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	COSMIC_Codon	COSMIC_Gene	Transcript_Id	Exon	ChromChange	AAChange	Genome_Plus_Minus_10_Bp	Drug_Target	TTotCov_SOL	TVarCov_SOL	TVaf_SOL	NTotCov_SOL	NVarCov_SOL	NVaf_SOL	dbSNPPopFreq	COSMIC_Gene_Freq	COSMIC_Site_Freq	Ttot_rna	Tvar_rna	Tvaf_rna	note	germline-maf-frequency	IGV
GLTPD1	80772	mdanderson.org	37	1	1262375	1262375	+	Silent	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001029885	exon2	c.C85T	p.L29L	GTCTTGCTGGACC		39	3	0.08	64	0	0				51	0	0.00			
RPL22	6146	mdanderson.org	37	1	6253102	6253102	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_000983	exon3	c.C130T	p.Q44X	TTTCTTGCAAAAA		32	3	0.09	33	0	0				2901	0	0.00			
MST1P2	11209	hgsc.bcm.edu;bcgsc.ca	37	1	16976573	16976573	+	RNA	SNP	A	A	G	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	.	.	.	.	AGGGTGACTACGG		216	17	0.08	392	0	0				2	0	0.00			
MST1L	0	broad.mit.edu	37	1	17083884	17083884	+	RNA	SNP	T	T	C	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001271733	exon15	c.A1913G	p.D638G	CCGTAGTCACCCT		191	15	0.08	337	0	0				2	0	0.00			
CROCC	9696	broad.mit.edu	37	1	17280821	17280821	+	Missense_Mutation	SNP	G	G	C	rs6669627	bycluster;byfrequency;by2hit2allele;by1000genomes	TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	CROCC	NM_014675	exon22	c.G3290C	p.R1097P	AGAAACGAGATGC		41	8	0.20	76	0	0		185		80	1	0.01			
AIM1L	55057	mdanderson.org	37	1	26664517	26664517	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001039775	exon8	c.C3493A	p.P1165T	CCCCTGGCTTCTC		39	3	0.08	87	0	0				0	0				
CSMD2	114784	mdanderson.org	37	1	33998696	33998696	+	Silent	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_052896	exon63	c.C9693A	p.T3231T	CTTGCAGGTGCGG		20	2	0.10	28	0	0				5	0	0.00			
LOC100129620	0	broad.mit.edu	37	1	99474094	99474094	+	RNA	DEL	A	A	-	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	.	.	.	.	GCAACTAAAAAAA		5	2	0.40	5	0	0				1	0	0.00			
HSD3B1	3283	mdanderson.org	37	1	120054150	120054150	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_000862	exon3	c.C170T	p.T57I	AGCTGACAGTGCT		34	3	0.09	42	0	0				0	0				
NMT2	9397	mdanderson.org	37	10	15174829	15174829	+	Silent	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_004808	exon6	c.C706A	p.R236R	AAATCCGAATGTT		51	3	0.06	59	0	0				15	0	0.00			
COMMD3-BMI1	0	mdanderson.org	37	10	22615381	22615381	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001204062	exon6	c.G432T	p.M144I	AGAAATGCATCGA		25	3	0.12	47	0	0				57	0	0.00			
BMS1	9790	broad.mit.edu	37	10	43318571	43318571	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	BMS1,NS,carcinoma,0,2	BMS1	NM_014753	exon20	c.G3138A	p.M1046I	GGGAATGTTTAAT		41	3	0.07	66	1	0.0151515152		132	2	86	0	0.00			
TET1	80312	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	70332658	70332658	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_030625	exon2	c.C563T	p.T188I	AAGAGACAACTCA		43	10	0.23	46	0	0				9	3	0.33			
PIDD	55367	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	802283	802283	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_145887	exon6	c.C1088T	p.P363L	GGCTCCGGCAGCA		61	14	0.23	60	0	0				47	16	0.34			
RPLP0P2	0	broad.mit.edu	37	11	61405192	61405192	+	RNA	SNP	G	G	A	rs201678804		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	.	.	.	.	AAAAAAGAAAAGA		27	4	0.15	42	0	0				0	0				
AHNAK	79026	hgsc.bcm.edu	37	11	62294254	62294254	+	Silent	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	AHNAK,NS,carcinoma,-1,1	AHNAK	NM_001620	exon5	c.G7635A	p.K2545K	GTCCACCTTGGGT		71	3	0.04	117	0	0		-1	1	137	1	0.01			
HNRNPUL2-BSCL2	0	mdanderson.org	37	11	62473796	62473796	+	RNA	SNP	T	T	C	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	.	.	.	.	CGCCCCTCTCCGC		12	4	0.33	16	0	0				0	0				
DYNC2H1	79659	mdanderson.org	37	11	102992194	102992194	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001377	exon10	c.G1454T	p.S485I	TCAACAGTATAGT		42	3	0.07	55	0	0				2	0	0.00			
ERC1	23085	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	12	1137370	1137370	+	Missense_Mutation	SNP	G	G	A	rs370287516		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_178039	exon2	c.G301A	p.G101S	CCTTACGGTGTTC		136	9	0.07	85	0	0				30	1	0.03			
PTPRO	5800	broad.mit.edu;bcgsc.ca	37	12	15669735	15669742	+	Frame_Shift_Del	DEL	GGTCCTAC	GGTCCTAC	-	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	GGTCCTAC	GGTCCTAC					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	PTPRO	NM_002848	exon9	c.1624_1631del	p.542_544del	CCTTTGGGTCCTA		250	8	0.03	99	0	0		148		43	0	0.00			
PTPRO	5800	bcgsc.ca	37	12	15669741	15669742	+	Frame_Shift_Ins	INS	-	-	TTTAATG	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	-	-					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	PTPRO,NS,carcinoma,-2,1	PTPRO	NM_002848	exon9	c.1630_1631insTTTAATG	p.T544_A545delinsIX	GGTCCTACGGCCG		243	6	0.02	102	0	0		148	1	47	0	0.00			
PTPRO	5800	bcgsc.ca	37	12	15669742	15669743	+	Frame_Shift_Ins	INS	-	-	TCTATCCTTTG	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	-	-					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	PTPRO,NS,carcinoma,-1,1	PTPRO	NM_002848	exon9	c.1631_1632insTCTATCCTTTG	p.T544fs	GTCCTACGGCCGT		240	6	0.03	101	0	0		148	1	47	0	0.00			
FAM186A	121006	broad.mit.edu	37	12	50746140	50746140	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	FAM186A	NM_001145475	exon4	c.G4475A	p.G1492E	GGGATCCCCAATT		142	7	0.05	155	1	0.0064516129		181		0	0				
KRT80	144501	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	52567452	52567452	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_182507	exon5	c.G763T	p.V255L	CCTTCACCTCCTC		47	11	0.23	45	0	0				9	4	0.44			
SLC16A7	9194	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	60168593	60168593	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001270622	exon5	c.G517A	p.G173S	ACTTTTGGCTGGA		90	31	0.34	74	0	0				0	0				
TRPV4	59341	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	110230496	110230496	+	Silent	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_021625	exon11	c.G1785A	p.G595G	CTTCAGCCCACGG		84	25	0.30	73	0	0				38	10	0.26			
SRRM4	84530	mdanderson.org	37	12	119568524	119568524	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_194286	exon8	c.G656T	p.R219L	CCCGCCGAAGGCA		27	2	0.07	19	0	0				9	0	0.00			
MTIF3	219402	ucsc.edu	37	13	28014392	28014392	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic		RNA-Seq	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	MTIF3	NM_001166263	exon4	c.G194A	p.G65E	TTTTTTCCTTCAT		74	1	0.01	123	0	0		21		111	12	0.11			
MYH6	4624	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	23874338	23874338	+	Splice_Site	SNP	T	T	C	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_002471	exon7	c.503-2A>G	.	CCGATCTGGAAGA		60	22	0.37	73	0	0				0	0				
FOXA1	3169	mdanderson.org	37	14	38061627	38061627	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_004496	exon2	c.C362A	p.A121E	GAGGCCGCCTGCT		13	2	0.15	18	0	0				5	0	0.00			
FOS	2353	mdanderson.org	37	14	75747998	75747998	+	Silent	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_005252	exon4	c.G1014T	p.T338T	TTACACGTCTTCC		35	3	0.09	50	0	0				958	0	0.00			
.	0	bcgsc.ca	37	15	23182145	23182145	+	RNA	SNP	A	A	G	rs371836	byfrequency	TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	.	.	.	.	ACATCCAGTGAGT		29	5	0.17	44	0	0				3	0	0.00			
.	0	bcgsc.ca	37	15	23182149	23182149	+	RNA	SNP	A	A	G	rs371829	bycluster;byfrequency	TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	.	.	.	.	CCAGTGAGTGGAT		27	6	0.22	43	1	0.023255814				3	1	0.33			
FAN1	22909	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	31217365	31217365	+	Silent	SNP	G	G	A	rs141117593		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_014967	exon9	c.G2208A	p.P736P	GGATCCGGAAGTC		36	15	0.42	62	0	0	0			31	13	0.42			
MGA	23269	ucsc.edu;bcgsc.ca	37	15	42058685	42058685	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	MGA	NM_001164273	exon24	c.C8405T	p.A2802V	AGGAAGCAGCTCT		39	4	0.10	55	0	0		264		26	0	0.00			
UACA	55075	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	70976695	70976695	+	Silent	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	UACA_ENST00000322954,right_upper_lobe,carcinoma,-1,3	UACA_ENST00000322954	NM_018003	exon8	c.G693A	p.A231A	GCCAAGCGCATCC		89	23	0.26	84	0	0		-1	3	70	16	0.23			
SEC11A	23478	mdanderson.org	37	15	85234840	85234840	+	Silent	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001271921	exon2	c.C87A	p.V29V	CGATGAGACAATC		75	4	0.05	89	1	0.0112359551				468	0	0.00			
CACNA1H	8912	mdanderson.org	37	16	1260952	1260952	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_021098	exon21	c.C4204T	p.R1402W	CTGCTGCGGACCC		23	3	0.13	19	0	0				35	0	0.00			
SRRM2	23524	bcgsc.ca;mdanderson.org	37	16	2819139	2819139	+	Silent	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	SRRM2	NM_016333	exon12	c.C7875T	p.S2625S	CTCCTCCTCTTCT		68	5	0.07	64	1	0.015625		263		719	3	0.00			
PRSS33	260429	mdanderson.org	37	16	2835120	2835120	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_152891	exon5	c.C567A	p.D189E	GCGCGAGTCCAGC		18	3	0.17	27	0	0				11	0	0.00			
C16orf62	57020	broad.mit.edu	37	16	19612991	19612991	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	C16orf62	NM_020314	exon9	c.C997A	p.L333I	GGAAAGCTCGTGT		66	4	0.06	86	1	0.011627907		164		65	3	0.05			
C16orf88	400506	mdanderson.org	37	16	19718523	19718523	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001012991	exon5	c.G1086A	p.W362X	AGTATCCCACTGG		40	3	0.08	40	0	0				110	0	0.00			
SRCAP	10847	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	16	30723654	30723654	+	Silent	SNP	G	G	A	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	SRCAP,bladder,carcinoma,+2,1	SRCAP	NM_006662	exon13	c.G1887A	p.L629L	CTGGCTGGTTACC		65	16	0.25	83	0	0		2	1	37	12	0.32			
ARMC5	79798	mdanderson.org	37	16	31473510	31473510	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001105247	exon3	c.G642T	p.Q214H	CCTACAGAGCGTG		27	4	0.15	32	0	0				47	0	0.00			
WDR81	124997	broad.mit.edu;ucsc.edu;mdanderson.org	37	17	1631599	1631599	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	WDR81	NM_001163809	exon1	c.G3346A	p.E1116K	ACCAGCGAGACCT		48	16	0.33	63	2	0.0317460317		180		31	7	0.23			
GAS2L2	246176	broad.mit.edu	37	17	34077157	34077157	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	GAS2L2,right_upper_lobe,carcinoma,0,2	GAS2L2	NM_139285	exon2	c.A566C	p.D189A	GAGGGGTCGGGCG		64	33	0.52	60	18	0.3		94	2	5	0	0.00			
LOC440434	0	broad.mit.edu;bcgsc.ca	37	17	36353755	36353755	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	.	.	.	.	AGATGAGTCCACC		85	7	0.08	122	0	0				41	5	0.12			
EMILIN2	84034	ucsc.edu	37	18	2913106	2913106	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	EMILIN2	NM_032048	exon8	c.G2866T	p.A956S	ATCACGGCCACCC		33	4	0.12	45	0	0		97		31	0	0.00			
OSBPL1A	114876	mdanderson.org	37	18	21747306	21747306	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_080597	exon25	c.C2522A	p.P841Q	GAATTTGGAGGCC		68	5	0.07	122	0	0				57	0	0.00			
KCTD1	284252	mdanderson.org	37	18	24127791	24127791	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001142730	exon1	c.G710A	p.R237H	AGGTAGCGGTTGA		14	2	0.14	12	0	0				30	0	0.00			
ZNF236	7776	bcgsc.ca	37	18	74637144	74637144	+	Splice_Site	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	ZNF236	NM_007345	exon22	c.3656-1G>T	.	TTCACAGGTCAGA		46	4	0.09	70	0	0		325		0	0				
OLFM2	93145	mdanderson.org	37	19	9965327	9965327	+	Silent	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_058164	exon6	c.G900A	p.V300V	CCTCTGCACCAGC		42	3	0.07	56	0	0				313	0	0.00			
PRKCSH	5589	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	11546956	11546956	+	Silent	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001001329	exon2	c.G18T	p.L6L	GCTGCTGCTGCTG		25	11	0.44	20	0	0				785	318	0.41			
ZNF333	84449	bcgsc.ca	37	19	14817526	14817526	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	ZNF333	NM_032433	exon7	c.G452T	p.R151M	TTCAGAGGGTGGT		37	4	0.11	34	0	0		76		18	0	0.00			
ERCC1	2067	ucsc.edu;bcgsc.ca	37	19	45918201	45918201	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	ERCC1	NM_001983	exon7	c.G620A	p.R207Q	AGGTACCGCCCAG		30	4	0.13	57	0	0		46		369	0	0.00			
LIG1	3978	mdanderson.org	37	19	48636323	48636323	+	Silent	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_000234	exon18	c.C1641A	p.P547P	CCGGGTGGGATGG		42	3	0.07	77	0	0				111	0	0.00			
DNMT3A	1788	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	25505572	25505572	+	Silent	SNP	G	G	A	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_175630	exon4	c.C186T	p.S62S	GTCACCGCTTTCC		95	26	0.27	113	0	0				48	15	0.31			
EMILIN1	11117	mdanderson.org	37	2	27305627	27305627	+	Silent	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_007046	exon4	c.C1188T	p.H396H	AGGCCACCCCCCA		10	2	0.20	9	0	0				705	1	0.00			
MTA3	57504	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	42836614	42836614	+	Silent	SNP	A	A	G	rs201096010	bycluster;alternate_allele	TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_020744	exon4	c.A207G	p.E69E	GGAAGAATCTGAA		110	32	0.29	117	0	0				95	29	0.31			
SPEG	10290	mdanderson.org	37	2	220347856	220347856	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_005876	exon30	c.C5671T	p.R1891C	GTGCTGCGCCCCA		43	3	0.07	40	0	0				9	0	0.00			
SNRPB	6628	broad.mit.edu	37	20	2443298	2443298	+	Silent	SNP	A	A	G	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	SNRPB	NM_003091	exon6	c.T669C	p.P223P	AGGGGGAGGAGGC		111	4	0.04	125	0	0		29		592	1	0.00			
.	0	broad.mit.edu	37	20	10869748	10869748	+	RNA	DEL	T	T	-	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	.	.	.	.	TTTTTATTTTTTT		6	2	0.33	9	0	0				0	0				
REM1	28954	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	30064434	30064434	+	Silent	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_014012	exon2	c.C186T	p.A62A	ACCTGCCCCAGAT		125	24	0.19	131	0	0				8	2	0.25			
ZNF512B	57473	mdanderson.org	37	20	62595514	62595514	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_020713	exon8	c.C1390A	p.P464T	GGCCTGGCCCCTC		39	3	0.08	46	0	0				91	0	0.00			
MIR3648	0	broad.mit.edu	37	21	9825838	9825839	+	RNA	INS	-	-	GCG	rs372061766	bycluster	TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	.	.	.	.	CGCGACTGCGGCG		10	4	0.40	8	0	0				0	0				
.	0	broad.mit.edu	37	22	18842958	18842958	+	RNA	SNP	G	G	T	rs3875977	bycluster;byfrequency	TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	.	.	.	.	GAGGTGGCCTGGG		22	3	0.14	45	0	0				0	0				
SMC1B	27127	broad.mit.edu	37	22	45798264	45798264	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	SMC1B	NM_148674	exon5	c.A803G	p.K268R	TGTTCCTTTTTCC		109	3	0.03	116	0	0		215		1	0	0.00			
TBC1D22A	25771	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	47287258	47287258	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_014346	exon6	c.A805T	p.N269Y	TCTAGGAACGACG		155	29	0.19	187	0	0				61	16	0.26			
CAND2	23066	mdanderson.org	37	3	12851759	12851759	+	Silent	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001162499	exon5	c.G693T	p.P231P	CAGCCCGACTGCC		20	2	0.10	17	0	0				6	1	0.17			
VILL	50853	mdanderson.org	37	3	38035877	38035877	+	Silent	SNP	G	G	T	rs370182077		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_015873	exon3	c.G261T	p.L87L	CGAGCTGGGGGGC		48	3	0.06	65	0	0				9	0	0.00			
ARIH2	10425	bcgsc.ca;mdanderson.org	37	3	48999100	48999100	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	ARIH2	NM_006321	exon4	c.A311T	p.E104V	TTTCAGAGATATT		77	5	0.06	82	0	0		32		59	0	0.00			
CACNA2D2	9254	mdanderson.org	37	3	50431589	50431589	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_006030	exon4	c.A416G	p.D139G	GCAGCATCAGCCA		49	3	0.06	46	0	0				47	0	0.00			
DOCK3	1795	broad.mit.edu;mdanderson.org	37	3	51251594	51251594	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	DOCK3	NM_004947	exon14	c.C1168T	p.Q390X	ATGGAACAGATTC		117	6	0.05	118	0	0		397		21	0	0.00			
GLYCTK	132158	mdanderson.org	37	3	52326663	52326663	+	Missense_Mutation	SNP	G	G	T	rs200573074	alternate_allele	TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_145262	exon5	c.G1093T	p.G365W	ATGGCTGGGGCTT		43	3	0.07	42	0	0				18	0	0.00			
LPHN3	23284	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	4	62679544	62679544	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_015236	exon6	c.C1213T	p.Q405X	CATGGACAAGTTT		89	30	0.34	78	0	0				20	1	0.05			
PRLR	5618	mdanderson.org	37	5	35068387	35068387	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001204316	exon8	c.C786A	p.S262R	CACCATGCTATAA		33	3	0.09	70	0	0				3	0	0.00			
DIAPH1	1729	ucsc.edu	37	5	140953699	140953699	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	DIAPH1	NM_005219	exon16	c.C1718A	p.P573H	GAAGGAGGTACAG		41	4	0.10	66	0	0		64		32	0	0.00			
CCNJL	79616	mdanderson.org	37	5	159707575	159707575	+	Silent	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_024565	exon3	c.C237A	p.S79S	CTGCTTGGAGGTG		21	2	0.10	58	0	0				10	0	0.00			
HLA-F	3134	bcgsc.ca	37	6	29694891	29694891	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	HLA-F	NM_001098479	exon7	c.G1268T	p.S423I	GCAGGAGCTTCCT		52	5	0.10	45	0	0		41		10	0	0.00			
UBR2	23304	broad.mit.edu;bcgsc.ca	37	6	42582883	42582894	+	In_Frame_Del	DEL	AGACTGATGCTT	AGACTGATGCTT	-	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	AGACTGATGCTT	AGACTGATGCTT					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	UBR2	NM_001184801	exon9	c.1060_1071del	p.354_357del	GTGGACAGACTGA		67	7	0.10	82	0	0		134		10	0	0.00			
KLHDC3	116138	broad.mit.edu;ucsc.edu;mdanderson.org	37	6	42985044	42985044	+	Nonsense_Mutation	SNP	T	T	G	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	KLHDC3	NM_057161	exon2	c.T114G	p.Y38X	AGACTATGAGACA		48	13	0.27	53	1	0.0188679245		23		249	40	0.16			
GSTA4	2941	mdanderson.org	37	6	52859034	52859034	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001512	exon2	c.C8T	p.A3V	GGCCTTGCTGCCA		34	3	0.09	44	0	0				206	0	0.00			
TBX18	9096	broad.mit.edu;bcgsc.ca;mdanderson.org	37	6	85473885	85473885	+	Silent	SNP	T	T	A	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	TBX18	NM_001080508	exon1	c.A15T	p.R5R	GCCCCTTCGCTTC		21	4	0.19	19	0	0		131		2	1	0.50			
RARS2	57038	broad.mit.edu	37	6	88251684	88251684	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	RARS2	NM_020320	exon8	c.564delT	p.F188fs	ATAGCCAAACAGC		37	8	0.22	28	0	0		61		51	0	0.00			
EYA4	2070	broad.mit.edu	37	6	133804227	133804227	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	EYA4	NM_172105	exon13	c.G1165T	p.G389W	CTCACCGGGTCTT		160	4	0.03	150	0	0		196		34	0	0.00			
FRMD1	79981	broad.mit.edu	37	6	168461656	168461656	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	FRMD1	NM_024919	exon9	c.T1127G	p.V376G	CTGCTGACCCCAC		77	24	0.31	84	19	0.2261904762		52		0	0				
SP8	221833	mdanderson.org	37	7	20824970	20824970	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_182700	exon2	c.G466A	p.G156S	CGCCGCCGCTGCC		37	3	0.08	33	0	0				2	0	0.00			
EGFR	1956	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	55273210	55273210	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_005228	exon28	c.C3533T	p.P1178L	TCTTTCCCAAGGA		162	38	0.23	137	0	0				19	4	0.21			
LRRD1	401387	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	91793802	91793802	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001161528	exon1	c.C715G	p.L239V	AAAAGAGTTGTCT		152	27	0.18	189	0	0				0	0				
SYPL1	6856	mdanderson.org	37	7	105752945	105752945	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_006754	exon1	c.C31T	p.R11W	TGATCCGCTGGCG		21	2	0.10	33	0	0				4	0	0.00			
.	0	broad.mit.edu	37	7	128210684	128210685	+	RNA	INS	-	-	T	rs201622560	by1000genomes	TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	.	.	.	.	CCATGACCATCCT		12	5	0.42	11	0	0				2	0	0.00			
.	0	broad.mit.edu	37	7	128210686	128210687	+	RNA	DEL	AT	AT	-	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	AT	AT					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	.	.	.	.	ATGACCATCCTCC		11	5	0.45	10	0	0				2	0	0.00			
EPHB6	2051	mdanderson.org	37	7	142566831	142566831	+	Silent	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_004445	exon16	c.G2388T	p.L796L	CTCGCTGTCTGCC		40	3	0.08	52	0	0				82	0	0.00			
KEL	3792	mdanderson.org	37	7	142639975	142639975	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_000420	exon17	c.C1928A	p.A643D	GCGATGGCTAGCC		45	3	0.07	58	0	0				2	0	0.00			
MFHAS1	9258	broad.mit.edu;mdanderson.org	37	8	8749747	8749747	+	Silent	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	MFHAS1	NM_004225	exon1	c.G822A	p.R274R	TTTGAGCCGCTGC		20	3	0.15	30	0	0		58		21	0	0.00			
NPBWR1	2831	mdanderson.org	37	8	53852980	53852980	+	Silent	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_005285	exon1	c.G513T	p.L171L	CGTGCTGCCCTTC		12	2	0.17	21	0	0				0	0				
PREX2	80243	mdanderson.org	37	8	69002939	69002939	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_025170	exon20	c.C2239T	p.R747W	TACAGGCGGCCAA		41	3	0.07	27	0	0				12	0	0.00			
TRPA1	8989	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	72987612	72987612	+	Silent	SNP	A	A	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_007332	exon1	c.T33A	p.P11P	TTCTCCAGGGCGC		32	6	0.19	32	0	0				4	4	1.00			
CNBD1	168975	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	88363932	88363932	+	Silent	SNP	T	T	C	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_173538	exon9	c.T1062C	p.N354N	TGGAAATATAATT		71	11	0.15	50	0	0				0	0				
.	0	bcgsc.ca	37	9	12288078	12288078	+	RNA	SNP	A	A	G	rs10960566	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes	TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	.	.	.	.	TACTTCATGCCCG		10	6	0.60	18	0	0				0	0				
FAM219A	203259	mdanderson.org	37	9	34405956	34405956	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_147202	exon2	c.G67A	p.A23T	CGGCGGCTGGGTC		44	3	0.07	29	0	0				38	0	0.00			
FAM205A	259308	mdanderson.org	37	9	34726543	34726543	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001141917	exon4	c.C694A	p.L232M	GGTTCAGTGGAGC		47	3	0.06	41	0	0				0	0				
KIAA1958	158405	mdanderson.org	37	9	115336895	115336895	+	Missense_Mutation	SNP	C	C	A	rs186262765	bycluster;by1000genomes;alternate_allele	TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_133465	exon2	c.C535A	p.P179T	GTAGTCCCATCTT		41	3	0.07	70	0	0				9	0	0.00			
C5	727	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	123794397	123794397	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001735	exon6	c.G661A	p.E221K	CATATTCTTTAAC		34	15	0.44	59	0	0				0	0				
NTMT1	28989	mdanderson.org	37	9	132395063	132395063	+	Silent	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_014064	exon2	c.G81T	p.V27V	CACGGTGGACGGC		45	3	0.07	71	0	0				73	0	0.00			
LAMC3	10319	bcgsc.ca	37	9	133914313	133914313	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	LAMC3	NM_006059	exon5	c.G1039T	p.G347C	AGCACAGGCCACG		43	4	0.09	64	0	0		167		35	0	0.00			
CEL	1056	mdanderson.org	37	9	135939866	135939866	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001807	exon2	c.G151T	p.D51Y	TCTGTGGACATCT		41	3	0.07	59	0	0				83	0	0.00			
PNPLA7	375775	mdanderson.org	37	9	140374861	140374861	+	Missense_Mutation	SNP	A	A	T	rs1891630	bycluster;byfrequency;by2hit2allele;byhapmap;by1000genomes;alternate_allele	TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_001098537	exon23	c.T2483A	p.V828E	CCATCTACCTGGT		45	2	0.04	73	0	0				2	0	0.00			
HUWE1	10075	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	53579361	53579361	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XE-AANI-01A-11D-A435-10	TCGA-XE-AANI-10A-01D-A438-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	be4df9d3-88c9-42ae-9752-179602eb36db	168dc95b-9014-4cb0-9d44-1e0e2d747959	.	.	NM_031407	exon63	c.C8792A	p.S2931Y	ACGGCAGAATCTC		149	57	0.38	101	0	0				189	79	0.42			
