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
ADORA2A	135	hgsc.bcm.edu	37	22	24829496	24829496	+	Frame_Shift_Del	DEL	A	A	-	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ANKRD50	57182	hgsc.bcm.edu	37	4	125631530	125631530	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ATP8B2	57198	hgsc.bcm.edu	37	1	154315671	154315671	+	Silent	SNP	T	T	C	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ATRNL1	26033	hgsc.bcm.edu	37	10	116880014	116880014	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
BAZ2B	29994	hgsc.bcm.edu	37	2	160194250	160194250	+	Nonsense_Mutation	SNP	C	C	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
BIN2	51411	hgsc.bcm.edu	37	12	51690950	51690950	+	Splice_Site	SNP	T	T	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
C19orf55	148137	hgsc.bcm.edu	37	19	36258938	36258938	+	Frame_Shift_Del	DEL	G	G	-	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
C20orf26	26074	hgsc.bcm.edu	37	20	20243669	20243669	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
C8orf47	203111	hgsc.bcm.edu	37	8	99101674	99101674	+	Frame_Shift_Del	DEL	A	A	-	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
CDK13	8621	hgsc.bcm.edu	37	7	40134281	40134281	+	Frame_Shift_Del	DEL	C	C	-	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
CEP97	79598	hgsc.bcm.edu	37	3	101476746	101476746	+	Silent	SNP	T	T	C	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
COL2A1	1280	hgsc.bcm.edu	37	12	48369167	48369167	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
DNAH1	25981	hgsc.bcm.edu	37	3	52429575	52429575	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
DPCR1	0	hgsc.bcm.edu	37	6	30917885	30917885	+	Silent	SNP	C	C	G	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
EPAS1	2034	hgsc.bcm.edu	37	2	46605874	46605874	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
FNBP1L	54874	hgsc.bcm.edu	37	1	93987691	93987691	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
GPR179	440435	hgsc.bcm.edu	37	17	36499492	36499492	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
HGC6.3	100128124	hgsc.bcm.edu	37	6	168376880	168376881	+	Frame_Shift_Ins	INS	-	-	G	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
KIF13A	63971	hgsc.bcm.edu	37	6	17783914	17783914	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
KRTAP10-2	386679	hgsc.bcm.edu	37	21	45970772	45970772	+	Silent	SNP	A	A	G	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
LOXHD1	125336	hgsc.bcm.edu	37	18	44069072	44069072	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
LRP2	4036	hgsc.bcm.edu	37	2	169995117	169995117	+	Silent	SNP	A	A	C	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
LYPD3	27076	hgsc.bcm.edu	37	19	43969649	43969649	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MAD1L1	8379	hgsc.bcm.edu	37	7	2255571	2255571	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MAPK9	5601	hgsc.bcm.edu	37	5	179668101	179668101	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MED14	9282	hgsc.bcm.edu	37	X	40573155	40573155	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MMP28	79148	hgsc.bcm.edu	37	17	34100350	34100350	+	Silent	SNP	G	G	C	rs58543174	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MUC16	94025	hgsc.bcm.edu	37	19	8998753	8998753	+	Silent	SNP	G	G	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MUC4	4585	hgsc.bcm.edu	37	3	195507999	195507999	+	Silent	SNP	A	A	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MUC4	4585	hgsc.bcm.edu	37	3	195508005	195508005	+	Silent	SNP	A	A	G	rs79196348	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MUC4	4585	hgsc.bcm.edu	37	3	195511431	195511431	+	Silent	SNP	A	A	G	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MUC4	4585	hgsc.bcm.edu	37	3	195515199	195515199	+	Silent	SNP	A	A	C	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MUC7	4589	hgsc.bcm.edu	37	4	71346891	71346891	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MYBBP1A	10514	hgsc.bcm.edu	37	17	4442824	4442824	+	Silent	SNP	T	T	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
NUP153	9972	hgsc.bcm.edu	37	6	17624932	17624932	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
OR2G2	81470	hgsc.bcm.edu	37	1	247752125	247752125	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PBRM1	55193	hgsc.bcm.edu	37	3	52702514	52702514	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PCDHGC5	56097	hgsc.bcm.edu	37	5	140869478	140869478	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PDE4DIP	9659	hgsc.bcm.edu	37	1	144931265	144931265	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PDGFRB	5159	hgsc.bcm.edu	37	5	149505045	149505045	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PPP1R15A	23645	hgsc.bcm.edu	37	19	49379159	49379159	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
RASAL3	64926	hgsc.bcm.edu	37	19	15565475	15565475	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
RBL1	5933	hgsc.bcm.edu	37	20	35690601	35690601	+	Silent	SNP	T	T	C	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
RIMS1	22999	hgsc.bcm.edu	37	6	73001656	73001656	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SDAD1	55153	hgsc.bcm.edu	37	4	76897076	76897076	+	Splice_Site	SNP	C	C	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SEC23IP	11196	hgsc.bcm.edu	37	10	121685734	121685734	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SEPN1	57190	hgsc.bcm.edu	37	1	26138019	26138019	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SETD2	29072	hgsc.bcm.edu	37	3	47079180	47079181	+	Frame_Shift_Ins	INS	-	-	G	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SLAMF1	6504	hgsc.bcm.edu	37	1	160607007	160607007	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SLC2A3	6515	hgsc.bcm.edu	37	12	8083142	8083142	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SLCO1B3	28234	hgsc.bcm.edu	37	12	21032479	21032479	+	Silent	SNP	G	G	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SMARCA2	6595	hgsc.bcm.edu	37	9	2039524	2039524	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TFR2	7036	hgsc.bcm.edu	37	7	100238672	100238672	+	Silent	SNP	G	G	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TP53	7157	hgsc.bcm.edu	37	17	7577024	7577024	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TPD52L3	89882	hgsc.bcm.edu	37	9	6329011	6329011	+	Frame_Shift_Del	DEL	G	G	-	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TRIM23	373	hgsc.bcm.edu	37	5	64909988	64909988	+	Silent	SNP	T	T	C	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TTN	7273	hgsc.bcm.edu	37	2	179457765	179457765	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
UBR2	23304	hgsc.bcm.edu	37	6	42626515	42626515	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
USH2A	7399	hgsc.bcm.edu	37	1	216052254	216052254	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ZNF221	7638	hgsc.bcm.edu	37	19	44469419	44469419	+	Silent	SNP	C	C	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ZNF687	57592	hgsc.bcm.edu	37	1	151259628	151259628	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-BP-4161-01A-02D-1386-10	TCGA-BP-4161-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
