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	
ARHGAP9	64333	broad.mit.edu;hgsc.bcm.edu	37	12	57871324	57871324	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
BAP1	8314	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	3	52442512	52442512	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	T	C	T	T	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
C16orf88	400506	broad.mit.edu;ucsc.edu	37	16	19718398	19718398	+	Missense_Mutation	SNP	A	G	G	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
C17orf57	0	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	17	45452174	45452174	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
C2orf71	388939	hgsc.bcm.edu	37	2	29287926	29287927	+	In_Frame_Ins	INS	-	-	GCT	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
C2orf83	56918	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	2	228497787	228497787	+	Silent	SNP	G	G	A	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
C6orf70	55780	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	6	170179296	170179296	+	Silent	SNP	T	T	A	rs79095717	alternate_allele	TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
CELF3	11189	broad.mit.edu;hgsc.bcm.edu	37	1	151681728	151681728	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
CHEK2	11200	broad.mit.edu;hgsc.bcm.edu	37	22	29091840	29091840	+	Missense_Mutation	SNP	T	T	C	rs74751600		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
CLK4	57396	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	5	178050273	178050273	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
CXCR2	3579	broad.mit.edu;ucsc.edu	37	2	218999551	218999551	+	Silent	SNP	C	T	T	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
ENC1	8507	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	5	73931537	73931537	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
EPPK1	83481	hgsc.bcm.edu	37	8	144940506	144940506	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
GRID1	2894	broad.mit.edu;ucsc.edu	37	10	87628903	87628903	+	Missense_Mutation	SNP	T	G	G	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
HGC6.3	100128124	hgsc.bcm.edu	37	6	168377220	168377220	+	Missense_Mutation	SNP	T	T	A	rs79173693	by1000genomes;alternate_allele	TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
IGDCC4	57722	hgsc.bcm.edu	37	15	65681661	65681662	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
ITGA1	3672	broad.mit.edu;ucsc.edu	37	5	52145320	52145320	+	Splice_Site	SNP	G	T	T	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
KLF9	687	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	9	73027946	73027946	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
LTBR	4055	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	12	6495606	6495606	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
MFSD9	84804	hgsc.bcm.edu	37	2	103353153	103353153	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
MUC4	4585	hgsc.bcm.edu	37	3	195510073	195510073	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
MUC4	4585	hgsc.bcm.edu	37	3	195510156	195510156	+	Silent	SNP	G	G	A	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
ORC4	5000	hgsc.bcm.edu;ucsc.edu	37	2	148695897	148695897	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
PCDH15	65217	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	10	55700700	55700700	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
RASGRP2	10235	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	11	64503123	64503123	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
RRM2	6241	hgsc.bcm.edu	37	2	10262859	10262859	+	Silent	SNP	G	G	A	rs72542787	bycluster;byfrequency;by1000genomes	TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
SPOCD1	90853	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	1	32266115	32266115	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
ST3GAL3	6487	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	1	44386570	44386570	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
TARM1	441864	hgsc.bcm.edu	37	19	54573304	54573304	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
UHRF1	29128	hgsc.bcm.edu	37	19	4954679	4954680	+	Frame_Shift_Ins	INS	-	-	C	rs78623648	bycluster;by1000genomes	TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
VCP	7415	broad.mit.edu;ucsc.edu	37	9	35068351	35068351	+	Missense_Mutation	SNP	C	A	A	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
VHL	7428	hgsc.bcm.edu;ucsc.edu	37	3	10188204	10188204	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
WDR52	55779	broad.mit.edu;hgsc.bcm.edu;ucsc.edu	37	3	113127995	113127995	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
ADCY5	111	broad.mit.edu	37	3	123049743	123049743	+	Missense_Mutation	SNP	C	T	T	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
BEAN	0	broad.mit.edu	37	16	66511499	66511499	+	Translation_Start_Site	SNP	G	T	T	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
ELK1	2002	broad.mit.edu	37	X	47498682	47498682	+	Missense_Mutation	SNP	G	A	A	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
LOC100132832	100132832	broad.mit.edu	37	7	76681226	76681226	+	RNA	SNP	G	C	C	rs76001678		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
PCDHGA3	56112	broad.mit.edu	37	5	140725547	140725547	+	Silent	SNP	C	T	T	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
PRUNE2	158471	broad.mit.edu	37	9	79469063	79469063	+	Missense_Mutation	SNP	T	C	C	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
RRAD	6236	broad.mit.edu	37	16	66956073	66956073	+	Missense_Mutation	SNP	G	T	T	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
STK31	56164	broad.mit.edu	37	7	23750185	23750185	+	Intron	SNP	C	A	A	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	C	A	C	C	Unknown	Valid	Somatic	Phase_I	WXS	PGM			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
TEX14	56155	broad.mit.edu	37	17	56651592	56651592	+	Silent	SNP	T	C	C	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
Unknown	0	broad.mit.edu	37	1	713786	713787	+	RNA	INS	-	GCT	GCT	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
Unknown	0	broad.mit.edu	37	19	54007225	54007225	+	RNA	SNP	C	T	T	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
Unknown	0	broad.mit.edu	37	2	206981155	206981155	+	RNA	DEL	C	-	-	rs140143364	bycluster;by1000genomes	TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
Unknown	0	broad.mit.edu	37	3	22424176	22424176	+	RNA	DEL	G	-	-	novel		TCGA-CJ-4637-01A-02D-1386-10	TCGA-CJ-4637-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	b8480571-ee08-4fa1-b509-1331a8fbc075	c246767f-2df0-4836-b43f-a771f0782118	
