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
ACTRT1	139741	hgsc.bcm.edu	37	X	127185839	127185839	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ADCY9	115	hgsc.bcm.edu	37	16	4033433	4033433	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
AIFM1	9131	hgsc.bcm.edu	37	X	129290574	129290574	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
AKAP1	8165	hgsc.bcm.edu	37	17	55184285	55184285	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
APLP1	333	hgsc.bcm.edu	37	19	36362632	36362632	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ARFIP2	23647	hgsc.bcm.edu	37	11	6499971	6499971	+	Silent	SNP	A	A	T	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ATAD5	79915	hgsc.bcm.edu	37	17	29196281	29196281	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
C2orf86	51057	hgsc.bcm.edu	37	2	63401948	63401948	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
CACNA1C	775	hgsc.bcm.edu	37	12	2794977	2794977	+	Silent	SNP	G	G	A	rs56270948	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
DNAH7	56171	hgsc.bcm.edu	37	2	196750888	196750888	+	Nonsense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
DSPP	1834	hgsc.bcm.edu	37	4	88537306	88537306	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
FIGNL2	401720	hgsc.bcm.edu	37	12	52216199	52216199	+	Silent	SNP	T	T	G	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
GSK3A	2931	hgsc.bcm.edu	37	19	42736808	42736808	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
HHIP	64399	hgsc.bcm.edu	37	4	145655993	145655993	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
KIAA1731	85459	hgsc.bcm.edu	37	11	93432025	93432025	+	Missense_Mutation	SNP	T	T	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
KLC3	147700	hgsc.bcm.edu	37	19	45854226	45854226	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
LAP3	51056	hgsc.bcm.edu	37	4	17579091	17579091	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MCM2	4171	hgsc.bcm.edu	37	3	127337930	127337930	+	Nonsense_Mutation	SNP	G	G	T	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MFHAS1	9258	hgsc.bcm.edu	37	8	8748320	8748320	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MFSD6L	162387	hgsc.bcm.edu	37	17	8702333	8702333	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MMP17	4326	hgsc.bcm.edu	37	12	132329961	132329961	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MUC5B	727897	hgsc.bcm.edu	37	11	1258241	1258241	+	Silent	SNP	A	A	G	rs79773885	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
NFATC1	4772	hgsc.bcm.edu	37	18	77170523	77170523	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
NLRP4	147945	hgsc.bcm.edu	37	19	56369989	56369989	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
OR6V1	346517	hgsc.bcm.edu	37	7	142750217	142750217	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
OTOL1	131149	hgsc.bcm.edu	37	3	161221335	161221335	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PDP1	54704	hgsc.bcm.edu	37	8	94934356	94934356	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PFKFB3	5209	hgsc.bcm.edu	37	10	6257233	6257233	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
POLG2	11232	hgsc.bcm.edu	37	17	62492539	62492539	+	Missense_Mutation	SNP	T	T	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PTCHD2	57540	hgsc.bcm.edu	37	1	11594487	11594487	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PTCHD2	57540	hgsc.bcm.edu	37	1	11594488	11594488	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PTPN13	5783	hgsc.bcm.edu	37	4	87662970	87662970	+	Splice_Site	SNP	G	G	T	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
RBL2	5934	hgsc.bcm.edu	37	16	53487478	53487478	+	Missense_Mutation	SNP	A	A	C	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
RGS2	5997	hgsc.bcm.edu	37	1	192780679	192780679	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SEMA4G	57715	hgsc.bcm.edu	37	10	102740600	102740600	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SLC17A2	10246	hgsc.bcm.edu	37	6	25913557	25913557	+	Nonsense_Mutation	SNP	A	A	C	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SMARCA4	6597	hgsc.bcm.edu	37	19	11118635	11118635	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SNX18	112574	hgsc.bcm.edu	37	5	53815390	53815390	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SPOCK1	6695	hgsc.bcm.edu	37	5	136448175	136448175	+	Silent	SNP	C	C	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TBL1X	6907	hgsc.bcm.edu	37	X	9677737	9677737	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TBRG4	9238	hgsc.bcm.edu	37	7	45148837	45148837	+	Frame_Shift_Del	DEL	G	G	-	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TMEM144	55314	hgsc.bcm.edu	37	4	159138498	159138499	+	Frame_Shift_Ins	INS	-	-	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TPP2	7174	hgsc.bcm.edu	37	13	103296912	103296912	+	Silent	SNP	A	A	G	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TPRG1L	127262	hgsc.bcm.edu	37	1	3545158	3545158	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TRIM42	287015	hgsc.bcm.edu	37	3	140401925	140401925	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
UBR4	23352	hgsc.bcm.edu	37	1	19445444	19445444	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
USH2A	7399	hgsc.bcm.edu	37	1	216019306	216019306	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
VDR	7421	hgsc.bcm.edu	37	12	48272814	48272814	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
VHL	7428	hgsc.bcm.edu	37	3	10188201	10188201	+	Missense_Mutation	SNP	A	A	G	rs5030812	byCluster	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ZACN	353174	hgsc.bcm.edu	37	17	74076506	74076506	+	Splice_Site	SNP	G	G	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ZFP106	64397	hgsc.bcm.edu	37	15	42744055	42744055	+	Missense_Mutation	SNP	T	T	A	novel	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ZFYVE19	84936	hgsc.bcm.edu	37	15	41099910	41099910	+	Silent	SNP	A	A	G	rs72227852	unknown	TCGA-CJ-4639-01A-02D-1386-10	TCGA-CJ-4639-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
