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	Trna_tot	Trna_ref	Trna_var	Trna_alt1	Trna_alt2
LCE1E	353135	bcgsc.ca	37	1	152760096	152760096	+	Silent	SNP	A	A	T	rs115864544	bycluster;byfrequency;by1000genomes	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
LOR	4014	hgsc.bcm.edu	37	1	153233578	153233578	+	Silent	SNP	C	C	T	rs1143389	bycluster;byfrequency;by1000genomes	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
TOR3A	64222	hgsc.bcm.edu	37	1	179051300	179051300	+	Missense_Mutation	SNP	T	T	C	rs2296377	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	2	0	2	0	0
MIR548F1	100302192	bcgsc.ca	37	1	186331396	186331396	+	RNA	SNP	A	A	T	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
EIF2D	1939	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	206784680	206784680	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	17	3	14	0	0
OR2T33	391195	broad.mit.edu	37	1	248436537	248436537	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	1	1	0	0	0
MUC2	4583	broad.mit.edu	37	11	1092953	1092953	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
OR51F1	256892	bcgsc.ca	37	11	4790671	4790671	+	Silent	SNP	C	C	T	rs11033795	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
ZDHHC13	54503	broad.mit.edu	37	11	19185906	19185906	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
CCDC34	91057	bcgsc.ca	37	11	27362359	27362359	+	Missense_Mutation	SNP	T	T	G	rs17244028	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	15	15	0	0	0
WT1	7490	hgsc.bcm.edu	37	11	32456694	32456694	+	Silent	SNP	C	C	A	rs2234582	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
OR4A16	81327	ucsc.edu;bcgsc.ca	37	11	55111584	55111584	+	Missense_Mutation	SNP	A	A	T	rs10896659	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
NUMA1	4926	bcgsc.ca	37	11	71717106	71717106	+	Silent	SNP	G	G	A	rs61745941	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	80	80	0	0	0
PGM2L1	283209	bcgsc.ca	37	11	74109166	74109166	+	Missense_Mutation	SNP	A	A	G	rs12049823	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	1	1	0	0	0
B3GNT6	192134	hgsc.bcm.edu	37	11	76751542	76751542	+	Splice_Site	DEL	T	T	-	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
AKAP3	10566	bcgsc.ca	37	12	4737042	4737042	+	Silent	SNP	G	G	A	rs7972737	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	2	2	0	0	0
KANSL2	54934	broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	49075305	49075305	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	8	3	5	0	0
TUBA1C	84790	ucsc.edu	37	12	49666152	49666152	+	Silent	SNP	G	G	A	rs199599214	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	1688	1138	550	0	0
KRT1	3848	broad.mit.edu	37	12	53069236	53069256	+	In_Frame_Del	DEL	TAGCTGCTACCTCCGGAGCCA	TAGCTGCTACCTCCGGAGCCA	-	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
NAP1L1	4673	broad.mit.edu	37	12	76444319	76444319	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
TMEM119	338773	hgsc.bcm.edu	37	12	108986112	108986112	+	Silent	SNP	G	G	C	rs10861953	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	2	0	2	0	0
PARP4	143	ucsc.edu;bcgsc.ca	37	13	25016762	25016762	+	Missense_Mutation	SNP	G	G	A	rs113301501	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	61	61	0	0	0
FAM194B	220081	hgsc.bcm.edu	37	13	46170735	46170735	+	Missense_Mutation	SNP	C	C	T	rs28460344		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
FAM179B	23116	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	45542716	45542716	+	Silent	SNP	A	A	G	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	8	1	7	0	0
FERMT2	10979	bcgsc.ca	37	14	53341962	53341962	+	Silent	SNP	C	C	G	rs1130597	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	11	11	0	0	0
L3HYPDH	112849	hgsc.bcm.edu	37	14	59950676	59950676	+	Missense_Mutation	SNP	A	A	C	rs34741399	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	1	1	0	0	0
PCNXL4	64430	bcgsc.ca	37	14	60591887	60591887	+	Missense_Mutation	SNP	G	G	A	rs167437	bycluster;byfrequency;bysubmitter;by2hit2allele;by1000genomes	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	19	19	0	0	0
FAM161B	145483	bcgsc.ca	37	14	74413129	74413129	+	Silent	SNP	C	C	G	rs7146634	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	2	2	0	0	0
ISM2	145501	hgsc.bcm.edu	37	14	77965094	77965094	+	Silent	SNP	G	G	A	rs12431905	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
SERPINA1	5265	bcgsc.ca	37	14	94847415	94847415	+	Missense_Mutation	SNP	A	A	G	rs6647	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	22	22	0	0	0
TDRD9	122402	broad.mit.edu;bcgsc.ca	37	14	104394850	104394850	+	Silent	SNP	C	C	T	rs9324066	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
ZNF592	9640	bcgsc.ca	37	15	85333953	85333953	+	Silent	SNP	A	A	G	rs2241645	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	8	8	0	0	0
HDDC3	374659	hgsc.bcm.edu	37	15	91475756	91475756	+	Silent	SNP	C	C	G	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	16	0	16	0	0
RCCD1	91433	hgsc.bcm.edu	37	15	91499986	91499986	+	Missense_Mutation	SNP	G	G	T	rs4932380		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	1	0	1	0	0
FAM173A	65990	hgsc.bcm.edu	37	16	771286	771286	+	Silent	SNP	C	C	T	rs11540049	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	3	1	2	0	0
EME2	197342	hgsc.bcm.edu	37	16	1823444	1823444	+	Silent	SNP	C	C	G	rs761065		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	1	0	1	0	0
ITGAM	3684	broad.mit.edu	37	16	31342579	31342579	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	9	9	0	0	0
CBLN1	869	broad.mit.edu	37	16	49315298	49315298	+	Missense_Mutation	SNP	G	G	T	rs200550358		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	6	6	0	0	0
RBL2	5934	hgsc.bcm.edu	37	16	53468699	53468699	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
CCDC102A	92922	hgsc.bcm.edu	37	16	57562804	57562804	+	Missense_Mutation	SNP	G	G	A	rs12935069		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
ZFPM1	161882	hgsc.bcm.edu	37	16	88599697	88599705	+	In_Frame_Del	DEL	AGCCTCTGG	AGCCTCTGG	-	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	AGCCTCTGG	AGCCTCTGG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
KRTAP4-5	85289	ucsc.edu	37	17	39305785	39305785	+	Missense_Mutation	SNP	A	A	T	rs411367		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
CDK5RAP3	80279	bcgsc.ca	37	17	46053334	46053334	+	Silent	SNP	A	A	G	rs202125432	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	52	52	0	0	0
STXBP4	252983	broad.mit.edu;bcgsc.ca	37	17	53063612	53063612	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	1	1	0	0	0
TCF3	6929	hgsc.bcm.edu	37	19	1619348	1619348	+	Silent	SNP	G	G	A	rs1052696	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
TCF3	6929	hgsc.bcm.edu	37	19	1619350	1619350	+	Missense_Mutation	SNP	C	C	T	rs1052692	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
PRKCSH	5589	hgsc.bcm.edu	37	19	11558367	11558367	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	71	71	0	0	0
CILP2	148113	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	19656298	19656298	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	1	1	0	0	0
PLEKHF1	79156	hgsc.bcm.edu	37	19	30165225	30165225	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	1	1	0	0	0
RGS9BP	388531	hgsc.bcm.edu	37	19	33167455	33167455	+	Missense_Mutation	SNP	G	G	T	rs259290	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
ERCC2	2068	hgsc.bcm.edu	37	19	45867259	45867259	+	Missense_Mutation	SNP	C	C	T	rs1799793	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	14	1	13	0	0
PTGIR	5739	hgsc.bcm.edu	37	19	47127324	47127324	+	Silent	SNP	C	C	G	rs2229128	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
TPRX1	284355	ucsc.edu	37	19	48305650	48305650	+	Silent	SNP	C	C	T	rs112397458	bycluster;byfrequency;by1000genomes	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
GYS1	2997	bcgsc.ca	37	19	49485548	49485548	+	Silent	SNP	G	G	A	rs5464	bycluster;byfrequency;by1000genomes	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	94	94	0	0	0
ZNF814	730051	hgsc.bcm.edu	37	19	58385790	58385790	+	Missense_Mutation	SNP	G	G	T	rs111727691		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	9	9	0	0	0
ZNF814	730051	hgsc.bcm.edu	37	19	58385793	58385793	+	Missense_Mutation	SNP	C	C	T	rs113623532		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	9	9	0	0	0
ZBTB45	84878	hgsc.bcm.edu	37	19	59028585	59028585	+	Silent	SNP	G	G	A	rs11545185	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	7	3	4	0	0
CMPK2	129607	hgsc.bcm.edu	37	2	7005369	7005369	+	Silent	SNP	A	A	G	rs11678810		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
DYNC1I2	1781	bcgsc.ca	37	2	172585298	172585298	+	Silent	SNP	T	T	C	rs78255103	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	164	164	0	0	0
TTN	7273	bcgsc.ca	37	2	179421694	179421694	+	Missense_Mutation	SNP	A	A	G	rs9808377	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
PRR21	643905	bcgsc.ca	37	2	240982243	240982243	+	Missense_Mutation	SNP	G	G	A	rs80033040	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
TCF15	6939	hgsc.bcm.edu	37	20	590456	590456	+	Silent	SNP	A	A	G	rs282164	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
CST1	1469	broad.mit.edu	37	20	23728528	23728528	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
GGT3P	2679	broad.mit.edu	37	22	18778612	18778612	+	RNA	SNP	C	C	T	rs71260825		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
SCARF2	91179	hgsc.bcm.edu	37	22	20780097	20780097	+	Silent	SNP	G	G	C	rs759609	bycluster;byfrequency;by1000genomes	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
PI4KAP2	375133	bcgsc.ca	37	22	21832428	21832428	+	RNA	SNP	A	A	G	rs128478		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
SEMA5B	54437	hgsc.bcm.edu	37	3	122631896	122631896	+	Missense_Mutation	SNP	A	A	T	rs2276782	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
ADCY5	111	hgsc.bcm.edu	37	3	123167249	123167249	+	Silent	SNP	G	G	A	rs4678027		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
MUC4	4585	hgsc.bcm.edu	37	3	195508147	195508194	+	In_Frame_Del	DEL	GTGGATGCTGAGGAAGTGCTGGTGACAGGAAGAGGGGTGGCGTGACCT	GTGGATGCTGAGGAAGTGCTGGTGACAGGAAGAGGGGTGGCGTGACCT	-	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	GTGGATGCTGAGGAAGTGCTGGTGACAGGAAGAGGGGTGGCGTGACCT	GTGGATGCTGAGGAAGTGCTGGTGACAGGAAGAGGGGTGGCGTGACCT	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
TACC3	10460	ucsc.edu	37	4	1729795	1729795	+	Silent	SNP	A	A	G	rs200539908	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	4	4	0	0	0
CCDC96	257236	hgsc.bcm.edu	37	4	7044357	7044357	+	Silent	SNP	A	A	G	rs871133		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	4	0	4	0	0
CCDC96	257236	hgsc.bcm.edu	37	4	7044380	7044380	+	Missense_Mutation	SNP	C	C	T	rs871134		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	2	0	2	0	0
PDCD6	10016	hgsc.bcm.edu	37	5	271858	271869	+	In_Frame_Del	DEL	CCGGCCCTGGGG	CCGGCCCTGGGG	-	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	CCGGCCCTGGGG	CCGGCCCTGGGG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
NSUN2	54888	hgsc.bcm.edu	37	5	6633042	6633042	+	Silent	SNP	C	C	T	rs10062086	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	9	4	5	0	0
C9	735	broad.mit.edu;bcgsc.ca	37	5	39341264	39341264	+	Nonsense_Mutation	SNP	G	G	A	rs144138616		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
SOWAHA	134548	hgsc.bcm.edu	37	5	132149684	132149684	+	Missense_Mutation	SNP	G	G	C	rs40274	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
PROB1	389333	hgsc.bcm.edu	37	5	138730037	138730037	+	Missense_Mutation	SNP	T	T	C	rs11748963		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	1	1	0	0	0
MSH5-SAPCD1	100532732	bcgsc.ca	37	6	31712972	31712972	+	RNA	SNP	A	A	G	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
RUNX2	860	hgsc.bcm.edu	37	6	45390514	45390514	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
POU3F2	5454	hgsc.bcm.edu	37	6	99283376	99283376	+	Silent	SNP	T	T	G	rs195860		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
LOC100652739	0	bcgsc.ca	37	6	150239630	150239630	+	RNA	SNP	C	C	A	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
TTLL2	83887	bcgsc.ca	37	6	167753691	167753691	+	Silent	SNP	C	C	T	rs877653	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
SMOC2	64094	hgsc.bcm.edu	37	6	168842113	168842113	+	Silent	SNP	T	T	G	rs73270928	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
TNRC18	84629	hgsc.bcm.edu	37	7	5352635	5352635	+	Silent	SNP	T	T	G	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	2	1	1	0	0
USP42	84132	hgsc.bcm.edu	37	7	6193521	6193521	+	Missense_Mutation	SNP	G	G	C	rs61729726	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	4	4	0	0	0
ZNF679	168417	broad.mit.edu	37	7	63726993	63726993	+	Missense_Mutation	SNP	G	G	A	rs10949885	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	63	63	0	0	0
PODXL	5420	hgsc.bcm.edu;broad.mit.edu	37	7	131241030	131241035	+	In_Frame_Del	DEL	GGCGAC	GGCGAC	-	rs11277659	alternate_allele	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	GGCGAC	GGCGAC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
EPPK1	83481	bcgsc.ca	37	8	144940267	144940267	+	Silent	SNP	G	G	A	rs28441354		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	1	1	0	0	0
PLEC	5339	hgsc.bcm.edu	37	8	144990528	144990528	+	Silent	SNP	A	A	G	rs7014582	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	65	34	31	0	0
C9orf66	157983	hgsc.bcm.edu	37	9	214706	214706	+	Missense_Mutation	SNP	G	G	C	rs540473	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
PTGER4P2-CDK2AP2P2	442421	bcgsc.ca	37	9	66499664	66499664	+	RNA	SNP	C	C	T	rs2183325		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
LOC642236	0	bcgsc.ca	37	9	68437982	68437982	+	RNA	SNP	G	G	A	rs79047897		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
ZNF618	114991	bcgsc.ca	37	9	116810204	116810204	+	Silent	SNP	G	G	A	rs12378906	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	8	8	0	0	0
FPGS	2356	hgsc.bcm.edu	37	9	130565267	130565267	+	Missense_Mutation	SNP	A	A	G	rs10760502	byfrequency	TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	1	0	1	0	0
TUBBP5	643224	broad.mit.edu	37	9	141069468	141069468	+	RNA	SNP	C	C	G	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
TUBBP5	643224	broad.mit.edu	37	9	141069495	141069495	+	RNA	SNP	C	C	T	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
tRNA-Phe	0	bcgsc.ca	37	MT	585	585	+	RNA	SNP	A	A	G	rs118203885		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	9	1	8	0	0
RNR2	6053	broad.mit.edu	37	MT	2976	2976	+	RNA	SNP	G	G	A	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	22000	20372	1611	9	8
tRNA-Ala	0	bcgsc.ca	37	MT	5621	5621	+	RNA	SNP	A	A	G	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	32646	31940	694	3	9
CYTB	0	broad.mit.edu;bcgsc.ca	37	MT	15635	15635	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	28935	17584	11317	16	18
SALL3	27164	hgsc.bcm.edu	37	18	76752544	76752545	+	Missense_Mutation	DNP	GC	GC	TT	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	GC	GC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
ZNF814	730051	hgsc.bcm.edu	37	19	58385798	58385799	+	Missense_Mutation	DNP	CC	CC	TT	novel		TCGA-OR-A5JR-01A-11D-A29I-10	TCGA-OR-A5JR-10A-01D-A29L-10	CC	CC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	6625a9c0-ac73-4f14-a02d-7a8e64f7b2bb	8ea6498c-da66-42fc-bb2a-b4f5e02c0438	0	0	0	0	0
