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
MTHFR	4524	broad.mit.edu	37	1	11854879	11854879	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	MTHFR	NM_005957	exon7	c.G1073A	p.R358Q	TCCTCTCGGCGCT		111	4	0.04	83	0	0		65		11	0	0.00			
MST1P2	11209	hgsc.bcm.edu	37	1	16974458	16974458	+	RNA	SNP	G	G	C	rs57783259		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	.	.	.	.	GGTGGGGGGGCGG		484	28	0.06	244	0	0				1	0	0.00			
CROCC	9696	broad.mit.edu	37	1	17270665	17270665	+	Missense_Mutation	SNP	G	G	A	rs199948035		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	CROCC	NM_014675	exon14	c.G1879A	p.E627K	GAGCGGGAGAAGC		118	6	0.05	75	3	0.04		185		26	0	0.00			
UBR4	23352	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	1	19483407	19483407	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_020765	exon41	c.C5773T	p.Q1925X	AGAGCTGCAGAAC		292	43	0.15	226	0	0				25	1	0.04			
PARS2	25973	broad.mit.edu	37	1	55224781	55224781	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	PARS2,NS,carcinoma,0,2	PARS2	NM_152268	exon2	c.C54A	p.S18R	CTGGCGGCTGCAG		133	7	0.05	114	1	0.0087719298		29	2	23	0	0.00			
RPL5	6125	broad.mit.edu	37	1	93300360	93300361	+	Frame_Shift_Ins	INS	-	-	AT	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	RPL5	NM_000969	exon4	c.214_215insAT	p.D72fs	GAGGGGGATATGA		40	7	0.18	32	0	0		38		2622	0	0.00			
TCHH	7062	broad.mit.edu	37	1	152084619	152084621	+	In_Frame_Del	DEL	CTC	CTC	-	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	CTC	CTC					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	TCHH	NM_007113	exon3	c.1072_1074del	p.358_358del	GCGCCTCTCCTCC		25	7	0.28	10	0	0		275		0	0				
PCP4L1	654790	broad.mit.edu	37	1	161254255	161254255	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	PCP4L1	NM_001102566	exon3	c.A191G	p.K64R	GGAAAAAGGATCC		534	5	0.01	405	2	0.0049382716		7		0	0				
MFSD4	148808	broad.mit.edu;mdanderson.org	37	1	205538281	205538281	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	MFSD4	NM_181644	exon1	c.C84T	p.F28F	CAGCTTCGGCCTG		94	5	0.05	59	0	0		46		0	0				
LINC00467	84791	hgsc.bcm.edu	37	1	211591127	211591127	+	RNA	SNP	A	A	G	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	.	.	.	.	GCGGCAATGAGGG		396	66	0.17	246	0	0				4	0	0.00			
OR2T4	127074	hgsc.bcm.edu	37	1	248525639	248525640	+	Missense_Mutation	DNP	AT	AT	CC	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	AT	AT					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	OR2T4,brain,glioma,+1,1	OR2T4	NM_001004696	exon1	c.T758C	p.I253P	TTACTCATCCTCC		657	17	0.03	461	1	0.0021691974		1	1	0	0				
FAM208B	54906	mdanderson.org	37	10	5788743	5788743	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_017782	exon15	c.G3359A	p.G1120D	AGAAGGGCACTAA		87	4	0.05	59	0	0				27	0	0.00			
TAF5	6877	mdanderson.org	37	10	105147455	105147455	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_006951	exon10	c.G2185T	p.G729C	GCATCAGGTAAAT		24	3	0.13	40	0	0				27	0	0.00			
SPON1	10418	broad.mit.edu	37	11	14101781	14101782	+	RNA	INS	-	-	T	rs11432678	bycluster;by1000genomes	TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	SPON1	.	.	.	.	TTTTTTCTTTTTT		9	3	0.33	6	0	0		65		0	0				
MIR1908	100302263	mdanderson.org	37	11	61582704	61582704	+	RNA	SNP	G	G	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	.	.	.	.	GCCGCGGCATTCC		45	3	0.07	49	0	0				0	0				
RTN3	10313	broad.mit.edu	37	11	63488321	63488321	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	RTN3	NM_001265589	exon3	c.G2347T	p.E783X	GCTCCAGAATCTT		75	5	0.07	72	0	0		104		3	0	0.00			
FAM86C2P	645332	bcgsc.ca	37	11	67560715	67560715	+	RNA	SNP	C	C	T	rs184691350	bycluster	TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	.	.	.	.	GGGAAACAGTTTC		279	25	0.09	286	8	0.027972028				2	0	0.00			
FAM86C2P	645332	bcgsc.ca	37	11	67560756	67560757	+	RNA	DNP	CA	CA	TG	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	CA	CA					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	.	.	.	.	TGATCCCAGCCCG		289	28	0.10	273	13	0.0476190476				2	0	0.00			
BUD13	84811	mdanderson.org	37	11	116633790	116633790	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_001159736	exon4	c.C515A	p.S172X	GTGTCTGAGTCAT		49	3	0.06	56	1	0.0178571429				16	0	0.00			
KRT73	319101	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	12	53002138	53002138	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_175068	exon9	c.G1465A	p.G489R	AGCCCCCGCTGAC		112	14	0.13	52	0	0				0	0				
LOC643339	0	broad.mit.edu	37	12	93517618	93517619	+	RNA	INS	-	-	A	rs200193906	bycluster;by1000genomes	TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	.	.	.	.	AATAAATAAAAAA		6	4	0.67	8	0	0				0	0				
SELPLG	0	broad.mit.edu	37	12	109017521	109017521	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	SELPLG	NM_001206609	exon2	c.G611C	p.G204A	TCCAGGCCTGTGG		185	9	0.05	113	2	0.017699115		138		75	0	0.00			
CCDC64	92558	mdanderson.org	37	12	120427769	120427769	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_207311	exon1	c.G97A	p.A33T	GGGGACGCAGTCC		23	2	0.09	14	0	0				22	0	0.00			
TMEM132B	114795	broad.mit.edu	37	12	125834096	125834096	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	TMEM132B	NM_052907	exon2	c.T151C	p.F51L	GAGTCCTTTTTCC		337	4	0.01	163	0	0		207		1	0	0.00			
NKX2-1	7080	broad.mit.edu	37	14	36988467	36988467	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	NKX2-1	NM_001079668	exon2	c.C186A	p.G62G	GAGGCCGCCGCCC		138	4	0.03	79	2	0.0253164557		21		0	0				
OTX2	5015	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	57271040	57271040	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_001270525	exon2	c.C139T	p.R47C	CCCGGCGCTGTTT		191	31	0.16	109	0	0				33	9	0.27			
TDRD9	122402	mdanderson.org	37	14	104481101	104481101	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_153046	exon21	c.C2146T	p.Q716X	ATCTCACAGTTCA		66	3	0.05	60	0	0				4	0	0.00			
UBN1	29855	ucsc.edu	37	16	4925276	4925276	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic		RNA-Seq	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	UBN1	NM_001079514	exon15	c.G2865A	p.G955G	AGCAGGGAAAAAA		97	1	0.01	81	0	0		88		34	6	0.18			
C16orf62	57020	broad.mit.edu	37	16	19612991	19612991	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	C16orf62	NM_020314	exon9	c.C997A	p.L333I	GGAAAGCTCGTGT		110	7	0.06	111	1	0.009009009		164		33	0	0.00			
SLC6A10P	0	broad.mit.edu	37	16	32890622	32890622	+	RNA	SNP	T	T	G	rs689942	bycluster	TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	.	.	.	.	GGTGTTTTTGTAG		120	10	0.08	93	1	0.0107526882				1	0	0.00			
PKD1L2	114780	mdanderson.org	37	16	81213378	81213378	+	Missense_Mutation	SNP	A	A	T	rs4889261	bycluster;byfrequency;byhapmap;by1000genomes;alternate_allele	TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_001076780	exon13	c.T2132A	p.L711Q	GCATCCAGGAGGG		87	2	0.02	95	0	0				0	0				
CMIP	80790	mdanderson.org	37	16	81737575	81737575	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	CMIP,NS,carcinoma,+1,2	CMIP	NM_198390	exon18	c.G1976A	p.G659D	GCTCCGGCTCCTT		36	3	0.08	49	0	0		1	2	95	0	0.00			
ZC3H18	124245	broad.mit.edu	37	16	88677720	88677721	+	In_Frame_Ins	INS	-	-	GAGCGG	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	ZC3H18,colon,carcinoma,0,2	ZC3H18	NM_144604	exon8	c.1251_1252insGAGCGG	p.R417delinsRER	CGAGCGCGAGCGG		60	8	0.13	60	0	0		90	2	40	0	0.00			
UBB	7314	hgsc.bcm.edu;bcgsc.ca;mdanderson.org	37	17	16285479	16285479	+	Silent	SNP	C	C	G	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_018955	exon2	c.C258G	p.G86G	GACCGGCAAGACC		106	13	0.12	95	0	0				2236	330	0.15			
.	0	broad.mit.edu	37	17	16748911	16748913	+	RNA	DEL	GCT	GCT	-	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	GCT	GCT					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	.	.	.	.	CTCAAAGCTGCTG		207	8	0.04	170	1	0.0058823529				1	0	0.00			
NF1	4763	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	29496939	29496939	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_001128147	exon5	c.C510T	p.D170D	AGAAGACAATGTT		96	13	0.14	93	0	0				4	2	0.50			
C17orf98	388381	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	36997456	36997456	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_001080465	exon1	c.C187T	p.L63F	GCAAAAGGGGCGG		111	18	0.16	59	0	0				1	1	1.00			
CDC27	996	mdanderson.org	37	17	45234325	45234325	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_001114091	exon7	c.C796T	p.R266X	AACTTCGACCAGT		64	3	0.05	58	1	0.0172413793				42	0	0.00			
HOXB9	3219	mdanderson.org	37	17	46703562	46703562	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_024017	exon1	c.C70A	p.P24T	CTGGAGGCGCGTC		10	2	0.20	10	0	0				0	0				
GGA3	23163	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	73237088	73237088	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_138619	exon11	c.G997T	p.D333Y	TCGTGTCCAGCTC		176	20	0.11	112	0	0				35	10	0.29			
ELP2	55250	mdanderson.org	37	18	33726314	33726314	+	Silent	SNP	G	G	A	rs143713231	byfrequency	TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_001242875	exon12	c.G1290A	p.L430L	AGCGTTGCACCTT		99	5	0.05	149	0	0	0.001			69	0	0.00			
PLIN5	440503	mdanderson.org	37	19	4531721	4531721	+	Silent	SNP	G	G	T	rs377467819	alternate_allele	TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_001013706	exon3	c.C174A	p.R58R	AGCCAGGCGGCAG		44	3	0.07	22	0	0				0	0				
PNPLA6	10908	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	19	7615464	7615464	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_001166111	exon18	c.C2035T	p.Q679X	GTGATCCAGCGAG		160	20	0.13	74	0	0				64	6	0.09			
ZNF699	374879	broad.mit.edu;ucsc.edu	37	19	9407511	9407511	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	ZNF699,NS,carcinoma,-1,1	ZNF699	NM_198535	exon5	c.C569G	p.T190S	ACTTCAGTATTTC		183	27	0.15	142	2	0.014084507		67	1	11	1	0.09			
BST2	0	broad.mit.edu	37	19	17516586	17516587	+	RNA	INS	-	-	T	rs28413175	bycluster;by1000genomes	TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	BST2	.	.	.	.	GGTGGGCTTTTTT		8	5	0.63	4	0	0		28		0	0				
ZNF676	163223	bcgsc.ca	37	19	22363736	22363736	+	Silent	SNP	T	T	G	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	ZNF676	NM_001001411	exon3	c.A783C	p.G261G	ACTAAATCCTTTG		71	3	0.04	55	0	0		146		81	0	0.00			
ZNF99	7652	hgsc.bcm.edu	37	19	22940462	22940463	+	Missense_Mutation	DNP	AC	AC	CT	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	AC	AC					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	ZNF99,colon,carcinoma,+2,1	ZNF99	NM_001080409	exon4	c.G2248A	p.V659R	TTATGTACAGTAA		54	4	0.07	34	1	0.0294117647		2	1	7	0	0.00			
LGI4	163175	broad.mit.edu	37	19	35625538	35625538	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	LGI4,pharynx,carcinoma,0,1	LGI4	NM_139284	exon1	c.T47G	p.V16G	ACCACCACCCCCG		82	18	0.22	55	6	0.1090909091		32	1	1	0	0.00			
ZNF567	163081	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	19	37211070	37211071	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	TG	TG					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	ZNF567	NM_152603	exon4	c.1350_1351del	p.450_451del	CCTCACTGTGGGA		134	19	0.14	125	0	0		61		24	0	0.00			
RYR1	6261	mdanderson.org	37	19	38958286	38958286	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	RYR1,colon,carcinoma,0,3	RYR1	NM_001042723	exon25	c.G3215A	p.R1072H	GGGTGCGCATCTT		72	4	0.06	56	0	0		0	3	14	0	0.00			
HNRNPL	3191	broad.mit.edu	37	19	39338057	39338057	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	HNRNPL,NS,carcinoma,0,2	HNRNPL	NM_001533	exon2	c.G285A	p.P95P	TTTGTGCGGGTCA		106	4	0.04	71	0	0		67	2	382	0	0.00			
ZNF528	84436	mdanderson.org	37	19	52919465	52919465	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_032423	exon7	c.G1360T	p.A454S	CTTACTGCCCATT		123	5	0.04	104	0	0				35	0	0.00			
DNAH6	1768	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	84838859	84838859	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	DNAH6	NM_001370	exon22	c.A3356T	p.D1119V	CTCCAGACATTCA		558	76	0.14	497	1	0.0020120724		194		0	0				
CNNM3	26505	mdanderson.org	37	2	97482998	97482998	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_017623	exon1	c.C984T	p.D328D	GCTGGACGCCAGC		42	3	0.07	27	0	0				33	0	0.00			
KIF5C	3800	broad.mit.edu	37	2	149866823	149866823	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	KIF5C	NM_004522	exon24	c.C2725T	p.R909W	GCCGTGCGGGCCA		261	7	0.03	214	0	0		166		1	0	0.00			
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	179399008	179399008	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_001267550	exon358	c.T102334A	p.S34112T	CACAGGAGATCCG		181	53	0.29	131	0	0				0	0				
MPP4	58538	broad.mit.edu	37	2	202549823	202549823	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	MPP4,NS,carcinoma,0,1	MPP4	NM_033066	exon7	c.G538T	p.A180S	TCCTGGCCACCAA		145	7	0.05	108	1	0.0092592593		93	1	0	0				
IKZF2	22807	broad.mit.edu	37	2	214012404	214012405	+	Frame_Shift_Del	DEL	AA	AA	-	rs112988286	bycluster	TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	AA	AA					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	IKZF2	.	.	.	.	ACACACAAAAAAA		63	0	0.00	47	0	0		71		0	0				
ANO7	50636	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	242163124	242163124	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	ANO7,colon,carcinoma,+1,1	ANO7	NM_001001891	exon23	c.C2622G	p.D874E	GCCTGACATCCCA		212	50	0.24	129	0	0		1	1	5	1	0.20			
FRG1B	284802	hgsc.bcm.edu	37	20	29625928	29625928	+	RNA	SNP	G	G	C	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	.	.	.	.	GAACTTGTTGGGC		123	6	0.05	138	0	0				113	0	0.00			
KCNS1	3787	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	43726455	43726455	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_002251	exon4	c.C958T	p.L320L	CCAGCAGCGTGAG		62	16	0.26	39	0	0				5	2	0.40			
BAGE2	85319	broad.mit.edu	37	21	11045626	11045626	+	RNA	DEL	G	G	-	rs56675609	bycluster;alternate_allele	TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	.	.	.	.	AAATAAGATGTGA		6	4	0.67	4	0	0				0	0				
MORC3	23515	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	21	37705948	37705948	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_015358	exon2	c.G44T	p.C15F	AGCTTTGCCCGAA		155	20	0.13	103	0	0				16	3	0.19			
COL18A1	80781	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	21	46909431	46909431	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_030582	exon18	c.C2495T	p.A832V	CGGGGGCGAAGGT		126	14	0.11	56	0	0				115	5	0.04			
CARD10	29775	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	22	37912055	37912055	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_014550	exon3	c.G624T	p.M208I	GGCGATCATGTAG		224	31	0.14	117	0	0				75	18	0.24			
CELSR1	9620	broad.mit.edu	37	22	46765084	46765084	+	Silent	SNP	T	T	C	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	CELSR1	NM_014246	exon27	c.A7944G	p.K2648K	GATCCCTTTTTTC		220	4	0.02	150	0	0		242		16	0	0.00			
TUBGCP6	85378	mdanderson.org	37	22	50657310	50657310	+	Missense_Mutation	SNP	G	G	T	rs144740402	bycluster;by1000genomes;alternate_allele	TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	TUBGCP6,NS,carcinoma,+1,1	TUBGCP6	NM_020461	exon21	c.C4643A	p.T1548K	CCGGGCGTTTGCC		59	3	0.05	39	0	0		1	1	48	0	0.00			
FBXL2	25827	mdanderson.org	37	3	33416789	33416789	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_012157	exon10	c.G667T	p.D223Y	ATCACGGATGAAG		58	3	0.05	48	0	0				0	0				
STAB1	23166	mdanderson.org	37	3	52542370	52542370	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_015136	exon21	c.G2230T	p.G744C	GGCAAAGGCAATG		50	3	0.06	39	0	0				16	0	0.00			
PBRM1	55193	broad.mit.edu	37	3	52677350	52677350	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	PBRM1	NM_018313	exon10	c.C909A	p.S303S	CAAGTTGGATGGA		126	4	0.03	78	0	0		1252		25	0	0.00			
DHFRL1	200895	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	93779801	93779803	+	In_Frame_Del	DEL	CTT	CTT	-	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	CTT	CTT					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	DHFRL1	NM_001195643	exon2	c.554_556del	p.185_186del	ATCATCCTTCTCA		94	10	0.11	98	0	0		25		2	0	0.00			
SLC1A3	6507	mdanderson.org	37	5	36677031	36677031	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_004172	exon6	c.C605T	p.P202L	AAGTGCCCATCCA		61	3	0.05	81	0	0				9	0	0.00			
CCDC152	100129792	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	42799496	42799496	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_001134848	exon8	c.G578C	p.R193T	TAGCAAGAGTTCA		145	26	0.18	198	0	0				20	6	0.30			
ZSWIM6	57688	mdanderson.org	37	5	60628422	60628422	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_020928	exon1	c.G323A	p.R108H	AGCGCCGCATAGT		58	3	0.05	46	0	0				0	0				
NSD1	64324	broad.mit.edu	37	5	176638303	176638303	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	NSD1_ENST00000439151,colon,carcinoma,0,2	NSD1	NM_022455	exon5	c.A2903G	p.K968R	AGAAAAAGGGAGA		210	3	0.01	223	1	0.0044843049		416	2	40	0	0.00			
HIST1H3C	8352	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	26045698	26045698	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_003531	exon1	c.G60A	p.Q20Q	CAAGCAGCTTGCT		165	33	0.20	103	0	0				27	8	0.30			
BTN2A3P	54718	hgsc.bcm.edu;broad.mit.edu	37	6	26422353	26422353	+	RNA	SNP	C	C	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	BTN2A3,NS,carcinoma,0,9	BTN2A3	.	.	.	.	ATGGAACCAGCTG		73	5	0.07	47	0	0		0	9	3	0	0.00			
CDSN	1041	mdanderson.org	37	6	31084507	31084507	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_001264	exon2	c.C885A	p.G295G	CTCGTAGCCACCA		49	3	0.06	32	0	0				0	0				
HLA-DQB2	3120	ucsc.edu	37	6	32726742	32726742	+	Silent	SNP	A	A	G	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	A	A					Unknown	Untested	Somatic		RNA-Seq	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	HLA-DQB2	NM_001198858	exon3	c.T531C	p.N177N	GTCACCATTCCTA		163	2	0.01	136	0	0		22		94	27	0.29	rescued with RNA-seq		
CUL9	23113	mdanderson.org	37	6	43153342	43153342	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_015089	exon3	c.G744T	p.L248L	TCATCTGCCTCAG		32	3	0.09	24	0	0				6	0	0.00			
POPDC3	64208	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	105609640	105609640	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_022361	exon2	c.G145A	p.G49R	GGAGCCCGAAGAA		157	21	0.13	147	0	0				0	0				
INTS4L2	0	broad.mit.edu	37	7	65150814	65150815	+	RNA	INS	-	-	C	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	.	.	.	.	CATCCCTCACCCC		90	8	0.09	47	0	0				0	0				
SEMA3E	9723	broad.mit.edu	37	7	83277770	83277770	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	SEMA3E	NM_012431	exon1	c.A89C	p.H30P	CGGGGGTGGGTAG		296	47	0.16	145	20	0.1379310345		125		0	0				
EPHB4	2050	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	100419938	100419938	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_004444	exon4	c.T763G	p.C255G	GAGCACAGCTGCA		126	15	0.12	47	0	0				656	181	0.28			
PRSS3P2	0	broad.mit.edu	37	7	142482025	142482025	+	RNA	DEL	A	A	-	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	.	.	.	.	GTGCCCACATGGA		43	14	0.33	31	2	0.064516129				0	0				
MFHAS1	9258	broad.mit.edu	37	8	8749216	8749216	+	Silent	SNP	A	A	G	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	MFHAS1	NM_004225	exon1	c.T1353C	p.P451P	AGGGGGAGGTGAC		91	3	0.03	63	0	0		58		19	0	0.00			
PCMTD1	115294	mdanderson.org	37	8	52733270	52733270	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_052937	exon6	c.G715A	p.A239T	TGACAGCACAGGG		78	5	0.06	59	0	0				41	0	0.00			
COL22A1	169044	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	139629170	139629170	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	COL22A1,right_upper_lobe,carcinoma,-1,1	COL22A1	NM_152888	exon54	c.C3857T	p.A1286V	CCGGGTGCACCAG		91	17	0.19	88	0	0		-1	1	48	13	0.27			
FAM214B	80256	hgsc.bcm.edu	37	9	35106621	35106621	+	Missense_Mutation	SNP	G	G	A	rs373199885		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	KIAA1539,NS,carcinoma,+1,1	KIAA1539	NM_025182	exon5	c.C973T	p.R325W	CCTTCCGGAGGCT		66	3	0.05	42	0	0		1	1	102	0	0.00			
SPATA31D5P	0	broad.mit.edu	37	9	84530744	84530744	+	RNA	SNP	T	T	C	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	.	.	.	.	CTCCCCTTTTCCC		158	3	0.02	96	0	0				0	0				
ODF2	4957	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	131262420	131262420	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_153435	exon21	c.C2568T	p.S856S	CCGCAGCATGCAG		119	37	0.31	84	0	0				130	72	0.55			
IER5L	389792	mdanderson.org	37	9	131939453	131939453	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_203434	exon1	c.C879A	p.G293G	CGCCAGGCCCGGT		43	3	0.07	20	0	0				18	0	0.00			
COX1	4512	broad.mit.edu	37	MT	5989	5989	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	ENST00000361624	exon1	c.T86C	p.L29P	GAGTCCTAGGCAC		45	3	0.07	23	0	0				0	0				
FRMPD4	9758	mdanderson.org	37	X	12734431	12734431	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_014728	exon15	c.G1853T	p.C618F	CCCCCTGTGAGGC		57	3	0.05	38	0	0				1	0	0.00			
SUPT20HL1	100130302	hgsc.bcm.edu	37	X	24382423	24382423	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_001136234	exon1	c.G1546C	p.A516P	GCTGCTGCTGCTC		160	9	0.06	71	0	0				0	0				
RGN	9104	mdanderson.org	37	X	46951545	46951545	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_004683	exon6	c.G780T	p.V260V	GTATGTGACCTGC		126	5	0.04	93	0	0				0	0				
AR	367	hgsc.bcm.edu	37	X	66765222	66765223	+	Missense_Mutation	DNP	GC	GC	AG	novel		TCGA-2G-AAFH-01A-12D-A42Y-10	TCGA-2G-AAFH-10A-01D-A433-10	GC	GC					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	258cf1c4-41c5-4e54-ad57-0961483d99ba	bb501e72-c643-4afb-b1e8-56593b08cb2f	.	.	NM_000044	exon1	c.C235G	p.Q79E	GCAGCAGCAGCAA		145	8	0.06	107	0	0				0	0				
