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
ABL1	25	hgsc.bcm.edu	37	9	133755489	133755489	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ADCY10	55811	hgsc.bcm.edu	37	1	167839520	167839520	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
AHNAK2	113146	hgsc.bcm.edu	37	14	105412554	105412554	+	Silent	SNP	T	T	G	rs12436986	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ALDH3B1	221	hgsc.bcm.edu	37	11	67789293	67789294	+	Frame_Shift_Ins	INS	-	-	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ALG1L2	644974	hgsc.bcm.edu	37	3	129814935	129814935	+	Frame_Shift_Del	DEL	C	C	-	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
APOBEC3H	164668	hgsc.bcm.edu	37	22	39496323	39496325	+	In_Frame_Del	DEL	AAC	AAC	-	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	AAC	AAC	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
AQP2	359	hgsc.bcm.edu	37	12	50348439	50348439	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
AQP7	364	hgsc.bcm.edu	37	9	33385667	33385667	+	Silent	SNP	A	A	G	rs79779983	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ARHGAP10	79658	hgsc.bcm.edu	37	4	148803000	148803000	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ARHGAP44	9912	hgsc.bcm.edu	37	17	12847385	12847385	+	Splice_Site	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ARHGEF1	9138	hgsc.bcm.edu	37	19	42408211	42408211	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ARMC10	83787	hgsc.bcm.edu	37	7	102716238	102716238	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ATR	545	hgsc.bcm.edu	37	3	142168352	142168352	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
BAHCC1	57597	hgsc.bcm.edu	37	17	79424537	79424537	+	Silent	SNP	C	C	T	rs34224936	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
BAZ1A	11177	hgsc.bcm.edu	37	14	35343696	35343696	+	Splice_Site	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
BCAN	63827	hgsc.bcm.edu	37	1	156622274	156622274	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
BRCA1	672	hgsc.bcm.edu	37	17	41234582	41234582	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
BTBD2	55643	hgsc.bcm.edu	37	19	1997414	1997414	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
C14orf4	64207	hgsc.bcm.edu	37	14	77491962	77491962	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
C18orf1	753	hgsc.bcm.edu	37	18	13645428	13645428	+	Silent	SNP	C	C	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
C2orf39	92749	hgsc.bcm.edu	37	2	26679352	26679352	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
C8orf59	401466	hgsc.bcm.edu	37	8	86126827	86126828	+	In_Frame_Ins	INS	-	-	AACATT	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
C9orf11	54586	hgsc.bcm.edu	37	9	27296984	27296984	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
CAT	847	hgsc.bcm.edu	37	11	34482828	34482828	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
CCDC74A	90557	hgsc.bcm.edu	37	2	132285695	132285695	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
CD99L2	83692	hgsc.bcm.edu	37	X	149938796	149938796	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
CLDN11	5010	hgsc.bcm.edu	37	3	170141027	170141027	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
CNGA2	1260	hgsc.bcm.edu	37	X	150912325	150912325	+	Silent	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
CTNNA1	1495	hgsc.bcm.edu	37	5	138118935	138118935	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
CTNNBL1	56259	hgsc.bcm.edu	37	20	36488708	36488708	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
CUL7	9820	hgsc.bcm.edu	37	6	43017366	43017366	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
CUTA	51596	hgsc.bcm.edu	37	6	33385933	33385933	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
CYFIP1	23191	hgsc.bcm.edu	37	15	22928512	22928512	+	Splice_Site	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
DAB2IP	153090	hgsc.bcm.edu	37	9	124521257	124521257	+	Silent	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
DLX6	1750	hgsc.bcm.edu	37	7	96639147	96639147	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
DNAH9	1770	hgsc.bcm.edu	37	17	11795233	11795233	+	Missense_Mutation	SNP	A	A	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
DTX3L	151636	hgsc.bcm.edu	37	3	122287985	122287985	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
EFNB2	1948	hgsc.bcm.edu	37	13	107145608	107145608	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
EGFR	1956	hgsc.bcm.edu	37	7	55221775	55221775	+	Silent	SNP	C	C	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
EGFR	1956	hgsc.bcm.edu	37	7	55242478	55242478	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
EPHA2	1969	hgsc.bcm.edu	37	1	16460088	16460088	+	Silent	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
EPHA7	2045	hgsc.bcm.edu	37	6	94120357	94120357	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
EPHB3	2049	hgsc.bcm.edu	37	3	184298234	184298234	+	Silent	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ERBB2	2064	hgsc.bcm.edu	37	17	37873629	37873629	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ETV6	2120	hgsc.bcm.edu	37	12	11905467	11905467	+	Silent	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
FAM186A	121006	hgsc.bcm.edu	37	12	50746022	50746022	+	Silent	SNP	C	C	G	rs7304692	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
FBXW7	55294	hgsc.bcm.edu	37	4	153249370	153249370	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
FERD3L	222894	hgsc.bcm.edu	37	7	19184746	19184747	+	In_Frame_Ins	INS	-	-	TCT	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
FGFR2	2263	hgsc.bcm.edu	37	10	123276864	123276864	+	Silent	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
FNDC1	84624	hgsc.bcm.edu	37	6	159660780	159660797	+	In_Frame_Del	DEL	CCACCACCCGCCGCACGA	CCACCACCCGCCGCACGA	-	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	CCACCACCCGCCGCACGA	CCACCACCCGCCGCACGA	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
FOLR1	2348	hgsc.bcm.edu	37	11	71907018	71907018	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
FOXD4L2	100036519	hgsc.bcm.edu	37	9	42719280	42719280	+	Frame_Shift_Del	DEL	C	C	-	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
FOXD4L2	100036519	hgsc.bcm.edu	37	9	70427685	70427685	+	Frame_Shift_Del	DEL	G	G	-	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
FOXD4L5	653427	hgsc.bcm.edu	37	9	70176769	70176769	+	Frame_Shift_Del	DEL	G	G	-	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
GH2	2689	hgsc.bcm.edu	37	17	61958132	61958132	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
GIP	2695	hgsc.bcm.edu	37	17	47041685	47041685	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
GLI2	2736	hgsc.bcm.edu	37	2	121684977	121684977	+	Silent	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
GPR179	440435	hgsc.bcm.edu	37	17	36482951	36482951	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
GRB7	2886	hgsc.bcm.edu	37	17	37901557	37901557	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
GYLTL1B	120071	hgsc.bcm.edu	37	11	45950234	45950234	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
HERC2	8924	hgsc.bcm.edu	37	15	28520106	28520106	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
HGC6.3	100128124	hgsc.bcm.edu	37	6	168376840	168376840	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
HIST3H2BB	128312	hgsc.bcm.edu	37	1	228645882	228645882	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
HLA-B	3106	hgsc.bcm.edu	37	6	31323128	31323128	+	Silent	SNP	A	A	G	rs41551014	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
HLA-B	3106	hgsc.bcm.edu	37	6	31323134	31323134	+	Silent	SNP	T	T	C	rs1050240	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
HLA-B	3106	hgsc.bcm.edu	37	6	31323143	31323143	+	Silent	SNP	T	T	C	rs41546016	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
IDH2	3418	hgsc.bcm.edu	37	15	90631840	90631840	+	Silent	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
IGSF22	283284	hgsc.bcm.edu	37	11	18743090	18743090	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
IGSF3	3321	hgsc.bcm.edu	37	1	117122285	117122286	+	In_Frame_Ins	INS	-	-	TCC	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
INSC	387755	hgsc.bcm.edu	37	11	15260481	15260481	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
JMJD7-PLA2G4B	8681	hgsc.bcm.edu	37	15	42132809	42132809	+	Missense_Mutation	SNP	G	G	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
KALRN	8997	hgsc.bcm.edu	37	3	123983522	123983522	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
KCND2	3751	hgsc.bcm.edu	37	7	119915314	119915314	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
KCNIP3	30818	hgsc.bcm.edu	37	2	96040111	96040111	+	Silent	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
KCNJ12	3768	hgsc.bcm.edu	37	17	21318912	21318912	+	Silent	SNP	C	C	A	rs35011501	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
KDM6A	7403	hgsc.bcm.edu	37	X	44896926	44896926	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
KLHL6	89857	hgsc.bcm.edu	37	3	183217550	183217550	+	Silent	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
KRT4	3851	hgsc.bcm.edu	37	12	53207582	53207582	+	Silent	SNP	A	A	G	rs74445207	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
KRTAP5-11	440051	hgsc.bcm.edu	37	11	71293482	71293482	+	Silent	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
KRTAP5-4	387267	hgsc.bcm.edu	37	11	1642703	1642703	+	Silent	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
KRTAP5-5	439915	hgsc.bcm.edu	37	11	1651119	1651119	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
KRTAP9-2	83899	hgsc.bcm.edu	37	17	39383027	39383027	+	Missense_Mutation	SNP	G	G	T	rs71371478	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
LAIR1	3903	hgsc.bcm.edu	37	19	54872809	54872809	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
LMTK3	114783	hgsc.bcm.edu	37	19	49013810	49013810	+	Missense_Mutation	SNP	T	T	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
LRP5	4041	hgsc.bcm.edu	37	11	68171088	68171088	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
LRRC46	90506	hgsc.bcm.edu	37	17	45914323	45914323	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
LUZP2	338645	hgsc.bcm.edu	37	11	25100121	25100121	+	Missense_Mutation	SNP	T	T	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MAGEL2	54551	hgsc.bcm.edu	37	15	23890562	23890562	+	Silent	SNP	C	C	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MAP2K3	5606	hgsc.bcm.edu	37	17	21204187	21204187	+	Missense_Mutation	SNP	G	G	T	rs56067280	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MAP2K3	5606	hgsc.bcm.edu	37	17	21204192	21204192	+	Missense_Mutation	SNP	C	C	T	rs56216806	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MAP3K6	9064	hgsc.bcm.edu	37	1	27689361	27689361	+	Silent	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MICA	100507436	hgsc.bcm.edu	37	6	31379807	31379807	+	Silent	SNP	C	C	T	rs111452768	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MLL2	8085	hgsc.bcm.edu	37	12	49416546	49416546	+	Silent	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MRI1	84245	hgsc.bcm.edu	37	19	13879714	13879714	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MSI1	4440	hgsc.bcm.edu	37	12	120795673	120795673	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MUC6	4588	hgsc.bcm.edu	37	11	1017068	1017068	+	Silent	SNP	C	C	T	rs78992004	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MYLK3	91807	hgsc.bcm.edu	37	16	46766320	46766320	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MYO15A	51168	hgsc.bcm.edu	37	17	18054759	18054759	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
MYOZ1	58529	hgsc.bcm.edu	37	10	75393678	75393678	+	Silent	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
NEFH	4744	hgsc.bcm.edu	37	22	29885564	29885564	+	Silent	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
NELL2	4753	hgsc.bcm.edu	37	12	44915912	44915912	+	Silent	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
NLRP4	147945	hgsc.bcm.edu	37	19	56388494	56388494	+	Silent	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
NOTCH1	4851	hgsc.bcm.edu	37	9	139397702	139397702	+	Missense_Mutation	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
NTRK2	4915	hgsc.bcm.edu	37	9	87570331	87570331	+	Missense_Mutation	SNP	C	C	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
OR2T35	403244	hgsc.bcm.edu	37	1	248801945	248801951	+	Frame_Shift_Del	DEL	CAGCACG	CAGCACG	-	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	CAGCACG	CAGCACG	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
OR2W5	441932	hgsc.bcm.edu	37	1	247655272	247655272	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
OTX1	5013	hgsc.bcm.edu	37	2	63283088	63283088	+	Silent	SNP	C	C	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
OVGP1	5016	hgsc.bcm.edu	37	1	111957502	111957525	+	In_Frame_Del	DEL	TCACAGACTGATGACTCACAGGGG	TCACAGACTGATGACTCACAGGGG	-	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	TCACAGACTGATGACTCACAGGGG	TCACAGACTGATGACTCACAGGGG	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PER2	8864	hgsc.bcm.edu	37	2	239186456	239186456	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PI4KA	5297	hgsc.bcm.edu	37	22	21083630	21083630	+	Silent	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PIK3CA	5290	hgsc.bcm.edu	37	3	178922325	178922325	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PKN1	5585	hgsc.bcm.edu	37	19	14580198	14580198	+	Silent	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PLB1	151056	hgsc.bcm.edu	37	2	28812574	28812574	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PLCG2	5336	hgsc.bcm.edu	37	16	81944226	81944226	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PRDM16	63976	hgsc.bcm.edu	37	1	3301758	3301758	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PRKCSH	5589	hgsc.bcm.edu	37	19	11558370	11558370	+	Silent	SNP	G	G	A	rs77563879	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PRKCSH	5589	hgsc.bcm.edu	37	19	11558388	11558388	+	Silent	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PTCD1	26024	hgsc.bcm.edu	37	7	99022964	99022964	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PTCH1	5727	hgsc.bcm.edu	37	9	98231288	98231288	+	Silent	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PTCH1	5727	hgsc.bcm.edu	37	9	98240455	98240455	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PTCHD3	374308	hgsc.bcm.edu	37	10	27702181	27702181	+	Silent	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PTPRF	5792	hgsc.bcm.edu	37	1	44071028	44071028	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
PTPRS	5802	hgsc.bcm.edu	37	19	5214437	5214437	+	Nonsense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
RASGRP4	115727	hgsc.bcm.edu	37	19	38904046	38904046	+	Nonsense_Mutation	SNP	A	A	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
RBMX	27316	hgsc.bcm.edu	37	X	135956571	135956572	+	Frame_Shift_Ins	INS	-	-	GG	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	-	-	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
RBMXL1	56267	hgsc.bcm.edu	37	1	89448608	89448608	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
RPH3A	22895	hgsc.bcm.edu	37	12	113314465	113314465	+	Missense_Mutation	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
RPS6KA2	6196	hgsc.bcm.edu	37	6	166883370	166883370	+	Nonsense_Mutation	SNP	C	C	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
RUVBL1	8607	hgsc.bcm.edu	37	3	127816145	127816145	+	Silent	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SLC4A2	6522	hgsc.bcm.edu	37	7	150769125	150769125	+	Missense_Mutation	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SLC6A17	388662	hgsc.bcm.edu	37	1	110709686	110709686	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SP1	6667	hgsc.bcm.edu	37	12	53777133	53777133	+	Nonsense_Mutation	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
SPATA3	130560	hgsc.bcm.edu	37	2	231861033	231861059	+	In_Frame_Del	DEL	CAGCAGCCTAGCCCTGAATCCACACCA	CAGCAGCCTAGCCCTGAATCCACACCA	-	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	CAGCAGCCTAGCCCTGAATCCACACCA	CAGCAGCCTAGCCCTGAATCCACACCA	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TBC1D4	9882	hgsc.bcm.edu	37	13	75936707	75936707	+	Nonsense_Mutation	SNP	T	T	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TEAD2	8463	hgsc.bcm.edu	37	19	49862706	49862706	+	Silent	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TEX13A	56157	hgsc.bcm.edu	37	X	104464277	104464277	+	Frame_Shift_Del	DEL	A	A	-	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TEX13A	56157	hgsc.bcm.edu	37	X	104464282	104464282	+	Frame_Shift_Del	DEL	C	C	-	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TICAM1	148022	hgsc.bcm.edu	37	19	4817211	4817211	+	Missense_Mutation	SNP	T	T	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TLR1	7096	hgsc.bcm.edu	37	4	38798445	38798445	+	Nonsense_Mutation	SNP	C	C	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TMCO3	55002	hgsc.bcm.edu	37	13	114149939	114149939	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TOP2A	7153	hgsc.bcm.edu	37	17	38567397	38567397	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TP53	7157	hgsc.bcm.edu	37	17	7577031	7577031	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TP53	7157	hgsc.bcm.edu	37	17	7577098	7577098	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TP53	7157	hgsc.bcm.edu	37	17	7577583	7577583	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TP53	7157	hgsc.bcm.edu	37	17	7578512	7578512	+	Missense_Mutation	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TP53	7157	hgsc.bcm.edu	37	17	7579519	7579519	+	Silent	SNP	T	T	C	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TPSB2	64499	hgsc.bcm.edu	37	16	1279710	1279710	+	Silent	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TRIOBP	11078	hgsc.bcm.edu	37	22	38121863	38121863	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TUBA3C	7278	hgsc.bcm.edu	37	13	19748056	19748056	+	Nonsense_Mutation	SNP	C	C	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
TUBB3	10381	hgsc.bcm.edu	37	16	89999964	89999964	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
UBXN11	91544	hgsc.bcm.edu	37	1	26610659	26610659	+	Silent	SNP	G	G	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
UNC119	9094	hgsc.bcm.edu	37	17	26875651	26875651	+	Missense_Mutation	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
UNC93B1	81622	hgsc.bcm.edu	37	11	67765163	67765163	+	Silent	SNP	A	A	G	rs112921257	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
USP51	158880	hgsc.bcm.edu	37	X	55513642	55513642	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
VCX2	51480	hgsc.bcm.edu	37	X	8138170	8138170	+	Missense_Mutation	SNP	C	C	G	rs75657421	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
VCX2	51480	hgsc.bcm.edu	37	X	8138171	8138171	+	Missense_Mutation	SNP	T	T	C	rs78723459	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	T	T	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
VCX2	51480	hgsc.bcm.edu	37	X	8138182	8138182	+	Missense_Mutation	SNP	A	A	G	rs41305169	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
VHL	7428	hgsc.bcm.edu	37	3	10188200	10188200	+	Missense_Mutation	SNP	C	C	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
WNK3	65267	hgsc.bcm.edu	37	X	54319687	54319687	+	Nonsense_Mutation	SNP	A	A	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ZFHX3	463	hgsc.bcm.edu	37	16	72992626	72992626	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ZGLP1	100125288	hgsc.bcm.edu	37	19	10419145	10419145	+	Silent	SNP	A	A	G	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	A	A	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ZNF610	162963	hgsc.bcm.edu	37	19	52857566	52857566	+	Silent	SNP	C	C	T	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	C	C	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
ZSWIM3	140831	hgsc.bcm.edu	37	20	44506358	44506358	+	Silent	SNP	G	G	A	novel	unknown	TCGA-CJ-4643-01A-02D-1386-10	TCGA-CJ-4643-11A-01D-1251-10	G	G	.	.	.	.	Unknown	Unknown	Somatic	Phase_I	Capture	.	.	.	Illumina
