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	TTotCov	TVarCov	NTotCov	NVarCov	Trna_tot	Trna_ref	Trna_var	Trna_alt1	Trna_alt2
H6PD	9563	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	9305536	9305536	+	Silent	SNP	C	C	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	101	39	108	0	10	5	5	0	0
MST1P2	11209	bcgsc.ca	37	1	16974458	16974458	+	RNA	SNP	G	G	C	rs57783259		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	452	43	389	8	0	0	0	0	0
MST1P2	11209	bcgsc.ca	37	1	16974462	16974462	+	RNA	SNP	C	C	G	rs56653359		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	428	29	377	18	0	0	0	0	0
NCMAP	400746	broad.mit.edu;bcgsc.ca	37	1	24921934	24921934	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	78	36	93	3	1	1	0	0	0
KANK4	163782	bcgsc.ca	37	1	62740357	62740357	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	61	24	50	1	0	0	0	0	0
KANK4	163782	hgsc.bcm.edu	37	1	62740357	62740358	+	Frame_Shift_Del	DEL	AA	AA	-	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	AA	AA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	62	15	51	0	0	0	0	0	0
KANK4	163782	bcgsc.ca	37	1	62740358	62740358	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	61	27	51	1	0	0	0	0	0
RABGGTB	5876	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	76253203	76253203	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	162	72	127	0	113	56	57	0	0
OVGP1	5016	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	111957940	111957940	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	98	38	91	0	63	34	29	0	0
NOTCH2	4853	bcgsc.ca	37	1	120506375	120506375	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	93	5	74	0	14	14	0	0	0
CCT3	7203	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	156294858	156294858	+	Silent	SNP	A	A	G	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	36	17	30	0	172	88	84	0	0
BPNT1	10380	ucsc.edu	37	1	220231487	220231487	+	RNA	SNP	T	T	C	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	21	1	16	0	39	11	28	0	0
HHIPL2	79802	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	222705394	222705394	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	65	31	56	0	0	0	0	0	0
C1orf95	375057	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	226784625	226784625	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	91	38	84	0	0	0	0	0	0
TMEM254-AS1	219347	ucsc.edu;bcgsc.ca	37	10	81838633	81838633	+	RNA	SNP	G	G	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	41	28	40	0	2	1	1	0	0
CYP26C1	340665	broad.mit.edu	37	10	94828244	94828244	+	Silent	SNP	C	C	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	54	4	42	0	0	0	0	0	0
MUC5B	727897	hgsc.bcm.edu	37	11	1276776	1276776	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	62	4	53	0	0	0	0	0	0
OSBPL5	114879	ucsc.edu	37	11	3143330	3143330	+	Splice_Site	SNP	T	T	C	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	39	4	33	0	0	0	0	0	0
DTX4	23220	ucsc.edu;bcgsc.ca	37	11	58949824	58949824	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	32	4	30	0	2	2	0	0	0
SF3B2	10992	broad.mit.edu;bcgsc.ca	37	11	65826742	65826742	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	141	6	132	0	153	152	1	0	0
VPS26B	112936	broad.mit.edu;bcgsc.ca	37	11	134095054	134095054	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	89	44	92	2	7	5	2	0	0
WNT10B	7480	broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	49362081	49362081	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	16	12	16	0	0	0	0	0	0
BAZ2A	11176	broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	57006901	57006901	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	122	57	88	1	8	2	6	0	0
TMTC2	160335	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	83251132	83251132	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	84	37	82	0	1	0	1	0	0
LOC100287944	0	bcgsc.ca	37	12	107126914	107126914	+	RNA	SNP	G	G	C	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	95	44	73	1	0	0	0	0	0
MIR548AI	100616347	bcgsc.ca	37	14	30095920	30095920	+	RNA	SNP	C	C	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	36	21	40	0	0	0	0	0	0
FOXA1	3169	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	38060788	38060788	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	116	63	98	0	1	1	0	0	0
C14orf169	79697	broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	73959009	73959009	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	53	24	45	0	13	8	5	0	0
IRF2BPL	64207	hgsc.bcm.edu	37	14	77493794	77493794	+	Silent	SNP	T	T	C	rs28718623		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	6	5	3	0	9962	69	9878	4	11
MOK	5891	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	102718326	102718326	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	130	60	124	0	0	0	0	0	0
C15orf56	644809	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	15	40544920	40544920	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	137	59	121	0	1	1	0	0	0
CASC5	57082	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	15	40914359	40914359	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	111	45	103	0	0	0	0	0	0
EME2	197342	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	1826070	1826070	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	62	22	39	0	0	0	0	0	0
ABCA3	21	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	2369834	2369834	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	33	10	34	0	0	0	0	0	0
ADCY9	115	hgsc.bcm.edu;bcgsc.ca	37	16	4042307	4042307	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	76	26	69	0	0	0	0	0	0
PRM3	58531	hgsc.bcm.edu	37	16	11367405	11367405	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	21	7	15	0	0	0	0	0	0
DCTPP1	79077	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	30435583	30435583	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	80	43	54	0	77	35	42	0	0
DHX38	9785	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	72142801	72142801	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	62	23	80	0	26	14	12	0	0
MYH13	8735	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	17	10215392	10215392	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	93	30	63	0	0	0	0	0	0
NCOR1	9611	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	15971431	15971431	+	Silent	SNP	T	T	G	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	117	32	90	0	0	0	0	0	0
FLJ36000	0	broad.mit.edu	37	17	21904194	21904194	+	RNA	SNP	C	C	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	129	6	75	0	0	0	0	0	0
TBC1D3P5	440419	bcgsc.ca	37	17	25752696	25752696	+	RNA	SNP	G	G	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	94	54	57	0	0	0	0	0	0
CCR7	1236	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	38711306	38711306	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	129	41	72	0	0	0	0	0	0
SLC4A1	6521	broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	42335911	42335911	+	Silent	SNP	T	T	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	189	56	118	1	0	0	0	0	0
PPP1R9B	84687	broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	48216644	48216644	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	55	16	39	0	52	37	15	0	0
KIF2B	84643	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	51901648	51901648	+	Silent	SNP	C	C	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	221	68	137	0	0	0	0	0	0
KCNH6	81033	broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	61613115	61613115	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	98	56	72	1	0	0	0	0	0
LAMA1	284217	broad.mit.edu;ucsc.edu;bcgsc.ca	37	18	6992669	6992669	+	Silent	SNP	G	G	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	137	69	118	1	6	5	1	0	0
ANKRD12	23253	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	18	9257703	9257703	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	104	40	118	0	3	2	1	0	0
MBP	4155	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	18	74700845	74700845	+	Silent	SNP	C	C	T	rs112511603		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	65	28	80	0	0	0	0	0	0
ZNF43	7594	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	21990696	21990696	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	37	20	27	0	7	6	1	0	0
FBXO46	23403	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	46215847	46215847	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	101	47	75	0	5	0	5	0	0
FANCL	55120	broad.mit.edu	37	2	58386912	58386912	+	Silent	SNP	T	T	C	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	158	6	142	0	11	11	0	0	0
CTNNA2	1496	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	80136916	80136916	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	169	70	156	0	0	0	0	0	0
DLX2	1746	broad.mit.edu	37	2	172967129	172967131	+	In_Frame_Del	DEL	GCT	GCT	-	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	GCT	GCT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	280	12	78	0	0	0	0	0	0
ZNF804A	91752	hgsc.bcm.edu	37	2	185802211	185802211	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	570	32	137	0	0	0	0	0	0
ZNF804A	91752	hgsc.bcm.edu	37	2	185802216	185802216	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	569	30	137	0	0	0	0	0	0
TFPI	7035	broad.mit.edu	37	2	188332481	188332481	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	615	9	118	0	0	0	0	0	0
WDR75	84128	broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	190306269	190306269	+	Missense_Mutation	SNP	G	G	C	rs201125667		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	406	80	173	1	20	13	7	0	0
FAM117B	150864	broad.mit.edu	37	2	203500041	203500043	+	In_Frame_Del	DEL	AGC	AGC	-	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	AGC	AGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	13	4	19	0	0	0	0	0	0
CUL3	8452	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	225362540	225362540	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	52	48	122	0	33	0	33	0	0
TRIP12	9320	bcgsc.ca	37	2	230675639	230675639	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	167	149	262	4	7	0	7	0	0
LOC150935	0	bcgsc.ca	37	2	240712194	240712194	+	RNA	SNP	C	C	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	11	10	23	0	0	0	0	0	0
FRG1B	284802	bcgsc.ca	37	20	29625956	29625956	+	RNA	SNP	G	G	A	rs147809085		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	462	15	415	6	92	92	0	0	0
FRG1B	284802	bcgsc.ca	37	20	29628185	29628185	+	RNA	SNP	A	A	G	rs76195463		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	739	21	683	9	0	0	0	0	0
STX16-NPEPL1	100534593	bcgsc.ca	37	20	57245771	57245771	+	RNA	SNP	T	T	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	38	14	29	0	0	0	0	0	0
EDN3	1908	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	20	57876603	57876603	+	Missense_Mutation	SNP	G	G	T	rs457651	alternate_allele	TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	94	43	77	0	0	0	0	0	0
RTEL1-TNFRSF6B	100533107	bcgsc.ca	37	20	62326343	62326343	+	RNA	SNP	G	G	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	94	37	84	1	0	0	0	0	0
NEFH	4744	hgsc.bcm.edu	37	22	29885581	29885604	+	In_Frame_Del	DEL	AGGCCAAGTCCCCAGAGAAGGAAG	AGGCCAAGTCCCCAGAGAAGGAAG	-	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	AGGCCAAGTCCCCAGAGAAGGAAG	AGGCCAAGTCCCCAGAGAAGGAAG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	114	47	242	0	0	0	0	0	0
ULK4	54986	hgsc.bcm.edu;bcgsc.ca	37	3	41795965	41795965	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	123	42	106	0	0	0	0	0	0
CISH	1154	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	50645901	50645901	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	49	28	64	0	64	35	29	0	0
DNAH1	25981	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	52380547	52380547	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	42	11	36	0	1	1	0	0	0
IL17RB	55540	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	53886139	53886147	+	In_Frame_Del	DEL	CCCTCTGGT	CCCTCTGGT	-	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	CCCTCTGGT	CCCTCTGGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	103	35	126	0	0	0	0	0	0
PDCL3P4	285359	bcgsc.ca	37	3	101431933	101431933	+	RNA	SNP	G	G	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	78	43	33	3	1	1	0	0	0
A4GNT	51146	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	137849689	137849689	+	Splice_Site	SNP	A	A	C	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	195	96	136	0	0	0	0	0	0
PLS1	5357	ucsc.edu;bcgsc.ca	37	3	142403182	142403182	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	230	112	212	2	57	30	27	0	0
PRKCI	5584	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	170020905	170020905	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	86	36	71	0	0	0	0	0	0
ACTL6A	86	broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	179298770	179298770	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	304	158	306	2	17	17	0	0	0
KLB	152831	broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	39435920	39435920	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	185	76	175	1	0	0	0	0	0
WDFY3	23001	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	85722839	85722839	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	36	16	24	0	3	1	2	0	0
ADAMTS12	81792	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	33534943	33534943	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	91	44	65	0	0	0	0	0	0
PCDHB14	56122	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	5	140605127	140605127	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	73	5	85	0	3	3	0	0	0
CD83	9308	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	6	14133946	14133946	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	107	49	73	0	0	0	0	0	0
E2F3	1871	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	20490451	20490451	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	101	52	83	0	2	1	1	0	0
HLA-A	3105	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	6	29910554	29910554	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	134	38	109	0	958	958	0	0	0
BRD2	6046	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	6	32944714	32944714	+	Splice_Site	SNP	G	G	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	42	21	29	0	21	1	20	0	0
CAPN11	11131	broad.mit.edu	37	6	44148401	44148401	+	Splice_Site	SNP	T	T	G	rs200836901	alternate_allele	TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	76	21	89	15	0	0	0	0	0
MDN1	23195	broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	90392973	90392973	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	113	46	99	1	0	0	0	0	0
ASCC3	10973	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	101075824	101075824	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	69	30	74	0	10	1	9	0	0
NRCAM	4897	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	107807453	107807453	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	133	50	123	0	0	0	0	0	0
OR6V1	346517	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	142750247	142750247	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	80	41	72	0	0	0	0	0	0
DNAJB6	10049	broad.mit.edu;bcgsc.ca	37	7	157177601	157177601	+	Silent	SNP	T	T	C	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	95	37	78	1	31	31	0	0	0
DNAJB6	10049	broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	157177612	157177612	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	104	43	96	1	61	61	0	0	0
SNAI2	6591	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	8	49833817	49833817	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	38	22	36	0	0	0	0	0	0
MTSS1	9788	hgsc.bcm.edu;bcgsc.ca	37	8	125570101	125570101	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	56	17	67	0	0	0	0	0	0
RFX3	5991	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	9	3301560	3301560	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	87	44	75	0	0	0	0	0	0
RASEF	158158	broad.mit.edu;bcgsc.ca	37	9	85637283	85637283	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	69	27	95	2	7	4	3	0	0
EXOSC2	23404	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	9	133579154	133579154	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	92	46	67	0	0	0	0	0	0
RNR2	6053	bcgsc.ca	37	MT	1948	1948	+	RNA	SNP	C	C	T	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	71	11	27	0	48158	41441	6677	24	16
ND6	0	bcgsc.ca	37	MT	14531	14531	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	472	454	296	4	0	0	0	0	0
CYTB	0	bcgsc.ca	37	MT	14889	14889	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	290	27	175	0	44151	40699	3398	19	35
CYTB	0	broad.mit.edu	37	MT	15887	15887	+	Splice_Site	SNP	T	T	C	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	71	6	22	0	398	356	42	0	0
GLUD2	2747	ucsc.edu	37	X	120183026	120183026	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	176	2	145	0	157	5	151	1	0
ATP11C	286410	broad.mit.edu;bcgsc.ca	37	X	138857091	138857091	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	97	54	94	1	2	2	0	0	0
CNGA2	1260	bcgsc.ca	37	X	150912596	150912596	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	97	5	90	1	0	0	0	0	0
TMEM97	27346	broad.mit.edu	37	17	26653806	26653807	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	87	8	52	0	0	0	0	0	0
AR	367	hgsc.bcm.edu	37	X	66765207	66765208	+	Missense_Mutation	DNP	GC	GC	AG	novel		TCGA-A4-A5Y0-01A-11D-A31X-10	TCGA-A4-A5Y0-11A-11D-A31X-10	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	257fa140-0c01-4edc-8247-82c96ecfb384	6022828f-21e4-4e71-8abd-439d01decea4	104	8	97	0	0	0	0	0	0
