126710277	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PLXNA1	NM_032242	exon2	c.1245delG	p.L415fs	.	.	216	14	197	0	.	93
PNKP	11284	hgsc.bcm.edu;broad.mit.edu	37	19	50368611	50368611	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PNKP	NM_007254	exon4	c.271delG	p.D91fs	.	.	161	10	115	0	.	253
PNPLA4	8228	hgsc.bcm.edu;broad.mit.edu	37	X	7894068	7894068	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PNPLA4	NM_004650	exon2	c.93delA	p.K31fs	.	.	158	10	162	0	.	130
PODNL1	79883	hgsc.bcm.edu;broad.mit.edu	37	19	14044198	14044198	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PODNL1	NM_024825	exon8	c.859delC	p.R287fs	.	.	169	12	158	0	.	90
POLE	5426	bcgsc.ca	37	12	133249252	133249252	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	POLE	NM_006231	exon15	c.T1647C	p.S549S	.	.	54	4	73	0	.	233
POLQ	10721	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	121192306	121192306	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	POLQ	NM_199420	exon21	c.6434delC	p.P2145fs	.	.	111	11	104	0	.	664
POLR1A	25885	hgsc.bcm.edu;broad.mit.edu	37	2	86265933	86265933	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	POLR1A	NM_015425	exon27	c.3924delA	p.K1308fs	.	.	221	14	157	0	.	93
POTEM	641455	hgsc.bcm.edu	37	14	19999340	19999340	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001145442	exon9	c.1354delA	p.S452fs	.	.	260	16	264	0	.	.
POU1F1	5449	hgsc.bcm.edu;broad.mit.edu	37	3	87309133	87309133	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	POU1F1	NM_001122757	exon6	c.865delT	p.C289fs	.	.	234	14	196	0	.	226
POU5F1	5460	hgsc.bcm.edu;broad.mit.edu	37	6	31138149	31138149	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	POU5F1	NM_002701	exon1	c.249delG	p.G83fs	.	.	202	13	78	0	.	658
POU5F2	134187	hgsc.bcm.edu;broad.mit.edu	37	5	93076558	93076558	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_153216	exon1	c.712delC	p.Q238fs	.	.	224	14	203	0	.	.
PPARGC1B	133522	bcgsc.ca	37	5	149219630	149219630	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPARGC1B	NM_133263	exon9	c.A2645G	p.D882G	.	.	120	5	101	0	.	186
PPAT	5471	hgsc.bcm.edu;broad.mit.edu	37	4	57267544	57267544	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPAT	NM_002703	exon7	c.838delT	p.C280fs	.	.	183	11	191	0	.	90
PPFIBP1	8496	hgsc.bcm.edu;broad.mit.edu	37	12	27817373	27817373	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPFIBP1	NM_003622	exon12	c.985delA	p.K329fs	.	.	131	10	137	0	.	228
PPIL2	23759	hgsc.bcm.edu;broad.mit.edu	37	22	22043036	22043036	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPIL2	NM_014337	exon15	c.1037delG	p.W346fs	.	.	184	11	125	0	.	92
PPP2R1B	5519	bcgsc.ca	37	11	111618722	111618722	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPP2R1B	NM_002716	exon11	c.A1355G	p.D452G	.	.	66	4	56	0	.	658
PPP2R3A	5523	bcgsc.ca	37	3	135745883	135745883	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPP2R3A	NM_002718	exon3	c.T2205C	p.A735A	.	.	79	4	58	0	.	662
PPP2R3B	28227	bcgsc.ca	37	X	299593	299593	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPP2R3B	NM_013239	exon11	c.G1390C	p.A464P	.	.	405	10	316	0	.	136
PPP2R5C	5527	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	102349777	102349777	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPP2R5C	NM_001161726	exon7	c.G672A	p.E224E	.	.	91	15	94	0	.	659
PPP4R1L	55370	hgsc.bcm.edu;broad.mit.edu	37	20	56826860	56826860	+	RNA	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPP4R1L	.	.	.	.	.	.	288	20	174	0	.	226
PPP4R1L	55370	hgsc.bcm.edu;broad.mit.edu	37	20	56846507	56846507	+	RNA	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPP4R1L	.	.	.	.	.	.	146	12	115	0	.	226
PPWD1	23398	hgsc.bcm.edu;broad.mit.edu	37	5	64859205	64859205	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPWD1	NM_015342	exon1	c.68delA	p.E23fs	.	.	154	10	108	0	.	91
PPWD1	23398	hgsc.bcm.edu;broad.mit.edu	37	5	64865782	64865782	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPWD1	NM_015342	exon4	c.478delT	p.F160fs	.	.	164	10	113	0	.	91
PPYR1	5540	hgsc.bcm.edu;broad.mit.edu	37	10	47087668	47087668	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PPYR1	NM_005972	exon3	c.885delC	p.I295fs	.	.	153	11	157	0	.	524
PRAP1	118471	hgsc.bcm.edu;broad.mit.edu	37	10	135165935	135165935	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRAP1	NM_145202	exon5	c.447delC	p.H149fs	.	.	163	10	116	0	.	90
PRB4	5545	hgsc.bcm.edu;broad.mit.edu	37	12	11461606	11461606	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRB4	NM_001261399	exon3	c.311delC	p.P104fs	.	.	131	11	84	0	.	91
PRDM15	63977	hgsc.bcm.edu;broad.mit.edu	37	21	43256618	43256618	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRDM15	NM_022115	exon16	c.2240delT	p.F747fs	.	.	204	14	180	0	.	90
PRDX3	10935	bcgsc.ca	37	10	120933332	120933332	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRDX3	NM_006793	exon4	c.T364C	p.F122L	.	.	77	4	53	0	.	90
PRH1	5554	hgsc.bcm.edu;broad.mit.edu	37	12	11035175	11035175	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_006250	exon3	c.223delC	p.Q75fs	.	.	214	14	220	0	.	.
PRKAG2	51422	hgsc.bcm.edu;broad.mit.edu	37	7	151372597	151372597	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRKAG2	NM_016203	exon4	c.593delC	p.P198fs	.	.	176	14	112	0	.	658
PRKDC	5591	bcgsc.ca	37	8	48805816	48805816	+	Splice_Site	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRKDC	.	.	.	.	.	.	335	3	160	0	.	1515
PROB1	389333	hgsc.bcm.edu;broad.mit.edu	37	5	138727890	138727890	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001161546	exon1	c.2881delC	p.L961fs	.	.	127	10	55	0	.	.
PRODH	5625	hgsc.bcm.edu;broad.mit.edu	37	22	18905911	18905911	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRODH	NM_016335	exon12	c.1345delC	p.Q449fs	.	.	225	14	169	0	.	289
PROKR2	128674	bcgsc.ca	37	20	5283258	5283258	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PROKR2	NM_144773	exon2	c.A583C	p.T195P	.	.	173	7	145	0	.	94
PRR3	80742	hgsc.bcm.edu;broad.mit.edu	37	6	30525950	30525950	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRR3	NM_025263	exon2	c.130delC	p.P44fs	.	.	136	12	92	0	.	90
PRRC2C	23215	hgsc.bcm.edu;broad.mit.edu	37	1	171483721	171483721	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_015172	exon4	c.331delC	p.P111fs	.	.	314	21	157	0	.	.
PRRT4	401399	bcgsc.ca	37	7	127991134	127991134	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001174164	exon6	c.C2476T	p.P826S	.	.	152	8	83	0	.	.
PRRT4	401399	hgsc.bcm.edu;broad.mit.edu	37	7	127999861	127999861	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001174164	exon3	c.185delG	p.G62fs	.	.	185	11	158	0	.	.
PRSS53	339105	hgsc.bcm.edu;broad.mit.edu	37	16	31098992	31098992	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PRSS53	NM_001039503	exon3	c.108delC	p.P36fs	.	.	130	11	115	0	.	68
PSMA5	5686	hgsc.bcm.edu;broad.mit.edu	37	1	109954503	109954503	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PSMA5	NM_002790	exon6	c.454delC	p.Q152fs	.	.	265	16	184	0	.	90
PSMD2	5708	hgsc.bcm.edu;broad.mit.edu	37	3	184025287	184025287	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PSMD2	NM_002808	exon17	c.2177delT	p.I726fs	.	.	160	11	124	0	.	90
PSMD3	5709	hgsc.bcm.edu	37	17	38137367	38137367	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PSMD3	NM_002809	exon1	c.144delG	p.T48fs	.	.	176	12	119	0	.	92
PSMG4	389362	bcgsc.ca	37	6	3264488	3264488	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001128592	exon3	c.G296C	p.W99S	.	.	243	6	108	0	.	.
PSRC1	84722	hgsc.bcm.edu;broad.mit.edu	37	1	109823600	109823600	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PSRC1	NM_001032291	exon6	c.703delC	p.R235fs	.	.	166	10	132	0	.	90
PTAR1	375743	broad.mit.edu;bcgsc.ca	37	9	72349126	72349126	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PTAR1	NM_001099666	exon4	c.368delT	p.L123fs	.	.	76	10	68	0	.	69
PTPN20A	653129	hgsc.bcm.edu	37	10	46568210	46568210	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PTPN20A	NM_001042389	exon7	c.613delA	p.S205fs	.	.	183	12	199	0	.	22
PTPN20B	26095	hgsc.bcm.edu	37	10	46584455	46584455	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_015605	exon7	c.560delA	p.N187fs	.	.	171	18	132	0	.	.
PTPN23	25930	bcgsc.ca	37	3	47454400	47454400	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PTPN23	NM_015466	exon25	c.C4636A	p.P1546T	.	.	226	11	167	0	.	227
PTPRA	5786	hgsc.bcm.edu;broad.mit.edu	37	20	2985763	2985763	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PTPRA	NM_002836	exon14	c.800delA	p.E267fs	.	.	224	15	158	0	.	227
PTPRJ	5795	hgsc.bcm.edu;broad.mit.edu	37	11	48149344	48149344	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PTPRJ	NM_001098503	exon7	c.1106delT	p.V369fs	.	.	104	10	71	0	.	541
PTPRM	5797	hgsc.bcm.edu;broad.mit.edu	37	18	8248169	8248169	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PTPRM	NM_001105244	exon17	c.2549delT	p.I850fs	.	.	202	14	190	0	.	228
PWWP2A	114825	hgsc.bcm.edu;broad.mit.edu	37	5	159520656	159520656	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PWWP2A	NM_052927	exon2	c.1001delA	p.K334fs	.	.	192	12	121	0	.	68
PXN	5829	hgsc.bcm.edu;broad.mit.edu	37	12	120652962	120652962	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PXN	NM_001243756	exon7	c.1090delG	p.V364fs	.	.	212	13	252	0	.	660
PYGO2	90780	hgsc.bcm.edu;broad.mit.edu	37	1	154931663	154931663	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PYGO2	NM_138300	exon3	c.813delT	p.F271fs	.	.	207	14	95	0	.	227
PYY	5697	bcgsc.ca	37	17	42030744	42030744	+	Silent	SNP	G	G	C	rs145980095	alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	PYY	NM_004160	exon5	c.C108G	p.P36P	.	.	352	13	277	1	G|1.000;A|0.000	90
QSOX2	169714	bcgsc.ca	37	9	139100989	139100989	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	QSOX2	NM_181701	exon12	c.A1682G	p.H561R	.	.	88	4	91	0	.	91
RAB10	10890	hgsc.bcm.edu;broad.mit.edu	37	2	26257589	26257589	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RAB10	NM_016131	exon1	c.112delT	p.F38fs	.	.	205	13	174	0	.	228
RABGEF1	27342	hgsc.bcm.edu	37	7	66270287	66270287	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RABGEF1	NM_014504	exon8	c.981delC	p.N327fs	.	.	162	10	117	0	.	228
RAD18	56852	hgsc.bcm.edu;broad.mit.edu	37	3	8977726	8977726	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RAD18	NM_020165	exon7	c.718delA	p.R240fs	.	.	175	11	131	0	.	663
RAET1G	353091	bcgsc.ca	37	6	150239486	150239486	+	Silent	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RAET1G	NM_001001788	exon4	c.C666A	p.P222P	.	.	679	12	467	1	.	90
RAG2	5897	hgsc.bcm.edu;broad.mit.edu	37	11	36614735	36614735	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RAG2	NM_001243785	exon3	c.984delT	p.F328fs	.	.	312	20	190	0	.	95
RAI1	10743	bcgsc.ca	37	17	17701294	17701294	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RAI1	NM_030665	exon3	c.5032delA	p.K1678fs	.	.	50	6	97	0	.	91
RALY	22913	hgsc.bcm.edu;broad.mit.edu	37	20	32664985	32664985	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RALY	NM_016732	exon8	c.810delG	p.Q270fs	.	.	198	12	157	0	.	91
RANBP2	5903	hgsc.bcm.edu;bcgsc.ca	37	2	109379816	109379816	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RANBP2	NM_006267	exon20	c.C2821A	p.P941T	.	.	247	11	174	0	.	675
RANBP2	5903	hgsc.bcm.edu;bcgsc.ca	37	2	109379840	109379840	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RANBP2	NM_006267	exon20	c.C2845G	p.P949A	.	.	224	10	140	0	.	675
RAPGEF3	10411	hgsc.bcm.edu	37	12	48151829	48151829	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RAPGEF3	NM_001098531	exon2	c.G39A	p.V13V	.	.	110	11	88	0	.	660
RAPGEF4	11069	hgsc.bcm.edu;broad.mit.edu	37	2	173894920	173894920	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RAPGEF4	NM_007023	exon26	c.2587delT	p.F863fs	.	.	124	10	132	0	.	274
RASA1	5921	bcgsc.ca	37	5	86633902	86633902	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RASA1	NM_002890	exon5	c.A1011G	p.E337E	.	.	157	5	126	0	.	661
RASA1	5921	hgsc.bcm.edu;broad.mit.edu	37	5	86675571	86675571	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RASA1	NM_002890	exon19	c.2507delA	p.E836fs	.	.	210	13	134	0	.	661
RB1CC1	9821	hgsc.bcm.edu;broad.mit.edu	37	8	53569774	53569774	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RB1CC1	NM_001083617	exon15	c.2615delA	p.N872fs	.	.	160	10	54	0	.	170
RB1CC1	9821	hgsc.bcm.edu;broad.mit.edu	37	8	53569803	53569803	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RB1CC1	NM_001083617	exon15	c.2586delA	p.K862fs	.	.	186	11	65	0	.	170
RBBP6	5930	bcgsc.ca	37	16	24560285	24560285	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RBBP6	NM_018703	exon3	c.A286G	p.M96V	.	.	59	4	44	0	.	230
RBM12B	389677	hgsc.bcm.edu;broad.mit.edu	37	8	94746698	94746698	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RBM12B	NM_203390	exon3	c.1941delC	p.P647fs	.	.	159	10	76	0	.	90
RBM24	221662	hgsc.bcm.edu;broad.mit.edu	37	6	17281858	17281858	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RBM24	NM_001143942	exon1	c.46delG	p.G16fs	.	.	283	19	167	0	.	92
RBM27	54439	hgsc.bcm.edu;broad.mit.edu	37	5	145608566	145608566	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RBM27	NM_018989	exon4	c.361delC	p.P121fs	.	.	166	14	172	0	.	70
RBM46	166863	hgsc.bcm.edu;broad.mit.edu	37	4	155720193	155720193	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RBM46	NM_144979	exon4	c.879delA	p.G293fs	.	.	150	10	152	0	.	69
RBM5	10181	ucsc.edu;bcgsc.ca;mdanderson.org	37	3	50152926	50152926	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	.	WGS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RBM5	NM_005778	exon21	c.G1905T	p.E635D	.	.	124	37	117	1	.	278
RBM6	10180	broad.mit.edu;bcgsc.ca	37	3	50098944	50098944	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RBM6	NM_005777	exon14	c.2403delC	p.D801fs	.	.	119	13	82	0	.	280
RBMXL3	139804	hgsc.bcm.edu;broad.mit.edu	37	X	114426075	114426075	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001145346	exon1	c.2071delG	p.G691fs	.	.	176	12	148	0	.	.
RCBTB1	55213	broad.mit.edu;bcgsc.ca	37	13	50118925	50118925	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RCBTB1	NM_018191	exon10	c.T1120C	p.F374L	.	.	88	4	72	0	.	91
RCCD1	91433	hgsc.bcm.edu;broad.mit.edu	37	15	91500927	91500927	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RCCD1	NM_001017919	exon4	c.651delG	p.A217fs	.	.	176	16	138	0	.	90
RELA	5970	hgsc.bcm.edu;broad.mit.edu	37	11	65422151	65422151	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RELA	NM_021975	exon11	c.1354delG	p.A452fs	.	.	121	10	85	0	.	872
RELN	5649	broad.mit.edu;bcgsc.ca	37	7	103205944	103205944	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RELN	NM_173054	exon34	c.4991delT	p.L1664fs	.	.	83	9	97	0	.	574
RERE	473	hgsc.bcm.edu;broad.mit.edu	37	1	8418658	8418658	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RERE	NM_001042681	exon20	c.3937delG	p.E1313fs	.	.	131	11	106	0	.	515
RERE	473	hgsc.bcm.edu;broad.mit.edu	37	1	8421412	8421412	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RERE	NM_001042681	exon18	c.2155delC	p.Q719fs	.	.	137	10	124	0	.	515
REXO2	25996	bcgsc.ca	37	11	114316717	114316717	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	REXO2	NM_015523	exon5	c.A438G	p.E146E	.	.	98	5	49	0	.	90
RGPD5	84220	hgsc.bcm.edu	37	2	110588995	110588995	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RGPD5	NM_032260	exon19	c.2568delG	p.Q856fs	.	.	148	10	87	0	.	22
RGS7	6000	hgsc.bcm.edu;broad.mit.edu	37	1	241262025	241262025	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RGS7	NM_002924	exon3	c.116delA	p.N39fs	.	.	107	11	52	0	.	232
RGS9	8787	bcgsc.ca	37	17	63221439	63221439	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RGS9	NM_003835	exon18	c.1727delC	p.A576fs	.	.	59	6	66	0	.	94
RIC8A	60626	hgsc.bcm.edu;broad.mit.edu	37	11	211289	211289	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RIC8A	NM_021932	exon5	c.909delG	p.M303fs	.	.	160	10	155	0	.	514
RICTOR	253260	bcgsc.ca	37	5	38945700	38945700	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RICTOR	NM_152756	exon34	c.A4526G	p.D1509G	.	.	204	6	129	0	.	849
RIMBP3C	150221	hgsc.bcm.edu	37	22	21901827	21901827	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001128633	exon1	c.3439delG	p.V1147fs	.	.	16	12	1	0	.	.
RLN2	6019	hgsc.bcm.edu;broad.mit.edu	37	9	5304561	5304561	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RLN2	NM_005059	exon1	c.20delT	p.F7fs	.	.	227	16	156	0	.	90
RNASEL	6041	hgsc.bcm.edu;broad.mit.edu	37	1	182555572	182555572	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RNASEL	NM_021133	exon2	c.370delT	p.Y124fs	.	.	154	10	74	0	.	336
RNF123	63891	hgsc.bcm.edu;broad.mit.edu	37	3	49740924	49740924	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RNF123	NM_022064	exon21	c.1815delG	p.L605fs	.	.	245	20	208	0	.	584
RNF17	56163	bcgsc.ca	37	13	25363884	25363884	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RNF17	NM_001184993	exon9	c.A909G	p.G303G	.	.	86	4	59	0	.	228
RP1	6101	hgsc.bcm.edu;broad.mit.edu	37	8	55539238	55539238	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RP1	NM_006269	exon4	c.2796delA	p.I932fs	.	.	171	11	68	0	.	102
RP1L1	94137	hgsc.bcm.edu	37	8	10466010	10466010	+	Missense_Mutation	SNP	C	C	A	rs181718385	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RP1L1	NM_178857	exon4	c.G5598T	p.E1866D	.	.	80	23	76	0	C|0.991;A|0.008	139
RP1L1	94137	hgsc.bcm.edu	37	8	10466019	10466019	+	Silent	SNP	A	A	T	rs199577777	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RP1L1	NM_178857	exon4	c.T5589A	p.A1863A	.	.	74	15	76	0	A|0.993;T|0.007	139
RRAGC	64121	bcgsc.ca	37	1	39318159	39318159	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RRAGC	NM_022157	exon4	c.T643C	p.F215L	.	.	109	5	92	0	.	91
RRH	10692	hgsc.bcm.edu;broad.mit.edu	37	4	110758642	110758642	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RRH	NM_006583	exon5	c.601delC	p.P201fs	.	.	174	11	200	0	.	91
RSPH4A	345895	bcgsc.ca	37	6	116938340	116938340	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RSPH4A	NM_001161664	exon1	c.A554G	p.D185G	.	.	127	5	123	0	.	90
RUFY2	55680	broad.mit.edu;bcgsc.ca	37	10	70123399	70123399	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RUFY2	NM_017987	exon15	c.1603delA	p.I535fs	.	.	64	7	70	0	.	91
RXRB	6257	hgsc.bcm.edu;broad.mit.edu	37	6	33164342	33164342	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RXRB	NM_021976	exon5	c.862delG	p.D288fs	.	.	152	10	86	0	.	189
RYR1	6261	hgsc.bcm.edu;broad.mit.edu	37	19	39008261	39008261	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RYR1	NM_001042723	exon66	c.9948delG	p.L3316fs	.	.	234	16	155	0	.	100
RYR2	6262	hgsc.bcm.edu;broad.mit.edu	37	1	237693788	237693788	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RYR2	NM_001035	exon25	c.2884delA	p.K962fs	.	.	134	10	70	0	.	158
RYR3	6263	bcgsc.ca	37	15	33922190	33922190	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	RYR3	NM_001243996	exon22	c.A2729G	p.K910R	.	.	105	4	95	0	.	520
SAAL1	113174	hgsc.bcm.edu;broad.mit.edu	37	11	18111818	18111818	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SAAL1	NM_138421	exon6	c.493delT	p.S165fs	.	.	136	10	103	0	.	90
SAMD11	148398	hgsc.bcm.edu	37	1	874450	874450	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SAMD11	NM_152486	exon6	c.461delC	p.S154fs	.	.	177	12	157	0	.	90
SAMD3	154075	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	6	130467230	130467230	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SAMD3	NM_001017373	exon10	c.1120delT	p.S374fs	.	.	98	10	82	0	.	91
SAMD7	344658	hgsc.bcm.edu;broad.mit.edu	37	3	169644580	169644580	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SAMD7	NM_182610	exon6	c.530delG	p.W177fs	.	.	169	12	141	0	.	91
SAMD8	142891	hgsc.bcm.edu;broad.mit.edu	37	10	76936360	76936360	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SAMD8	NM_001174156	exon6	c.1158delT	p.S386fs	.	.	231	18	192	0	.	90
SAMM50	25813	hgsc.bcm.edu	37	22	44379823	44379823	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SAMM50	NM_015380	exon12	c.1018delG	p.G340fs	.	.	190	13	154	0	.	91
SAMM50	25813	hgsc.bcm.edu;broad.mit.edu	37	22	44368791	44368791	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SAMM50	NM_015380	exon6	c.470delA	p.E157fs	.	.	138	10	122	0	.	91
SBF2	81846	hgsc.bcm.edu;broad.mit.edu	37	11	9864304	9864304	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SBF2	NM_030962	exon25	c.3124delA	p.T1042fs	.	.	201	12	146	0	.	93
SCAI	286205	bcgsc.ca	37	9	127904935	127904935	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SCAI	NM_173690	exon2	c.A75G	p.K25K	.	.	72	4	96	0	.	138
SCML1	6322	hgsc.bcm.edu;broad.mit.edu	37	X	17763578	17763578	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SCML1	NM_001037540	exon3	c.36delA	p.I12fs	.	.	152	12	139	0	.	290
SCN7A	6332	hgsc.bcm.edu;broad.mit.edu	37	2	167288989	167288989	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SCN7A	NM_002976	exon15	c.2431delA	p.S811fs	.	.	192	14	153	0	.	67
SCN9A	6335	hgsc.bcm.edu;broad.mit.edu	37	2	167094772	167094772	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SCN9A	NM_002977	exon20	c.3600delT	p.F1200fs	.	.	236	17	214	0	.	181
SCOC	60592	hgsc.bcm.edu;broad.mit.edu	37	4	141302170	141302170	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SCOC	NM_001153484	exon4	c.392delA	p.E131fs	.	.	167	11	161	0	.	90
SCRN3	79634	hgsc.bcm.edu	37	2	175292599	175292599	+	Missense_Mutation	SNP	T	T	G	rs74729826	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SCRN3	NM_024583	exon8	c.T1251G	p.N417K	.	.	298	31	260	0	T|0.842;G|0.157	91
SCYL2	55681	hgsc.bcm.edu;broad.mit.edu	37	12	100729661	100729661	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SCYL2	NM_017988	exon16	c.2002delG	p.G668fs	.	.	149	10	98	0	.	336
SDC3	9672	hgsc.bcm.edu;broad.mit.edu	37	1	31351530	31351530	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SDC3	NM_014654	exon2	c.196delG	p.D66fs	.	.	163	10	142	0	.	227
SDS	10993	hgsc.bcm.edu;broad.mit.edu	37	12	113835064	113835064	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SDS	NM_006843	exon6	c.559delG	p.D187fs	.	.	226	14	234	0	.	91
SEBOX	645832	bcgsc.ca	37	17	26692228	26692228	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001080837	exon1	c.A24G	p.T8T	.	.	50	4	74	0	.	.
SEC14L4	284904	hgsc.bcm.edu;broad.mit.edu	37	22	30890192	30890192	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SEC14L4	NM_001161368	exon7	c.525delT	p.F175fs	.	.	202	12	147	0	.	91
SEC22C	9117	hgsc.bcm.edu;broad.mit.edu	37	3	42599114	42599114	+	Nonsense_Mutation	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SEC22C	NM_001201584	exon5	c.601delC	p.L201X	.	.	165	11	182	0	.	90
SEC63	11231	bcgsc.ca	37	6	108233930	108233930	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SEC63	NM_007214	exon6	c.A563T	p.N188I	.	.	215	7	224	0	.	227
SECISBP2	79048	hgsc.bcm.edu;broad.mit.edu	37	9	91943618	91943618	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SECISBP2	NM_024077	exon5	c.618delA	p.A206fs	.	.	188	12	165	0	.	93
SEMA3C	10512	hgsc.bcm.edu;broad.mit.edu	37	7	80447658	80447658	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SEMA3C	NM_006379	exon5	c.404delT	p.F135fs	.	.	167	11	162	0	.	515
SEMA3E	9723	broad.mit.edu;bcgsc.ca	37	7	83119433	83119433	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SEMA3E	NM_012431	exon2	c.273delA	p.K91fs	.	.	69	7	73	0	.	93
SEMG1	6406	hgsc.bcm.edu;broad.mit.edu	37	20	43836178	43836178	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SEMG1	NM_003007	exon2	c.240delA	p.R80fs	.	.	288	17	159	0	.	92
SENP1	29843	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	48482714	48482714	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SENP1	NM_001267594	exon5	c.T250C	p.S84P	.	.	100	38	67	0	.	660
SEPT12	124404	hgsc.bcm.edu;broad.mit.edu	37	16	4827827	4827827	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SEPT12	NM_144605	exon10	c.1048delG	p.A350fs	.	.	226	16	233	0	.	91
SETBP1	26040	hgsc.bcm.edu;broad.mit.edu	37	18	42456590	42456590	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SETBP1	NM_001130110	exon4	c.601delA	p.K201fs	.	.	175	11	165	0	.	155
SETD1B	23067	broad.mit.edu;bcgsc.ca	37	12	122252067	122252067	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SETD1B	NM_015048	exon6	c.1946delC	p.A649fs	.	.	58	7	88	0	.	86
SETD2	29072	hgsc.bcm.edu;broad.mit.edu	37	3	47143007	47143007	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SETD2	NM_014159	exon8	c.4956delC	p.T1652fs	.	.	160	10	127	0	.	1273
SETD2	29072	hgsc.bcm.edu;broad.mit.edu	37	3	47143010	47143010	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SETD2	NM_014159	exon8	c.4953delT	p.F1651fs	.	.	160	12	128	0	.	1273
SETDB1	9869	hgsc.bcm.edu;broad.mit.edu	37	1	150933041	150933041	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SETDB1	NM_012432	exon16	c.2503delA	p.K835fs	.	.	154	10	79	0	.	228
SF3A1	10291	hgsc.bcm.edu;broad.mit.edu	37	22	30733103	30733103	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SF3A1	NM_005877	exon13	c.2018delC	p.P673fs	.	.	169	10	113	0	.	157
SF3B4	10262	hgsc.bcm.edu;broad.mit.edu	37	1	149895562	149895562	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SF3B4	NM_005850	exon6	c.1147delC	p.H383fs	.	.	181	11	87	0	.	91
SH3D21	79729	hgsc.bcm.edu;broad.mit.edu	37	1	36785322	36785322	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SH3D21	NM_001162530	exon14	c.1058delC	p.T353fs	.	.	248	16	230	0	.	91
SH3KBP1	30011	hgsc.bcm.edu;broad.mit.edu	37	X	19663542	19663542	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SH3KBP1	NM_031892	exon7	c.778delA	p.T260fs	.	.	160	10	91	0	.	130
SHANK3	85358	hgsc.bcm.edu;broad.mit.edu	37	22	51160703	51160703	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SHANK3	NM_033517	exon21	c.4400delG	p.R1467fs	.	.	214	13	177	0	.	69
SHROOM1	134549	hgsc.bcm.edu;broad.mit.edu	37	5	132159877	132159877	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SHROOM1	NM_133456	exon4	c.1476delC	p.P492fs	.	.	296	18	271	0	.	91
SIGLEC1	6614	bcgsc.ca	37	20	3677358	3677358	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SIGLEC1	NM_023068	exon10	c.A2558G	p.K853R	.	.	163	7	122	0	.	167
SIGLEC6	946	hgsc.bcm.edu;broad.mit.edu	37	19	52034030	52034030	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SIGLEC6	NM_198845	exon3	c.611delC	p.P204fs	.	.	164	14	127	0	.	91
SIN3A	25942	hgsc.bcm.edu;broad.mit.edu	37	15	75693144	75693144	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SIN3A	NM_001145358	exon11	c.1664delG	p.G555fs	.	.	143	10	117	0	.	230
SIPA1L1	26037	hgsc.bcm.edu;broad.mit.edu	37	14	72196875	72196875	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SIPA1L1	NM_015556	exon18	c.4781delG	p.R1594fs	.	.	189	13	167	0	.	156
SIPA1L3	23094	hgsc.bcm.edu;broad.mit.edu	37	19	38655235	38655235	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SIPA1L3	NM_015073	exon15	c.3897delC	p.D1299fs	.	.	192	12	176	0	.	91
SIRPB1	10326	hgsc.bcm.edu;broad.mit.edu	37	20	1551499	1551499	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SIRPB1	NM_006065	exon4	c.1036delC	p.L346fs	.	.	161	10	116	0	.	91
SKOR1	390598	bcgsc.ca	37	15	68124666	68124666	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SKOR1	NM_001258024	exon12	c.G2351A	p.R784Q	.	.	117	6	81	0	.	90
SLC12A9	56996	hgsc.bcm.edu;broad.mit.edu	37	7	100459490	100459490	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC12A9	NM_001267812	exon12	c.1668delG	p.K556fs	.	.	165	12	138	0	.	90
SLC15A3	51296	bcgsc.ca	37	11	60705455	60705455	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC15A3	NM_016582	exon7	c.G1478C	p.G493A	.	.	180	6	170	0	.	90
SLC17A1	6568	hgsc.bcm.edu;broad.mit.edu	37	6	25813132	25813132	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC17A1	NM_005074	exon8	c.824delT	p.F275fs	.	.	160	10	104	0	.	94
SLC17A9	63910	hgsc.bcm.edu;broad.mit.edu	37	20	61588797	61588797	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC17A9	NM_022082	exon3	c.262delG	p.G88fs	.	.	154	10	113	0	.	92
SLC1A1	6505	hgsc.bcm.edu;broad.mit.edu	37	9	4561480	4561480	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC1A1	NM_004170	exon3	c.264delA	p.G88fs	.	.	140	11	115	0	.	514
SLC1A2	6506	hgsc.bcm.edu;broad.mit.edu	37	11	35333900	35333900	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC1A2	NM_004171	exon4	c.406delG	p.V136fs	.	.	160	11	142	0	.	516
SLC22A24	283238	bcgsc.ca	37	11	62863519	62863519	+	Silent	SNP	A	A	G	rs189467728	by1000genomes	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001136506	exon6	c.T1014C	p.F338F	.	.	136	7	91	1	A|0.999;G|0.001	.
SLC25A14	9016	hgsc.bcm.edu;broad.mit.edu	37	X	129483268	129483268	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC25A14	NM_003951	exon4	c.361delA	p.K121fs	.	.	136	10	113	0	.	131
SLC2A2	6514	hgsc.bcm.edu;broad.mit.edu	37	3	170716076	170716076	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC2A2	NM_000340	exon10	c.1280delT	p.F427fs	.	.	177	11	157	0	.	515
SLC35A3	23443	hgsc.bcm.edu;broad.mit.edu	37	1	100483342	100483342	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC35A3	NM_001271685	exon7	c.984delT	p.Y328fs	.	.	193	12	197	0	.	90
SLC35A4	113829	hgsc.bcm.edu;broad.mit.edu	37	5	139946770	139946770	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC35A4	NM_080670	exon3	c.16delG	p.G6fs	.	.	161	12	120	0	.	90
SLC35C2	51006	hgsc.bcm.edu;broad.mit.edu	37	20	44979150	44979150	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC35C2	NM_173179	exon10	c.981delC	p.P327fs	.	.	183	11	128	0	.	91
SLC36A3	285641	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	5	150666921	150666921	+	Silent	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC36A3	NM_001145017	exon7	c.C717A	p.P239P	.	.	224	60	165	0	.	93
SLC36A4	120103	hgsc.bcm.edu;broad.mit.edu	37	11	92901154	92901154	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC36A4	NM_152313	exon7	c.724delT	p.S242fs	.	.	186	12	115	0	.	93
SLC38A11	151258	hgsc.bcm.edu;broad.mit.edu	37	2	165755103	165755103	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC38A11	NM_001199148	exon11	c.1065delT	p.F355fs	.	.	180	11	137	0	.	69
SLC38A4	55089	bcgsc.ca	37	12	47168899	47168899	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC38A4	NM_001143824	exon13	c.C1232T	p.P411L	.	.	131	5	141	0	.	93
SLC39A7	7922	hgsc.bcm.edu;broad.mit.edu	37	6	33170463	33170463	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC39A7	NM_006979	exon5	c.926delA	p.E309fs	.	.	155	11	81	0	.	67
SLC3A2	6520	hgsc.bcm.edu;broad.mit.edu	37	11	62649372	62649372	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC3A2	NM_001012662	exon5	c.738delG	p.K246fs	.	.	123	10	99	0	.	90
SLC44A5	204962	hgsc.bcm.edu;broad.mit.edu	37	1	75684228	75684228	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC44A5	NM_152697	exon17	c.1476delA	p.K492fs	.	.	137	10	114	0	.	95
SLC45A4	57210	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	142231725	142231725	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC45A4	NM_001080431	exon2	c.C228T	p.C76C	.	.	217	32	101	0	.	70
SLC47A2	146802	hgsc.bcm.edu;broad.mit.edu	37	17	19617255	19617255	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC47A2	NM_152908	exon4	c.326delG	p.G109fs	.	.	132	11	136	0	.	90
SLC4A11	83959	hgsc.bcm.edu;broad.mit.edu	37	20	3218620	3218620	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC4A11	NM_001174090	exon1	c.91delG	p.E31fs	.	.	147	10	111	0	.	91
SLC4A5	57835	hgsc.bcm.edu;broad.mit.edu	37	2	74451994	74451994	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC4A5	NM_021196	exon24	c.3267delA	p.K1089fs	.	.	289	19	191	0	.	98
SLC7A9	11136	bcgsc.ca	37	19	33353026	33353026	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLC7A9	NM_001243036	exon6	c.A702G	p.G234G	.	.	105	5	70	0	.	91
SLC9B1	150159	broad.mit.edu;bcgsc.ca	37	4	103826686	103826686	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001100874	exon11	c.1317delC	p.P439fs	.	.	278	12	250	0	.	.
SLCO1B3	28234	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	12	21032426	21032426	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLCO1B3	NM_019844	exon11	c.1192delA	p.K398fs	.	.	134	17	139	0	.	155
SLCO4A1	28231	hgsc.bcm.edu;broad.mit.edu	37	20	61303147	61303147	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLCO4A1	NM_016354	exon12	c.2071delC	p.P691fs	.	.	184	11	136	0	.	91
SLCO6A1	133482	hgsc.bcm.edu;broad.mit.edu	37	5	101774421	101774421	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLCO6A1	NM_173488	exon7	c.1176delA	p.K392fs	.	.	145	11	123	0	.	96
SLFN11	91607	hgsc.bcm.edu	37	17	33680769	33680769	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLFN11	NM_152270	exon4	c.1508delG	p.G503fs	.	.	346	21	362	0	.	159
SLFN12L	100506736	hgsc.bcm.edu;broad.mit.edu	37	17	33807084	33807084	+	Nonsense_Mutation	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLFN12L	NM_001195790	exon2	c.145delA	p.M49X	.	.	200	16	170	0	.	23
SLFN14	342618	hgsc.bcm.edu;broad.mit.edu	37	17	33884425	33884425	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLFN14	NM_001129820	exon1	c.657delA	p.K219fs	.	.	164	10	142	0	.	1
SLIT3	6586	hgsc.bcm.edu;broad.mit.edu	37	5	168100194	168100194	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLIT3	NM_001271946	exon33	c.3850delC	p.L1284fs	.	.	153	11	166	0	.	95
SLITRK6	84189	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	13	86369434	86369434	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SLITRK6	NM_032229	exon2	c.G1210A	p.E404K	.	.	107	13	40	0	.	137
SLX1B	79008	hgsc.bcm.edu	37	16	29466211	29466211	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_024044	exon1	c.148delA	p.K50fs	.	.	134	11	89	0	.	.
SMAD5	4090	bcgsc.ca	37	5	135513085	135513085	+	Silent	SNP	T	T	C	rs112079663		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SMAD5	.	.	.	.	.	.	160	1	154	0	.	278
SMARCC2	6601	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	56565643	56565643	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SMARCC2	NM_139067	exon21	c.C2005G	p.H669D	.	.	106	20	93	0	.	229
SMTNL1	219537	hgsc.bcm.edu;broad.mit.edu	37	11	57310817	57310817	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SMTNL1	NM_001105565	exon1	c.702delA	p.A234fs	.	.	151	10	129	0	.	23
SMYD4	114826	bcgsc.ca	37	17	1704083	1704083	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SMYD4	NM_052928	exon5	c.A605G	p.D202G	.	.	200	6	222	0	.	230
SNRK	54861	hgsc.bcm.edu	37	3	43389468	43389468	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SNRK	NM_017719	exon7	c.1717delC	p.P573fs	.	.	156	10	132	0	.	815
SOGA2	23255	hgsc.bcm.edu;broad.mit.edu	37	18	8825894	8825894	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_015210	exon15	c.4386delG	p.K1462fs	.	.	155	10	126	0	.	.
SOLH	6650	hgsc.bcm.edu;broad.mit.edu	37	16	597908	597908	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SOLH	NM_005632	exon4	c.1070delC	p.A357fs	.	.	169	11	132	0	.	523
SORBS2	8470	hgsc.bcm.edu;broad.mit.edu	37	4	186570678	186570678	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SORBS2	NM_001145673	exon10	c.1049delC	p.P350fs	.	.	192	12	233	0	.	91
SOX15	6665	hgsc.bcm.edu;broad.mit.edu	37	17	7492683	7492683	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SOX15	NM_006942	exon1	c.312delG	p.R104fs	.	.	158	11	126	0	.	135
SPAG1	6674	hgsc.bcm.edu;broad.mit.edu	37	8	101199429	101199429	+	Frame_Shift_Del	DEL	T	T	-	rs34763241		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SPAG1	NM_003114	exon8	c.783delT	p.A261fs	.	.	158	10	87	0	.	92
SPATA19	219938	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	11	133711936	133711936	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SPATA19	NM_174927	exon6	c.T502C	p.X168R	.	.	117	41	66	0	.	90
SPATA25	128497	hgsc.bcm.edu;broad.mit.edu	37	20	44515612	44515612	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_080608	exon2	c.228delG	p.G76fs	.	.	189	15	129	0	.	.
SPATA31A1	647060	hgsc.bcm.edu	37	9	39358166	39358166	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001085452	exon4	c.404delC	p.S135fs	.	.	159	10	137	0	.	.
SPATA31A5	727905	hgsc.bcm.edu	37	9	41506041	41506041	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001113541	exon4	c.3313delC	p.P1105fs	.	.	174	11	107	0	.	.
SPATA31A6	389730	hgsc.bcm.edu;broad.mit.edu	37	9	43625186	43625186	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001145196	exon4	c.3501delT	p.F1167fs	.	.	286	19	363	0	.	.
SPATA31D4	389761	hgsc.bcm.edu	37	9	84545071	84545071	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001145197	exon3	c.289delA	p.K97fs	.	.	182	12	160	0	.	.
SPATA4	132851	hgsc.bcm.edu;broad.mit.edu	37	4	177114210	177114210	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SPATA4	NM_144644	exon3	c.366delA	p.K122fs	.	.	181	13	171	0	.	90
SPECC1	92521	hgsc.bcm.edu;broad.mit.edu	37	17	19999991	19999991	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SPECC1	NM_001033553	exon2	c.27delC	p.N9fs	.	.	158	11	169	0	.	639
SPG20	23111	hgsc.bcm.edu;broad.mit.edu	37	13	36878657	36878657	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SPG20	NM_015087	exon9	c.1846delA	p.T616fs	.	.	165	10	145	0	.	90
SPRR3	6707	mdanderson.org	37	1	152975715	152975715	+	Silent	SNP	C	C	T	rs63405761	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SPRR3	NM_001097589	exon2	c.C219T	p.G73G	.	.	170	62	78	0	A|0.000;C|0.697;T|0.303	45
SPRR3	6707	mdanderson.org	37	1	152975739	152975739	+	Silent	SNP	T	T	A	rs17851565	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SPRR3	NM_001097589	exon2	c.T243A	p.G81G	.	.	155	26	87	0	A|0.010;C|0.001;T|0.988	45
SPTBN5	51332	bcgsc.ca	37	15	42166056	42166056	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SPTBN5	NM_016642	exon25	c.T4772C	p.V1591A	.	.	114	6	109	0	.	91
SRD5A2	6716	bcgsc.ca	37	2	31805883	31805883	+	RNA	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	92	9	58	0	.	.
SRGAP1	57522	hgsc.bcm.edu;broad.mit.edu	37	12	64536183	64536183	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SRGAP1	NM_020762	exon22	c.2989delA	p.K997fs	.	.	136	10	112	0	.	653
SRP72	6731	hgsc.bcm.edu;broad.mit.edu	37	4	57333820	57333820	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SRP72	NM_006947	exon1	c.19delG	p.G7fs	.	.	136	10	135	0	.	116
SRPR	6734	hgsc.bcm.edu;broad.mit.edu	37	11	126136482	126136482	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SRPR	NM_003139	exon6	c.729delA	p.K243fs	.	.	231	14	193	0	.	90
SRRM3	222183	bcgsc.ca	37	7	75914937	75914937	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	247	22	196	0	.	.
SSC5D	284297	hgsc.bcm.edu;broad.mit.edu	37	19	56002276	56002276	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001195267	exon6	c.724delG	p.G242fs	.	.	161	10	31	0	.	.
SSPO	23145	hgsc.bcm.edu;bcgsc.ca	37	7	149506213	149506213	+	Splice_Site	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_198455	exon63	c.9204+1T>C	.	.	.	310	15	329	0	.	.
STAG2	10735	bcgsc.ca	37	X	123217394	123217394	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	STAG2	NM_001042749	exon29	c.A3048G	p.R1016R	.	.	73	4	51	0	.	134
STAP1	26228	hgsc.bcm.edu;broad.mit.edu	37	4	68472044	68472044	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	STAP1	NM_012108	exon9	c.857delA	p.E286fs	.	.	166	11	180	0	.	68
STAR	6770	bcgsc.ca	37	8	38008279	38008279	+	Nonsense_Mutation	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	STAR	NM_000349	exon1	c.58delA	p.M20X	.	.	29	3	66	0	.	91
STAT5B	6777	hgsc.bcm.edu;broad.mit.edu	37	17	40362447	40362447	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	STAT5B	NM_012448	exon14	c.1749delA	p.K583fs	.	.	140	10	94	0	.	850
STPG1	90529	hgsc.bcm.edu;broad.mit.edu	37	1	24696176	24696176	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001199012	exon7	c.725delA	p.K242fs	.	.	159	10	108	0	.	.
STRC	161497	hgsc.bcm.edu	37	15	43909880	43909880	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	STRC	NM_153700	exon2	c.739delC	p.L247fs	.	.	111	10	76	0	.	90
STRN	6801	hgsc.bcm.edu;broad.mit.edu	37	2	37129784	37129784	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	STRN	NM_003162	exon5	c.602delA	p.N201fs	.	.	205	15	145	0	.	91
STX1B	112755	bcgsc.ca	37	16	31012910	31012910	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	STX1B	NM_052874	exon2	c.T45C	p.D15D	.	.	84	4	72	0	.	90
STXBP5L	9515	hgsc.bcm.edu;broad.mit.edu	37	3	121001118	121001118	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	STXBP5L	NM_014980	exon20	c.2116delT	p.F706fs	.	.	138	11	103	0	.	77
SUCLA2	8803	hgsc.bcm.edu;broad.mit.edu	37	13	48562793	48562793	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SUCLA2	NM_003850	exon4	c.417delA	p.K139fs	.	.	162	10	119	0	.	226
SUCLG2	8801	bcgsc.ca	37	3	67660015	67660015	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SUCLG2	NM_001177599	exon2	c.T90C	p.V30V	.	.	76	4	66	0	.	227
SULT2B1	6820	hgsc.bcm.edu;broad.mit.edu	37	19	49079181	49079181	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SULT2B1	NM_004605	exon1	c.10delC	p.P4fs	.	.	119	10	111	0	.	91
SUN3	256979	bcgsc.ca	37	7	48026998	48026998	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SUN3	NM_152782	exon11	c.A1003G	p.N335D	.	.	109	5	89	0	.	514
SUPT20HL2	170067	hgsc.bcm.edu	37	X	24330071	24330071	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001136233	exon1	c.1362delC	p.S454fs	.	.	111	12	95	0	.	.
SURF1	6834	bcgsc.ca	37	9	136218808	136218808	+	Missense_Mutation	SNP	A	A	G	rs200841752	alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SURF1	NM_003172	exon9	c.T863C	p.L288P	.	.	84	4	83	0	A|0.999;C|0.000	289
SVEP1	79987	bcgsc.ca	37	9	113191515	113191515	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SVEP1	NM_153366	exon35	c.T5715C	p.C1905C	.	.	43	4	57	0	.	75
SVEP1	79987	hgsc.bcm.edu;broad.mit.edu	37	9	113132231	113132231	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SVEP1	NM_153366	exon47	c.10666delT	p.S3556fs	.	.	122	10	125	0	.	75
SWT1	54823	hgsc.bcm.edu;broad.mit.edu	37	1	185135718	185135718	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SWT1	NM_017673	exon3	c.99delA	p.R33fs	.	.	181	11	124	0	.	91
SYCP1	6847	hgsc.bcm.edu;broad.mit.edu	37	1	115487538	115487538	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SYCP1	NM_003176	exon25	c.2089delA	p.K697fs	.	.	153	10	123	0	.	91
SYNE1	23345	hgsc.bcm.edu;broad.mit.edu	37	6	152553297	152553297	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SYNE1	NM_182961	exon113	c.20816delA	p.N6939fs	.	.	181	13	184	0	.	607
SYT12	91683	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	66811279	66811279	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SYT12	NM_001177880	exon5	c.G792A	p.P264P	.	.	109	16	84	0	.	91
SYTL2	54843	hgsc.bcm.edu;broad.mit.edu	37	11	85435856	85435856	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	SYTL2	NM_206927	exon1	c.1644delA	p.K548fs	.	.	155	10	104	0	.	137
TACR2	6865	hgsc.bcm.edu;broad.mit.edu	37	10	71164684	71164684	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TACR2	NM_001057	exon5	c.1095delC	p.P365fs	.	.	165	10	134	0	.	522
TAF1	6872	hgsc.bcm.edu;broad.mit.edu	37	X	70597472	70597472	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TAF1	NM_004606	exon6	c.794delT	p.L265fs	.	.	159	10	113	0	.	900
TAF1A	9015	hgsc.bcm.edu;broad.mit.edu	37	1	222753126	222753126	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TAF1A	NM_005681	exon4	c.380delA	p.N127fs	.	.	203	13	140	0	.	44
TAF2	6873	hgsc.bcm.edu;broad.mit.edu	37	8	120759116	120759116	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TAF2	NM_003184	exon23	c.2937delT	p.F979fs	.	.	175	13	74	0	.	274
TAF2	6873	hgsc.bcm.edu;broad.mit.edu	37	8	120774703	120774703	+	Nonsense_Mutation	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TAF2	NM_003184	exon19	c.2510delT	p.L837X	.	.	185	12	96	0	.	274
TAOK2	9344	broad.mit.edu;bcgsc.ca	37	16	29993198	29993198	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TAOK2	NM_004783	exon10	c.768delT	p.N256fs	.	.	81	8	84	0	.	521
TAOK2	9344	hgsc.bcm.edu;broad.mit.edu	37	16	29998911	29998911	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TAOK2	NM_016151	exon16	c.3318delG	p.V1106fs	.	.	181	13	106	0	.	521
TBC1D20	128637	hgsc.bcm.edu;broad.mit.edu	37	20	428697	428697	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TBC1D20	NM_144628	exon2	c.92delA	p.K31fs	.	.	168	11	128	0	.	90
TBC1D8B	54885	hgsc.bcm.edu;broad.mit.edu	37	X	106096825	106096825	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TBC1D8B	NM_017752	exon13	c.2198delA	p.E733fs	.	.	203	13	143	0	.	133
TBC1D9	23158	bcgsc.ca	37	4	141560268	141560268	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TBC1D9	NM_015130	exon15	c.A2477G	p.E826G	.	.	92	4	90	0	.	23
TBCCD1	55171	hgsc.bcm.edu;broad.mit.edu	37	3	186272330	186272330	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TBCCD1	NM_001134415	exon6	c.1257delT	p.F419fs	.	.	114	10	86	0	.	108
TBX10	347853	hgsc.bcm.edu;broad.mit.edu	37	11	67402373	67402373	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TBX10	NM_005995	exon3	c.291delC	p.P97fs	.	.	179	11	107	0	.	90
TCEAL6	158931	bcgsc.ca	37	X	101395780	101395780	+	Missense_Mutation	SNP	T	T	G	rs111588852		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TCEAL6	NM_001006938	exon3	c.A524C	p.Q175P	.	.	137	2	59	0	.	91
TCEAL6	158931	hgsc.bcm.edu	37	X	101395773	101395773	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TCEAL6	NM_001006938	exon3	c.C531A	p.D177E	.	.	141	10	68	0	.	91
TCEAL6	158931	hgsc.bcm.edu	37	X	101395778	101395778	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TCEAL6	NM_001006938	exon3	c.G526A	p.G176R	.	.	138	18	65	0	.	91
TCERG1	10915	hgsc.bcm.edu;broad.mit.edu	37	5	145859646	145859646	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TCERG1	NM_006706	exon12	c.1875delA	p.A625fs	.	.	166	10	119	0	.	92
TCF20	6942	hgsc.bcm.edu;broad.mit.edu	37	22	42606575	42606575	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TCF20	NM_181492	exon1	c.4737delA	p.K1579fs	.	.	285	22	229	0	.	95
TCN1	6947	hgsc.bcm.edu;broad.mit.edu	37	11	59626598	59626598	+	Frame_Shift_Del	DEL	T	T	-	rs4987226		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TCN1	NM_001062	exon5	c.699delA	p.K233fs	.	.	127	10	98	0	+|0.995;-|0.005	92
TCP1	6950	hgsc.bcm.edu;broad.mit.edu	37	6	160202000	160202000	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TCP1	NM_030752	exon8	c.940delA	p.R314fs	.	.	179	12	213	0	.	153
TDRD1	56165	hgsc.bcm.edu;broad.mit.edu	37	10	115987018	115987018	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TDRD1	NM_198795	exon23	c.3363delA	p.A1121fs	.	.	212	13	195	0	.	90
TDRD6	221400	hgsc.bcm.edu;broad.mit.edu	37	6	46660975	46660975	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TDRD6	NM_001168359	exon1	c.5110delA	p.K1704fs	.	.	165	10	84	0	.	138
TENC1	23371	bcgsc.ca	37	12	53453176	53453176	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TENC1	NM_015319	exon18	c.A1781G	p.H594R	.	.	52	5	36	0	.	92
TENM2	57451	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	167553853	167553853	+	Silent	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001122679	exon12	c.C2304T	p.R768R	.	.	231	66	199	0	.	.
TFDP3	51270	hgsc.bcm.edu;broad.mit.edu	37	X	132351743	132351743	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TFDP3	NM_016521	exon1	c.545delA	p.K182fs	.	.	96	10	66	0	.	131
TFEB	7942	bcgsc.ca	37	6	41652605	41652605	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TFEB	NM_001167827	exon9	c.C1205G	p.P402R	.	.	247	7	158	0	.	659
TGM6	343641	hgsc.bcm.edu;broad.mit.edu	37	20	2384126	2384126	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TGM6	NM_198994	exon8	c.1073delC	p.T358fs	.	.	158	10	121	0	.	94
THAP10	56906	bcgsc.ca	37	15	71184496	71184496	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	THAP10	NM_020147	exon1	c.G116C	p.G39A	.	.	302	9	251	0	.	92
THAP11	57215	hgsc.bcm.edu	37	16	67876823	67876823	+	Silent	SNP	A	A	G	rs28647874	bycluster;byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	THAP11	NM_020457	exon1	c.A366G	p.Q122Q	.	.	49	7	23	0	A|0.985;G|0.015	90
THAP11	57215	hgsc.bcm.edu	37	16	67876826	67876826	+	Silent	SNP	G	G	A	rs63117363	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	THAP11	NM_020457	exon1	c.G369A	p.Q123Q	.	.	49	15	23	0	G|0.986;A|0.014	90
THNSL1	79896	hgsc.bcm.edu;broad.mit.edu	37	10	25314273	25314273	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	THNSL1	NM_024838	exon3	c.2121delT	p.A707fs	.	.	242	15	119	0	.	91
THSD7A	221981	hgsc.bcm.edu;broad.mit.edu	37	7	11632925	11632925	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	THSD7A	NM_015204	exon3	c.1227delA	p.K409fs	.	.	124	10	97	0	.	71
TLE2	7089	hgsc.bcm.edu;broad.mit.edu	37	19	3013796	3013796	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001144761	exon12	c.786delC	p.P262fs	.	.	161	10	135	0	.	.
TLX3	30012	bcgsc.ca	37	5	170736779	170736779	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TLX3	NM_021025	exon1	c.A410G	p.D137G	.	.	54	4	51	0	.	658
TM6SF1	53346	hgsc.bcm.edu;broad.mit.edu	37	15	83790732	83790732	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TM6SF1	NM_001144903	exon5	c.458delT	p.V153fs	.	.	221	15	148	0	.	91
TMA16	55319	bcgsc.ca	37	4	164435266	164435266	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_018352	exon4	c.A195C	p.Q65H	.	.	69	5	32	0	.	.
TMC4	147798	hgsc.bcm.edu;broad.mit.edu	37	19	54672280	54672280	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMC4	NM_001145303	exon4	c.587delC	p.P196fs	.	.	196	13	127	0	.	91
TMEFF2	23671	hgsc.bcm.edu;broad.mit.edu	37	2	192818525	192818525	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMEFF2	NM_016192	exon9	c.908delA	p.K303fs	.	.	139	11	115	0	.	524
TMEM104	54868	hgsc.bcm.edu;broad.mit.edu	37	17	72791152	72791152	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMEM104	NM_017728	exon7	c.429delG	p.V143fs	.	.	131	10	148	0	.	90
TMEM132B	114795	bcgsc.ca	37	12	125834096	125834096	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMEM132B	NM_052907	exon2	c.T151A	p.F51I	.	.	146	5	166	0	.	185
TMEM176A	55365	bcgsc.ca	37	7	150501517	150501517	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMEM176A	NM_018487	exon6	c.C623G	p.T208S	.	.	168	6	110	0	.	92
TMEM244	253582	hgsc.bcm.edu;broad.mit.edu	37	6	130166960	130166960	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001010876	exon2	c.71delT	p.F24fs	.	.	152	10	122	0	.	.
TMEM245	23731	bcgsc.ca	37	9	111843147	111843147	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_032012	exon8	c.T1421C	p.L474P	.	.	169	6	191	0	.	.
TMEM44	93109	bcgsc.ca	37	3	194337902	194337902	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMEM44	NM_001166305	exon7	c.C850G	p.Q284E	.	.	291	7	249	0	.	90
TMEM62	80021	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	43446967	43446967	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMEM62	NM_024956	exon9	c.G1120C	p.V374L	.	.	152	15	101	0	.	136
TMEM63A	9725	hgsc.bcm.edu;broad.mit.edu	37	1	226055702	226055702	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMEM63A	NM_014698	exon7	c.400delG	p.E134fs	.	.	180	11	74	0	.	91
TMEM8A	58986	hgsc.bcm.edu;broad.mit.edu	37	16	427749	427749	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMEM8A	NM_021259	exon2	c.221delC	p.P74fs	.	.	162	10	120	0	.	92
TMPRSS13	84000	hgsc.bcm.edu	37	11	117789312	117789312	+	Missense_Mutation	SNP	C	C	A	rs200637340	alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMPRSS13	NM_001206790	exon2	c.G263T	p.R88L	.	.	141	13	157	0	C|0.999;T|0.000	91
TMPRSS13	84000	hgsc.bcm.edu	37	11	117789314	117789314	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMPRSS13	NM_001206790	exon2	c.C261T	p.A87A	.	.	141	17	154	0	.	91
TMPRSS15	5651	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	21	19770597	19770597	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMPRSS15	NM_002772	exon2	c.A195G	p.T65T	.	.	71	23	44	0	.	160
TMPRSS7	344805	hgsc.bcm.edu;broad.mit.edu	37	3	111780666	111780666	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMPRSS7	NM_001042575	exon9	c.965delT	p.I322fs	.	.	173	12	139	0	.	70
TMTC4	84899	hgsc.bcm.edu;broad.mit.edu	37	13	101278382	101278382	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMTC4	NM_032813	exon13	c.1529delA	p.N510fs	.	.	320	23	265	0	.	155
TMX3	54495	hgsc.bcm.edu;broad.mit.edu	37	18	66367677	66367677	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TMX3	NM_019022	exon6	c.357delA	p.K119fs	.	.	187	13	130	0	.	91
TNC	3371	bcgsc.ca	37	9	117848395	117848395	+	Missense_Mutation	SNP	G	G	C	rs201758398	alternate_allele	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNC	NM_002160	exon3	c.C1615G	p.Q539E	.	.	162	6	170	0	G|0.999;A|0.001	517
TNC	3371	hgsc.bcm.edu;broad.mit.edu	37	9	117848394	117848394	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNC	NM_002160	exon3	c.1616delA	p.Q539fs	.	.	163	10	174	0	.	517
TNFSF8	944	hgsc.bcm.edu	37	9	117666406	117666406	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNFSF8	NM_001244	exon4	c.510delA	p.K170fs	.	.	260	16	258	0	.	655
TNIK	23043	broad.mit.edu;bcgsc.ca	37	3	170846630	170846630	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNIK	NM_015028	exon16	c.1646delC	p.P549fs	.	.	87	9	82	0	.	550
TNIP1	10318	bcgsc.ca	37	5	150441722	150441722	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNIP1	NM_001252385	exon4	c.A323G	p.D108G	.	.	162	5	128	1	.	91
TNIP3	79931	hgsc.bcm.edu	37	4	122078317	122078317	+	Missense_Mutation	SNP	T	T	C	rs10000692	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNIP3	NM_001244764	exon7	c.A526G	p.K176E	.	.	117	32	111	0	T|0.975;C|0.025	91
TNK2	10188	bcgsc.ca	37	3	195594951	195594951	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNK2	NM_001010938	exon13	c.C2407T	p.P803S	.	.	117	5	68	0	.	957
TNR	7143	hgsc.bcm.edu;broad.mit.edu	37	1	175372615	175372615	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNR	NM_003285	exon4	c.637delG	p.V213fs	.	.	169	10	89	0	.	324
TNR	7143	hgsc.bcm.edu;broad.mit.edu	37	1	175375844	175375844	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNR	NM_003285	exon3	c.7delG	p.A3fs	.	.	170	10	97	0	.	324
TNRC18	84629	hgsc.bcm.edu;broad.mit.edu	37	7	5353050	5353050	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNRC18	NM_001080495	exon27	c.7472delG	p.G2491fs	.	.	168	11	91	0	.	46
TNRC6A	27327	hgsc.bcm.edu;broad.mit.edu	37	16	24807240	24807240	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNRC6A	NM_014494	exon9	c.3541delA	p.K1181fs	.	.	197	16	147	0	.	92
TNRC6A	27327	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	16	24826473	24826473	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNRC6A	NM_014494	exon19	c.A4678C	p.I1560L	.	.	214	60	178	0	.	92
TNS4	84951	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	38652631	38652631	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TNS4	NM_032865	exon2	c.T47C	p.V16A	.	.	67	15	77	1	.	155
TOMM70A	9868	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	100093979	100093979	+	Silent	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TOMM70A	NM_014820	exon7	c.C1110T	p.L370L	.	.	54	18	58	0	.	91
TOX2	84969	hgsc.bcm.edu;broad.mit.edu	37	20	42694616	42694616	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TOX2	NM_001098797	exon7	c.1225delC	p.P409fs	.	.	208	16	115	0	.	91
TP53	7157	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	7578460	7578460	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	TP53,head_neck,carcinoma,-1	TP53	NM_000546	exon5	c.T470G	p.V157G	.	.	93	34	145	0	.	70225
TPBG	7162	hgsc.bcm.edu;broad.mit.edu	37	6	83075723	83075723	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TPBG	NM_001166392	exon2	c.1045delC	p.P349fs	.	.	158	10	139	0	.	514
TPM3	7170	hgsc.bcm.edu;broad.mit.edu	37	1	154148611	154148611	+	Frame_Shift_Del	DEL	T	T	-	rs35013279		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TPM3	NM_152263	exon3	c.357delA	p.K119fs	.	.	248	16	149	0	.	416
TPPP2	122664	hgsc.bcm.edu;broad.mit.edu	37	14	21498757	21498757	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TPPP2	NM_173846	exon2	c.17delA	p.E6fs	.	.	184	11	172	0	.	90
TRAK1	22906	hgsc.bcm.edu;broad.mit.edu	37	3	42166974	42166974	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TRAK1	NM_001265608	exon2	c.154delC	p.P52fs	.	.	161	10	112	0	.	91
TRAP1	10131	hgsc.bcm.edu;broad.mit.edu	37	16	3708188	3708188	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TRAP1	NM_016292	exon18	c.2057delC	p.P686fs	.	.	141	10	114	0	.	226
TRIM31	11074	hgsc.bcm.edu;broad.mit.edu	37	6	30075888	30075888	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TRIM31	NM_007028	exon6	c.825delA	p.K275fs	.	.	267	16	139	0	.	658
TRIM33	51592	hgsc.bcm.edu;broad.mit.edu	37	1	114942160	114942160	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TRIM33	NM_033020	exon18	c.3039delA	p.K1013fs	.	.	190	13	214	0	.	1351
TRIM41	90933	hgsc.bcm.edu;broad.mit.edu	37	5	180661428	180661428	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TRIM41	NM_033549	exon6	c.1546delG	p.G516fs	.	.	202	16	77	0	.	226
TRIML2	205860	bcgsc.ca	37	4	189020270	189020270	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TRIML2	NM_173553	exon4	c.T390C	p.A130A	.	.	141	5	150	0	.	90
TRPM1	4308	bcgsc.ca	37	15	31330281	31330281	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TRPM1	NM_001252020	exon18	c.A2456C	p.N819T	.	.	80	6	45	0	.	94
TRPV3	162514	hgsc.bcm.edu;broad.mit.edu	37	17	3424284	3424284	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TRPV3	NM_001258205	exon14	c.1793delT	p.L598fs	.	.	179	12	165	0	.	94
TSPO	706	hgsc.bcm.edu;broad.mit.edu	37	22	43557161	43557161	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TSPO	NM_001256531	exon3	c.286delC	p.P96fs	.	.	197	15	173	0	.	90
TSPYL1	7259	broad.mit.edu;bcgsc.ca	37	6	116600552	116600552	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TSPYL1	NM_003309	exon1	c.442delG	p.A148fs	.	.	81	8	77	0	.	90
TTC3	7267	hgsc.bcm.edu;broad.mit.edu	37	21	38558017	38558017	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTC3	NM_001001894	exon37	c.4768delA	p.K1590fs	.	.	184	12	154	0	.	590
TTC38	55020	hgsc.bcm.edu;broad.mit.edu	37	22	46671215	46671215	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTC38	NM_017931	exon5	c.436delA	p.K146fs	.	.	164	10	118	0	.	91
TTC39C	125488	hgsc.bcm.edu;broad.mit.edu	37	18	21662977	21662977	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTC39C	NM_001135993	exon6	c.916delA	p.K306fs	.	.	185	11	112	0	.	91
TTC39C	125488	hgsc.bcm.edu;broad.mit.edu	37	18	21698147	21698147	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTC39C	NM_001135993	exon8	c.1137delA	p.L379fs	.	.	129	11	117	0	.	91
TTC5	91875	broad.mit.edu;bcgsc.ca	37	14	20763496	20763496	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTC5	NM_138376	exon8	c.1033delC	p.L345fs	.	.	58	7	66	0	.	91
TTLL4	9654	hgsc.bcm.edu;broad.mit.edu	37	2	219602445	219602445	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTLL4	NM_014640	exon3	c.46delA	p.K16fs	.	.	172	11	123	0	.	93
TTLL4	9654	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	219604821	219604821	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTLL4	NM_014640	exon4	c.G1528T	p.D510Y	.	.	231	25	185	0	.	93
TTN	7273	hgsc.bcm.edu;broad.mit.edu	37	2	179391906	179391906	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTN	NM_001267550	exon363	c.107809delA	p.I35937fs	.	.	284	17	222	0	.	636
TTN	7273	hgsc.bcm.edu;broad.mit.edu	37	2	179438689	179438689	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TTN	NM_001267550	exon326	c.72170delC	p.P24057fs	.	.	193	12	151	0	.	636
TUBA3E	112714	hgsc.bcm.edu;broad.mit.edu	37	2	130951451	130951451	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TUBA3E	NM_207312	exon4	c.964delG	p.D322fs	.	.	233	14	169	0	.	69
TUBB3	10381	hgsc.bcm.edu;broad.mit.edu	37	16	90001894	90001894	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TUBB3	NM_006086	exon4	c.1035delC	p.I345fs	.	.	170	12	128	0	.	93
TUBGCP6	85378	hgsc.bcm.edu;broad.mit.edu	37	22	50659190	50659190	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TUBGCP6	NM_020461	exon16	c.3598delG	p.E1200fs	.	.	158	11	126	0	.	93
TUSC3	7991	hgsc.bcm.edu;bcgsc.ca;mdanderson.org	37	8	15398006	15398006	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	TUSC3	NM_178234	exon1	c.G67A	p.G23R	.	.	198	79	152	0	.	516
U2AF1L4	199746	hgsc.bcm.edu;broad.mit.edu	37	19	36236292	36236292	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	U2AF1L4	NM_144987	exon1	c.1delA	p.M1fs	.	.	149	12	126	0	.	90
UBE2C	11065	hgsc.bcm.edu;broad.mit.edu	37	20	44444540	44444540	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UBE2C	NM_007019	exon5	c.469delA	p.K157fs	.	.	107	10	82	0	.	226
UBE2E1	7324	hgsc.bcm.edu;broad.mit.edu	37	3	23929187	23929187	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UBE2E1	NM_003341	exon4	c.333delA	p.P111fs	.	.	181	11	141	0	.	226
UBE2K	3093	hgsc.bcm.edu;broad.mit.edu	37	4	39779392	39779392	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UBE2K	NM_005339	exon6	c.490delA	p.K164fs	.	.	179	12	144	0	.	23
UBR1	197131	hgsc.bcm.edu;broad.mit.edu	37	15	43350584	43350584	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UBR1	NM_174916	exon10	c.1137delT	p.F379fs	.	.	157	10	113	0	.	91
UBR4	23352	broad.mit.edu;bcgsc.ca	37	1	19511759	19511759	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UBR4	NM_020765	exon15	c.1772delT	p.L591fs	.	.	70	7	88	0	.	612
UBXN6	80700	bcgsc.ca	37	19	4453507	4453507	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UBXN6	NM_025241	exon3	c.T260C	p.L87P	.	.	53	4	73	0	.	90
UBXN7	26043	hgsc.bcm.edu;broad.mit.edu	37	3	196089423	196089423	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UBXN7	NM_015562	exon9	c.970delT	p.S324fs	.	.	165	10	155	0	.	71
UFL1	23376	hgsc.bcm.edu;broad.mit.edu	37	6	96990799	96990799	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_015323	exon12	c.1309delG	p.G437fs	.	.	234	14	225	0	.	.
UGGT1	56886	hgsc.bcm.edu;broad.mit.edu	37	2	128900693	128900693	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UGGT1	NM_020120	exon17	c.1745delA	p.E582fs	.	.	131	10	80	0	.	91
UIMC1	51720	hgsc.bcm.edu;broad.mit.edu	37	5	176396191	176396191	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UIMC1	NM_016290	exon6	c.565delA	p.T189fs	.	.	239	16	173	0	.	208
UIMC1	51720	hgsc.bcm.edu;broad.mit.edu	37	5	176409596	176409596	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UIMC1	NM_016290	exon2	c.21delA	p.K7fs	.	.	236	15	171	0	.	208
UNC13C	440279	hgsc.bcm.edu;broad.mit.edu	37	15	54626040	54626040	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UNC13C	NM_001080534	exon14	c.4570delT	p.F1524fs	.	.	166	11	113	0	.	51
UNC13C	440279	hgsc.bcm.edu;broad.mit.edu	37	15	54860046	54860046	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UNC13C	NM_001080534	exon28	c.6007delA	p.K2003fs	.	.	161	10	138	0	.	51
UNK	85451	hgsc.bcm.edu;broad.mit.edu	37	17	73818612	73818612	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	UNK	NM_001080419	exon14	c.1892delC	p.S631fs	.	.	154	10	128	0	.	68
URI1	8725	mdanderson.org	37	19	30500143	30500143	+	Silent	SNP	T	T	C	rs1127493	byfrequency	TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_003796	exon8	c.T918C	p.D306D	.	.	122	25	50	0	T|0.979;C|0.021	.
USMG5	84833	broad.mit.edu;bcgsc.ca	37	10	105152164	105152164	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	USMG5	NM_001206427	exon3	c.51delA	p.K17fs	.	.	85	9	101	0	.	90
USP16	10600	broad.mit.edu;bcgsc.ca	37	21	30415885	30415885	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	USP16	NM_006447	exon13	c.1321delA	p.K441fs	.	.	82	9	98	0	.	659
USP19	10869	hgsc.bcm.edu;broad.mit.edu	37	3	49153294	49153294	+	Nonsense_Mutation	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	USP19	NM_001199161	exon11	c.1555delC	p.L519X	.	.	206	13	172	0	.	663
USP28	57646	hgsc.bcm.edu;broad.mit.edu	37	11	113704215	113704215	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	USP28	NM_020886	exon7	c.686delA	p.N229fs	.	.	149	10	134	0	.	706
USP32	84669	broad.mit.edu;bcgsc.ca	37	17	58288443	58288443	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	USP32	NM_032582	exon21	c.2355delA	p.K785fs	.	.	397	13	350	0	.	704
USP32P2	220594	broad.mit.edu	37	17	18416768	18416768	+	RNA	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	53	6	61	0	.	.
USP34	9736	hgsc.bcm.edu;broad.mit.edu	37	2	61571112	61571112	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	USP34	NM_014709	exon16	c.2338delC	p.Q780fs	.	.	152	10	154	0	.	579
USP38	84640	hgsc.bcm.edu;broad.mit.edu	37	4	144118977	144118977	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	USP38	NM_032557	exon4	c.950delT	p.V317fs	.	.	168	10	165	0	.	660
USP9X	8239	hgsc.bcm.edu;broad.mit.edu	37	X	41069811	41069811	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	USP9X	NM_001039591	exon33	c.5065delT	p.F1689fs	.	.	163	12	114	0	.	563
USP9Y	8287	hgsc.bcm.edu;broad.mit.edu	37	Y	14837077	14837077	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	USP9Y	NM_004654	exon6	c.357delT	p.R119fs	.	.	154	11	120	0	.	136
USPL1	10208	hgsc.bcm.edu;broad.mit.edu	37	13	31233407	31233407	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	USPL1	NM_005800	exon9	c.3193delT	p.F1065fs	.	.	144	11	94	0	.	524
VCAN	1462	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	5	82836233	82836233	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	VCAN	NM_004385	exon8	c.G7411T	p.V2471L	.	.	190	55	116	0	.	238
VCAN	1462	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	82833962	82833962	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	VCAN	NM_004385	exon8	c.T5140C	p.W1714R	.	.	89	30	77	0	.	238
VCX3B	425054	hgsc.bcm.edu	37	X	8433809	8433809	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001001888	exon3	c.126delA	p.G42fs	.	.	231	15	133	0	.	.
VN1R5	317705	bcgsc.ca	37	1	247419510	247419510	+	RNA	SNP	A	A	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	258	7	136	0	.	.
VPS13C	54832	hgsc.bcm.edu;broad.mit.edu	37	15	62243167	62243167	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	VPS13C	NM_020821	exon40	c.4513delC	p.L1505fs	.	.	250	16	146	0	.	92
VPS13D	55187	hgsc.bcm.edu;broad.mit.edu	37	1	12339690	12339690	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	VPS13D	NM_015378	exon20	c.4585delT	p.F1529fs	.	.	167	12	163	0	.	95
VWA8	23078	bcgsc.ca	37	13	42263625	42263625	+	Silent	SNP	A	A	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_015058	exon34	c.T3996C	p.P1332P	.	.	82	4	62	0	.	.
WDR11	55717	hgsc.bcm.edu;broad.mit.edu	37	10	122625230	122625230	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WDR11	NM_018117	exon7	c.968delT	p.I323fs	.	.	148	13	111	0	.	226
WDR16	146845	bcgsc.ca	37	17	9545098	9545098	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WDR16	NM_145054	exon13	c.T1633C	p.S545P	.	.	98	5	112	0	.	71
WDR41	55255	hgsc.bcm.edu;broad.mit.edu	37	5	76729042	76729042	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WDR41	NM_018268	exon13	c.1298delA	p.N433fs	.	.	163	10	154	0	.	90
WDR44	54521	hgsc.bcm.edu	37	X	117566781	117566781	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WDR44	NM_001184965	exon13	c.A1775T	p.N592I	.	.	162	4	105	0	.	133
WDR45B	56270	hgsc.bcm.edu;broad.mit.edu	37	17	80575188	80575188	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_019613	exon8	c.790delA	p.R264fs	.	.	150	11	150	0	.	.
WDR49	151790	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	167254660	167254660	+	Missense_Mutation	SNP	G	G	A	rs200695837		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WDR49	NM_178824	exon7	c.C896T	p.T299M	.	.	75	19	81	0	G|0.999;A|0.001	155
WDR70	55100	hgsc.bcm.edu;broad.mit.edu	37	5	37703139	37703139	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WDR70	NM_018034	exon13	c.1366delT	p.F456fs	.	.	194	14	163	0	.	187
WDR81	124997	bcgsc.ca	37	17	1635622	1635622	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WDR81	NM_001163809	exon5	c.4161delC	p.F1387fs	.	.	61	6	120	0	.	91
WDR89	112840	hgsc.bcm.edu;broad.mit.edu	37	14	64066253	64066253	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WDR89	NM_080666	exon3	c.408delA	p.K136fs	.	.	150	10	154	0	.	90
WHSC1L1	54904	hgsc.bcm.edu;broad.mit.edu	37	8	38146052	38146052	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WHSC1L1	NM_023034	exon19	c.3454delA	p.T1152fs	.	.	130	10	133	0	.	658
WNT3A	89780	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	1	228238561	228238561	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	WNT3A	NM_033131	exon3	c.G518A	p.R173Q	.	.	237	46	123	0	.	91
XDH	7498	hgsc.bcm.edu;broad.mit.edu	37	2	31571774	31571774	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	XDH	NM_000379	exon27	c.3042delT	p.F1014fs	.	.	173	11	90	0	.	158
XIRP2	129446	hgsc.bcm.edu;broad.mit.edu	37	2	168105629	168105629	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	XIRP2	NM_152381	exon9	c.7727delA	p.Q2576fs	.	.	183	11	135	0	.	104
YAP1	10413	hgsc.bcm.edu;broad.mit.edu	37	11	101984981	101984981	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	YAP1	NM_001130145	exon2	c.428delC	p.T143fs	.	.	166	10	164	0	.	659
ZAK	0	hgsc.bcm.edu;broad.mit.edu	37	2	174130888	174130888	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZAK	NM_016653	exon20	c.1813delT	p.F605fs	.	.	233	14	203	0	.	522
ZBED1	9189	hgsc.bcm.edu;broad.mit.edu	37	X	2408092	2408092	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZBED1	NM_001171135	exon2	c.669delC	p.P223fs	.	.	163	10	120	0	.	40
ZBTB32	27033	bcgsc.ca	37	19	36205963	36205963	+	Silent	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZBTB32	NM_014383	exon2	c.T435C	p.P145P	.	.	67	4	47	0	.	92
ZC3H7A	29066	hgsc.bcm.edu;broad.mit.edu	37	16	11868316	11868316	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZC3H7A	NM_014153	exon9	c.679delT	p.S227fs	.	.	114	11	84	0	.	94
ZCCHC7	84186	hgsc.bcm.edu;broad.mit.edu	37	9	37349430	37349430	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZCCHC7	NM_032226	exon7	c.1064delA	p.Q355fs	.	.	148	11	113	0	.	92
ZCCHC9	84240	hgsc.bcm.edu;broad.mit.edu	37	5	80608454	80608454	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZCCHC9	NM_001131036	exon6	c.789delA	p.T263fs	.	.	168	10	125	0	.	91
ZCWPW1	55063	hgsc.bcm.edu;broad.mit.edu	37	7	100013617	100013617	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZCWPW1	NM_001258008	exon8	c.735delA	p.K245fs	.	.	208	14	154	0	.	90
ZFAND4	93550	bcgsc.ca	37	10	46121425	46121425	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001128324	exon7	c.1846delC	p.Q616fs	.	.	40	5	77	0	.	.
ZFPM2	23414	hgsc.bcm.edu;broad.mit.edu	37	8	106573666	106573666	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZFPM2	NM_012082	exon4	c.377delG	p.W126fs	.	.	155	11	51	0	.	139
ZFYVE27	118813	hgsc.bcm.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	99517436	99517436	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZFYVE27	NM_001002261	exon11	c.G1142T	p.R381L	.	.	172	57	158	0	.	91
ZKSCAN3	80317	hgsc.bcm.edu;broad.mit.edu	37	6	28333941	28333941	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZKSCAN3	NM_024493	exon6	c.1496delA	p.Q499fs	.	.	141	11	84	0	.	92
ZMAT1	84460	hgsc.bcm.edu;broad.mit.edu	37	X	101138606	101138606	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZMAT1	NM_001011657	exon7	c.1793delA	p.K598fs	.	.	141	10	122	0	.	131
ZNF181	339318	hgsc.bcm.edu;broad.mit.edu	37	19	35230499	35230499	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF181	NM_001029997	exon3	c.202delA	p.K68fs	.	.	171	12	132	0	.	91
ZNF214	7761	hgsc.bcm.edu;broad.mit.edu	37	11	7022374	7022374	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF214	NM_013249	exon3	c.540delA	p.K180fs	.	.	135	10	85	0	.	91
ZNF217	7764	hgsc.bcm.edu;broad.mit.edu	37	20	52193620	52193620	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF217	NM_006526	exon3	c.1683delT	p.F561fs	.	.	126	12	86	0	.	723
ZNF222	7673	hgsc.bcm.edu;broad.mit.edu	37	19	44537092	44537092	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF222	NM_001129996	exon4	c.1385delA	p.E462fs	.	.	159	10	77	0	.	93
ZNF2	7549	hgsc.bcm.edu	37	2	95847047	95847047	+	Silent	SNP	G	G	A	rs112887855		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF2	NM_021088	exon5	c.G474A	p.R158R	.	.	70	7	90	0	G|0.500;A|0.500	90
ZNF350	59348	hgsc.bcm.edu;broad.mit.edu	37	19	52468815	52468815	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF350	NM_021632	exon5	c.891delA	p.K297fs	.	.	153	10	88	0	.	227
ZNF451	26036	hgsc.bcm.edu;broad.mit.edu	37	6	57012815	57012815	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF451	NM_001031623	exon10	c.1932delT	p.P644fs	.	.	158	10	78	0	.	93
ZNF484	83744	hgsc.bcm.edu;broad.mit.edu	37	9	95609839	95609839	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF484	NM_001261458	exon4	c.1236delA	p.K412fs	.	.	146	11	98	0	.	90
ZNF510	22869	bcgsc.ca	37	9	99538308	99538308	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF510	NM_014930	exon2	c.A44G	p.N15S	.	.	201	6	208	1	.	90
ZNF527	84503	hgsc.bcm.edu;broad.mit.edu	37	19	37879579	37879579	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF527	NM_032453	exon5	c.628delA	p.K210fs	.	.	153	10	89	0	.	70
ZNF532	55205	hgsc.bcm.edu;broad.mit.edu	37	18	56585671	56585671	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF532	NM_018181	exon4	c.152delC	p.S51fs	.	.	110	10	83	0	.	154
ZNF594	84622	bcgsc.ca	37	17	5085336	5085336	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF594	NM_032530	exon2	c.A2216G	p.E739G	.	.	96	5	98	0	.	71
ZNF629	23361	hgsc.bcm.edu;broad.mit.edu	37	16	30795213	30795213	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001080417	exon3	c.436delG	p.A146fs	.	.	143	10	28	0	.	.
ZNF630	57232	hgsc.bcm.edu;broad.mit.edu	37	X	47919479	47919479	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF630	NM_001037735	exon5	c.352delA	p.I118fs	.	.	177	11	128	0	.	131
ZNF667	63934	hgsc.bcm.edu;broad.mit.edu	37	19	56953129	56953129	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF667	NM_022103	exon5	c.1235delA	p.K412fs	.	.	146	10	130	0	.	91
ZNF705A	440077	broad.mit.edu;bcgsc.ca	37	12	8329621	8329621	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF705A	NM_001004328	exon5	c.345delT	p.P115fs	.	.	281	11	246	0	.	90
ZNF799	90576	bcgsc.ca	37	19	12502459	12502459	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF799	NM_001080821	exon4	c.A753C	p.K251N	.	.	79	4	62	0	.	74
ZNF804A	91752	hgsc.bcm.edu;broad.mit.edu	37	2	185800708	185800708	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF804A	NM_194250	exon4	c.585delA	p.A195fs	.	.	137	10	117	0	.	163
ZNF814	730051	hgsc.bcm.edu;broad.mit.edu	37	19	58385708	58385708	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	NM_001144989	exon3	c.1050delA	p.K350fs	.	.	298	19	198	0	.	.
ZNF83	55769	bcgsc.ca	37	19	53117810	53117810	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF83	NM_018300	exon3	c.G8T	p.G3V	.	.	86	2	59	0	.	91
ZNF85	7639	broad.mit.edu	37	19	21132578	21132578	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	C	C	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF85	NM_001256171	exon5	c.C1348T	p.H450Y	.	.	31	3	18	0	.	514
ZNF862	643641	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	7	149558251	149558251	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF862	NM_001099220	exon7	c.G2002A	p.D668N	.	.	187	63	177	0	.	69
ZNF879	345462	broad.mit.edu;bcgsc.ca	37	5	178460374	178460374	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF879	NM_001136116	exon5	c.1425delA	p.R475fs	.	.	87	9	76	0	.	47
ZNF93	81931	hgsc.bcm.edu;broad.mit.edu	37	19	20027415	20027415	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNF93	NM_031218	exon3	c.177delA	p.G59fs	.	.	157	10	117	0	.	91
ZNFX1	57169	bcgsc.ca	37	20	47865510	47865510	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZNFX1	NM_021035	exon14	c.A4051T	p.T1351S	.	.	229	6	139	0	.	24
ZSCAN26	7741	bcgsc.ca	37	6	28239932	28239932	+	Splice_Site	SNP	T	T	G	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	184	5	103	1	.	.
ZSWIM2	151112	hgsc.bcm.edu;broad.mit.edu	37	2	187713741	187713741	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	ZSWIM2	NM_182521	exon1	c.117delC	p.P39fs	.	.	246	16	197	0	.	93
RP11-672F9.1	0	bcgsc.ca	37	10	38599100	38599101	+	RNA	DNP	TC	TC	CT	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	TC	TC	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	.	.	.	.	.	
CREB3L1	90993	hgsc.bcm.edu	37	11	46342258	46342259	+	Splice_Site	DNP	CA	CA	AG	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	.	.	.	.	.	
OR11H12	440153	bcgsc.ca	37	14	19806889	19806890	+	RNA	DNP	AA	AA	CC	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	AA	AA	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	.	.	.	.	.	
CNTNAP4	85445	bcgsc.ca	37	16	76311601	76311602	+	Missense_Mutation	DNP	TG	TG	GT	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	TG	TG	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	p.L14R	.	.	.	.	.	.	.	
CCDC144B	284047	bcgsc.ca	37	17	18498058	18498059	+	RNA	DNP	TC	TC	CA	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	TC	TC	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	.	.	.	.	.	
SALL3	27164	hgsc.bcm.edu	37	18	76752544	76752545	+	Missense_Mutation	DNP	GC	GC	TT	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	p.A185L	.	.	.	.	.	.	.	
SIGLEC12	89858	hgsc.bcm.edu	37	19	52004796	52004797	+	Missense_Mutation	DNP	GA	GA	TG	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	p.F64S	.	.	.	.	.	.	.	
CD207	50489	hgsc.bcm.edu	37	2	71062832	71062833	+	Splice_Site	DNP	TG	TG	GC	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	.	.	.	.	.	
CD207	50489	hgsc.bcm.edu;bcgsc.ca	37	2	71062836	71062837	+	Missense_Mutation	DNP	CG	CG	TC	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	CG	CG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	p.R24E	.	.	.	.	.	.	.	
ABCD1P5	642762	bcgsc.ca	37	2	92031434	92031435	+	RNA	DNP	CT	CT	TC	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	CT	CT	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	.	.	.	.	.	
AC114755.7	0	bcgsc.ca	37	2	106992963	106992964	+	RNA	DNP	AT	AT	GG	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	AT	AT	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	.	.	.	.	.	
MST1	4485	bcgsc.ca	37	3	49722904	49722905	+	Missense_Mutation	DNP	CT	CT	TG	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	CT	CT	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	p.D475N	.	.	.	.	.	.	.	
CYFIP2	26999	hgsc.bcm.edu	37	5	156721860	156721861	+	Missense_Mutation	DNP	CA	CA	AT	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	CA	CA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	p.I93F	.	.	.	.	.	.	.	
CTC-308K20.3	0	bcgsc.ca	37	5	172403126	172403127	+	RNA	DNP	GT	GT	CC	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	GT	GT	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	.	.	.	.	.	
SSPO	23145	hgsc.bcm.edu	37	7	149476671	149476672	+	Silent	DNP	TG	TG	CT	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	.	.	.	.	.	
SSPO	23145	hgsc.bcm.edu	37	7	149476665	149476666	+	Splice_Site	DNP	AG	AG	GC	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	.	.	.	.	.	
GTF2IRD2P1	401375	broad.mit.edu	37	7	72664021	72664022	+	RNA	DNP	AT	AT	CA	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	AT	AT	.	.	.	.	.	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	.	.	.	.	.	
YTHDF3	253943	bcgsc.ca	37	8	64098730	64098731	+	Splice_Site	DNP	AT	AT	GA	novel		TCGA-DD-A1EG-01A-11D-A20W-10	TCGA-DD-A1EG-10A-01D-A20W-10	AT	AT	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none	.	.	Illumina HiSeq	50ee360c-e3df-4888-9999-ebb88e271d08	636fb0c9-ce48-45f0-a066-45004952b47f	.	.	.	.	.	.	.	.	.	.	.	.	.	
