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
C1orf127	148345	broad.mit.edu	37	1	11014129	11014129	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	C1orf127	NM_001170754	exon10	c.C1046T	p.A349V	ATCTCGGCAAATT		406	8	0.02	347	0	0		134		2	0	0.00			
.	0	bcgsc.ca	37	1	11940212	11940212	+	RNA	SNP	C	C	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	ATGAAGCCTTGGA		61	15	0.25	43	0	0				0	0				
PRAMEF1	65121	broad.mit.edu	37	1	12856083	12856084	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	PRAMEF1	NM_023013	exon4	c.1363_1364insC	p.T455fs	GGCCCCACCCCCT		1405	0	0.00	1067	0	0		78		0	0				
ALDH4A1	8659	mdanderson.org	37	1	19216599	19216599	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_003748	exon2	c.C63A	p.G21G	CCGCAGGCTGGAA		60	5	0.08	28	0	0				17	0	0.00			
LDLRAD2	401944	broad.mit.edu	37	1	22141108	22141108	+	Silent	SNP	G	G	C	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	LDLRAD2	NM_001013693	exon2	c.G303C	p.P101P	CTCCCCGGCCCCG		200	17	0.09	171	10	0.0584795322		17		0	0				
FAAH	2166	mdanderson.org	37	1	46874212	46874212	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	FAAH,NS,carcinoma,-1,2	FAAH	NM_001441	exon8	c.G1033T	p.A345S	AGGCGGGCCGTGC		115	5	0.04	134	0	0		-1	2	24	0	0.00			
RCSD1	92241	hgsc.bcm.edu	37	1	167653179	167653179	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_052862	exon2	c.T49C	p.S17P	TCGGCGTCCCCCT		102	6	0.06	83	0	0				19	0	0.00			
MIR548F1	100302192	hgsc.bcm.edu	37	1	186287470	186287471	+	RNA	DNP	AC	AC	CA	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	AC	AC					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	AAAAAAACAAAAA		64	10	0.16	38	0	0				3	0	0.00			
KIF21B	23046	mdanderson.org	37	1	200974466	200974466	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_017596	exon5	c.C702A	p.C234X	CATCTGGCACAGG		35	3	0.09	23	0	0				3	0	0.00			
OBSCN	84033	broad.mit.edu;bcgsc.ca;mdanderson.org	37	1	228557931	228557931	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	OBSCN	NM_001271223	exon103	c.T23029A	p.W7677R	CACCCCTGGTTCC		190	7	0.04	181	0	0		2142		5	0	0.00			
GNPAT	8443	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	231403537	231403537	+	Silent	SNP	A	A	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_014236	exon9	c.A1167T	p.I389I	CCTAATAGTTGCT		138	35	0.25	149	0	0				135	42	0.31			
HSD17B7P2	0	broad.mit.edu	37	10	38647315	38647315	+	RNA	SNP	T	T	C	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	CAGGAATATGAGC		148	3	0.02	146	0	0				13	0	0.00			
CCAR1	55749	broad.mit.edu	37	10	70516152	70516152	+	Missense_Mutation	SNP	G	G	A	rs142459122		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	CCAR1	NM_018237	exon14	c.G1748A	p.R583H	CCACCCGCTCAGA		155	4	0.03	157	0	0		118		98	0	0.00			
ZNF503	84858	broad.mit.edu	37	10	77159836	77159836	+	Silent	SNP	A	A	C	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	ZNF503	NM_032772	exon2	c.T612G	p.G204G	CGAAACACCCCCG		50	11	0.22	60	14	0.2333333333		25		6	0	0.00			
PIPSL	0	broad.mit.edu	37	10	95718362	95718365	+	RNA	DEL	TTTC	TTTC	-	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	TTTC	TTTC					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	TTTTCTTTTCTTT		18	11	0.61	22	0	0				1	0	0.00			
CWF19L1	55280	broad.mit.edu	37	10	101997853	101997853	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	CWF19L1	NM_018294	exon11	c.C1180A	p.R394R	AGAACCGTCTCAG		226	5	0.02	206	0	0		39		75	0	0.00			
PKD2L1	9033	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	10	102052770	102052770	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_016112	exon11	c.G1815A	p.V605V	CTTCTGCACATCC		223	61	0.27	227	0	0				0	0				
BAG3	9531	broad.mit.edu	37	10	121432017	121432017	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	BAG3	NM_004281	exon3	c.A758G	p.D253G	AGGGGGATGACTG		165	4	0.02	114	1	0.0087719298		42		77	0	0.00			
MUC6	4588	bcgsc.ca	37	11	1016801	1016801	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	MUC6	NM_005961	exon31	c.C6000G	p.H2000Q	CTGAGGGTGTGAT		393	19	0.05	453	9	0.0198675497		408		11	0	0.00			
MUC6	4588	bcgsc.ca	37	11	1017824	1017824	+	Silent	SNP	G	G	C	rs201767599		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	MUC6	NM_005961	exon31	c.C4977G	p.L1659L	GGCCTTGAGCGTT		311	20	0.06	317	5	0.0157728707		408		3	0	0.00			
MUC2	4583	mdanderson.org	37	11	1093293	1093293	+	Silent	SNP	C	C	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_002457	exon30	c.C5112G	p.T1704T	CACCACCACTACG		26	3	0.12	31	0	0				9	1	0.11			
CTSD	1509	mdanderson.org	37	11	1775285	1775285	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_001909	exon7	c.C911T	p.P304L	TCCACCGGGCCCA		43	4	0.09	52	0	0				549	0	0.00			
PACS1	55690	broad.mit.edu;mdanderson.org	37	11	66001320	66001320	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	PACS1	NM_018026	exon16	c.C1903G	p.L635V	AGCTACCTGAGCT		75	4	0.05	117	0	0		71		48	2	0.04			
TAF1D	79101	broad.mit.edu	37	11	93469897	93469897	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	TAF1D	NM_024116	exon5	c.C656A	p.T219K	AGATGTGTTGCAT		317	6	0.02	377	0	0		18		98	0	0.00			
SCN4B	6330	broad.mit.edu	37	11	118015783	118015783	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	SCN4B	NM_174934	exon2	c.G223A	p.A75T	TGAATGCGTCACT		129	4	0.03	164	0	0		18		5	0	0.00			
DCP1B	196513	hgsc.bcm.edu	37	12	2062350	2062350	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	DCP1B,bladder,carcinoma,0,13	DCP1B	NM_152640	exon7	c.G756C	p.Q252H	CTGCTGCTGGTGG		87	5	0.06	20	1	0.05		0	13	142	1	0.01			
CD69	969	broad.mit.edu	37	12	9907234	9907234	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	CD69	NM_001781	exon4	c.A440G	p.K147R	GGTTCCTTTTTCA		610	4	0.01	236	0	0		23		3	0	0.00			
C12orf36	283422	broad.mit.edu	37	12	13526327	13526327	+	Silent	SNP	C	C	G	rs146660868	alternate_allele	TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	C12orf36	.	.	.	.	TACGAGCGCTCTG		556	8	0.01	180	0	0		17		0	0				
GYS2	2998	broad.mit.edu	37	12	21693436	21693436	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	GYS2	NM_021957	exon14	c.G1717A	p.G573R	AAAATCCATAGAG		321	7	0.02	127	0	0		110		2	0	0.00			
YARS2	51067	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	32908276	32908276	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_001040436	exon1	c.A533G	p.Q178R	TGCTTCTGGTACC		396	54	0.14	172	0	0				88	7	0.08			
KRT3	3850	mdanderson.org	37	12	53189775	53189775	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_057088	exon1	c.G52T	p.G18C	AGCGGCCGGAGAA		41	3	0.07	53	0	0				0	0				
N4BP2L1	90634	mdanderson.org	37	13	32981884	32981884	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_052818	exon2	c.G205A	p.A69T	TCAGGGCCCTGGG		43	3	0.07	73	0	0				10	0	0.00			
DCLK1	9201	mdanderson.org	37	13	36700232	36700232	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_004734	exon2	c.C43T	p.R15W	TATCCCGCTCGTC		35	3	0.09	45	0	0				5	0	0.00			
CARS2	79587	mdanderson.org	37	13	111299558	111299558	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_024537	exon11	c.C1083A	p.L361L	AGCTTGGAGCATG		37	3	0.08	58	0	0				70	0	0.00			
ACIN1	22985	hgsc.bcm.edu;bcgsc.ca;mdanderson.org	37	14	23549896	23549896	+	Silent	SNP	C	C	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_001164814	exon6	c.G822A	p.E274E	CTCCTCCTCTTCT		156	8	0.05	109	0	0				83	1	0.01			
MLH3	27030	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	75508402	75508402	+	Silent	SNP	A	A	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_014381	exon4	c.T3381C	p.D1127D	CACAGTATCTAGG		112	25	0.22	84	0	0				38	10	0.26			
.	0	broad.mit.edu	37	15	52388055	52388056	+	RNA	DEL	AG	AG	-	rs74749622		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	AG	AG					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	TTAAACAGAGTTA		17	14	0.82	5	0	0				0	0				
SRCAP	10847	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	16	30748508	30748508	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_006662	exon34	c.A7147T	p.K2383X	CGCAGTAAAAAGG		89	12	0.13	104	0	0				78	10	0.13			
FAM101B	359845	broad.mit.edu	37	17	295717	295717	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	FAM101B	.	.	.	.	AGGGGGAGAGACG		618	6	0.01	470	1	0.0021276596		19		10	0	0.00			
SHISA6	388336	broad.mit.edu;mdanderson.org	37	17	11145253	11145253	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	SHISA6	NM_207386	exon1	c.G514T	p.D172Y	GAGAAGGACAAGA		39	4	0.10	47	0	0		44		2	0	0.00			
BTBD17	388419	mdanderson.org	37	17	72353826	72353826	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_001080466	exon3	c.T407C	p.I136T	AGGGGGATGGCCT		50	3	0.06	44	0	0				2	0	0.00			
CASKIN2	57513	broad.mit.edu	37	17	73498806	73498806	+	Silent	SNP	C	C	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	CASKIN2	NM_020753	exon18	c.C2349C	p.S783S	AGGGGGCCCGGCC		54	5	0.09	52	6	0.1153846154		66		43	8	0.19			
QRICH2	84074	mdanderson.org	37	17	74274126	74274126	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_032134	exon15	c.C4563A	p.S1521R	TATCTGGCTGCTG		37	3	0.08	27	0	0				14	0	0.00			
CCDC40	55036	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	17	78023947	78023947	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_017950	exon7	c.C1024T	p.Q342X	CACCTGCAGAAGC		86	18	0.21	104	0	0				9	3	0.33			
MED16	10025	broad.mit.edu;mdanderson.org	37	19	889725	889725	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	MED16	NM_005481	exon4	c.C360G	p.S120R	CACTGAGCTCTCC		114	5	0.04	147	0	0		61		125	0	0.00			
PCSK4	54760	hgsc.bcm.edu	37	19	1482012	1482012	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_017573	exon15	c.C2014A	p.P672T	AGGATGGGGGACA		26	4	0.15	27	0	0				3	0	0.00			
ZFR2	23217	broad.mit.edu;mdanderson.org	37	19	3822136	3822136	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	ZFR2	NM_015174	exon9	c.C1434G	p.N478K	AAGGTCGTTGAAA		68	4	0.06	64	0	0		63		1	0	0.00			
SYCE2	256126	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	19	13011447	13011447	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_001105578	exon4	c.G322C	p.E108Q	ATTTCTCTGTCAG		103	17	0.17	119	0	0				10	2	0.20			
FAM32A	26017	broad.mit.edu	37	19	16296279	16296279	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	FAM32A	NM_014077	exon1	c.A26G	p.K9R	TCCAAAAGGGACC		127	4	0.03	181	1	0.0055248619		6		289	0	0.00			
ANKLE1	126549	broad.mit.edu	37	19	17397498	17397501	+	Frame_Shift_Del	DEL	TGTT	TGTT	-	rs35771129	alternate_allele	TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	TGTT	TGTT					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	ANKLE1	.	.	.	.	TGTGTGTGTTTGT		14	11	0.79	19	0	0		27		3	0	0.00			
FAM187B	148109	mdanderson.org	37	19	35716025	35716025	+	Silent	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_152481	exon2	c.C813A	p.T271T	GCCGCCGGTGGAG		49	3	0.06	46	0	0				0	0				
CAPNS1	826	broad.mit.edu;bcgsc.ca;mdanderson.org	37	19	36632054	36632054	+	Silent	SNP	C	C	T	rs17879825		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	CAPNS1	NM_001749	exon2	c.C141T	p.G47G	CGGCGGCGGTGGT		115	8	0.07	65	1	0.0153846154		19		2	0	0.00			
ARHGEF1	9138	mdanderson.org	37	19	42409964	42409964	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	ARHGEF1,NS,carcinoma,-2,1	ARHGEF1	NM_199002	exon25	c.A2434G	p.T812A	CGAGAGACGTCTC		46	3	0.07	73	1	0.0136986301		-2	1	157	1	0.01			
YWHAQ	10971	broad.mit.edu;bcgsc.ca;mdanderson.org	37	2	9725475	9725475	+	Splice_Site	SNP	C	C	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	YWHAQ	NM_006826	exon7	c.679-1G>C	.	CCAAAGCTAGAAA		414	13	0.03	231	0	0		14		4	0	0.00			
NT5C1B	93034	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	2	18765887	18765887	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	NT5C1B,NS,carcinoma,0,1	NT5C1B	NM_001199087	exon5	c.G847C	p.E283Q	GCTGCTCGGACAG		141	10	0.07	79	0	0		0	1	1	0	0.00			
SOS1	6654	broad.mit.edu	37	2	39213243	39213243	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	SOS1	NM_005633	exon23	c.3724delA	p.S1242fs	GGTCACTTTTTTT		589	9	0.02	259	0	0		134		185	0	0.00			
SOS1	6654	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	39224171	39224171	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_005633	exon19	c.T2973A	p.F991L	GTTTTCAAAGAAC		235	23	0.10	87	0	0				114	14	0.12			
RNF103-CHMP3	100526767	mdanderson.org	37	2	86737587	86737587	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_001198954	exon6	c.C389T	p.A130V	GAACCAGCCACTC		50	3	0.06	59	0	0				180	0	0.00			
ANKRD20A8P	0	broad.mit.edu	37	2	95518674	95518674	+	RNA	DEL	G	G	-	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	AAAAAAGAATAAC		7	3	0.43	7	0	0				0	0				
CDK15	65061	broad.mit.edu	37	2	202688417	202688417	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	CDK15	NM_001261435	exon6	c.G573C	p.Q191H	GTCTCAGCATCCA		149	4	0.03	120	0	0		66		3	0	0.00			
SLC4A3	6508	broad.mit.edu	37	2	220503458	220503458	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	SLC4A3	NM_201574	exon19	c.T2971C	p.S991P	GTGACCTCTCCCG		107	3	0.03	81	1	0.012345679		144		47	0	0.00			
CDH22	64405	broad.mit.edu	37	20	44879773	44879773	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	CDH22	NM_021248	exon2	c.C161A	p.A54E	CCCAGCGCGCCGT		120	3	0.03	75	0	0		112		0	0				
GNAS	2778	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	57485046	57485046	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_080425	exon11	c.C2809G	p.Q937E	AACAAGCAAGATC		104	25	0.24	107	0	0				4628	1556	0.34			
BAGE	85319	broad.mit.edu	37	21	11081137	11081137	+	RNA	DEL	C	C	-	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	AAAAAACAAAACT		7	7	1.00	5	0	0				0	0				
TFF3	7033	broad.mit.edu	37	21	43733726	43733726	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	TFF3	NM_003226	exon2	c.C140T	p.A47V	GGCACGGCACACT		91	4	0.04	71	0	0		9		229	0	0.00			
GGT3P	0	broad.mit.edu	37	22	18770143	18770144	+	RNA	INS	-	-	T	rs112524868		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	TTAATTGTTTTTT		9	3	0.33	6	0	0				0	0				
TRABD	80305	mdanderson.org	37	22	50633425	50633425	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_025204	exon5	c.G376T	p.A126S	CGGGAGGCCCAGG		37	3	0.08	39	0	0				33	0	0.00			
ITPR1	3708	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	3	4774832	4774832	+	Silent	SNP	C	C	A	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	ITPR1_ENST00000357086,NS,carcinoma,0,3	ITPR1_ENST00000357086	NM_001168272	exon42	c.C5236A	p.R1746R	TCGGGACGAAGAG		127	7	0.06	109	0	0		0	3	20	0	0.00			
SPCS1	28972	mdanderson.org	37	3	52740155	52740155	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_014041	exon1	c.G94T	p.A32S	GGCCCGGCTACTG		53	3	0.06	32	0	0				290	0	0.00			
C3orf49	132200	hgsc.bcm.edu	37	3	63823517	63823517	+	RNA	SNP	T	T	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	TAGTTTTAAGGAA		56	16	0.29	38	0	0				0	0				
EBLN2	55096	hgsc.bcm.edu	37	3	73111480	73111480	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_018029	exon1	c.A248C	p.N83T	GGAAAAACAGACA		225	9	0.04	158	0	0				4	0	0.00			
SENP7	57337	broad.mit.edu	37	3	101066800	101066800	+	Missense_Mutation	SNP	G	G	A	rs201608850	by1000genomes;alternate_allele	TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	SENP7	NM_020654	exon13	c.C1753T	p.H585Y	TAGCATGACTCCT		413	8	0.02	238	0	0		170		38	1	0.03			
PDS5A	23244	mdanderson.org	37	4	39875970	39875970	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	PDS5A,NS,carcinoma,0,1	PDS5A	NM_001100399	exon20	c.C2216A	p.A739D	TGCACAGCCTGTT		140	5	0.04	173	0	0		0	1	83	0	0.00			
NAA15	80155	broad.mit.edu;bcgsc.ca;mdanderson.org	37	4	140270698	140270698	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	NAA15	NM_057175	exon7	c.G774T	p.W258C	AAACTGGGCCTAT		292	16	0.05	378	1	0.0026455026		88		27	0	0.00			
.	0	broad.mit.edu	37	4	159198730	159198732	+	RNA	DEL	AAG	AAG	-	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	AAG	AAG					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	AGAGTCAAGAAAC		7	5	0.71	4	0	0				0	0				
TNPO1	3842	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	5	72168496	72168496	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_002270	exon7	c.T627A	p.F209L	TCAGTTTATCATC		97	79	0.81	129	0	0				68	62	0.91			
PCDHA6	56142	mdanderson.org	37	5	140209305	140209305	+	Silent	SNP	G	G	A	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	PCDHA6_ENST00000529310,rectum,carcinoma,0,6	PCDHA6_ENST00000529310	NM_018909	exon1	c.G1629A	p.P543P	CGTGCCGCCTCTG		39	3	0.08	45	0	0		0	6	8	0	0.00			
FAM193B	54540	broad.mit.edu;mdanderson.org	37	5	176963683	176963683	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	FAM193B	NM_001190946	exon4	c.C752A	p.P251H	CCGGTGGGGCTGT		32	3	0.09	53	0	0		28		54	0	0.00			
BTN2A3P	0	broad.mit.edu;ucsc.edu;mdanderson.org	37	6	26431466	26431466	+	RNA	SNP	G	G	A	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	TCTTATGACAGCC		161	57	0.35	160	1	0.00625				8	0	0.00			
HTR1E	3354	broad.mit.edu	37	6	87725556	87725556	+	Silent	SNP	T	T	C	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	HTR1E	NM_000865	exon2	c.T504C	p.P168P	AAGCCCTCCCCCT		140	5	0.04	156	3	0.0192307692		89		1	0	0.00			
ENPP3	5169	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	131971271	131971271	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	ENPP3	NM_005021	exon3	c.G259T	p.D87Y	TTTGAAGACACCT		250	63	0.25	198	2	0.0101010101		117		1	1	1.00			
ZNF12	7559	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	7	6730638	6730638	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_016265	exon5	c.G1935A	p.M645I	GTATGACATCCGA		137	7	0.05	114	0	0				82	6	0.07			
.	0	bcgsc.ca	37	7	64559077	64559077	+	RNA	SNP	G	G	A	rs79621273	bycluster	TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	AAATTTGAAGGCC		26	7	0.27	18	1	0.0555555556				1	0	0.00			
.	0	bcgsc.ca	37	7	64559088	64559088	+	RNA	SNP	G	G	A	rs73369160	bycluster	TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	CCATGCGAATGAT		31	9	0.29	28	4	0.1428571429				1	0	0.00			
CCT6P1	0	broad.mit.edu	37	7	65226641	65226641	+	RNA	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	TCTTGCGCAGAAT		188	6	0.03	127	1	0.0078740157				18	0	0.00			
GTF2IRD2P1	0	broad.mit.edu	37	7	72663998	72663998	+	RNA	SNP	T	T	G	rs2539034	bycluster	TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	T	T					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	CCGGGGTCCTTGA		183	6	0.03	127	1	0.0078740157				0	0				
MUC17	140453	hgsc.bcm.edu	37	7	100678866	100678866	+	Missense_Mutation	SNP	A	A	C	rs77700763	bycluster	TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	MUC17,trunk,malignant_melanoma,0,1	MUC17	NM_001040105	exon3	c.A4169C	p.N1390T	ACTCAAATCCTAG		128	8	0.06	100	1	0.01		0	1	13	0	0.00			
MUC17	140453	hgsc.bcm.edu	37	7	100678918	100678918	+	Silent	SNP	G	G	A	rs200627718	byfrequency	TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	MUC17,colon,carcinoma,+1,1	MUC17	NM_001040105	exon3	c.G4221A	p.P1407P	CACGCCGGTAGTC		148	7	0.05	109	2	0.0183486239	0.002	1	1	13	1	0.08			
MUC17	140453	broad.mit.edu	37	7	100678988	100678988	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	MUC17,NS,carcinoma,0,2	MUC17	NM_001040105	exon3	c.G4291A	p.A1431T	ACTTCTGCTGAAG		144	6	0.04	94	0	0		804	2	13	0	0.00			
CUX1	1523	broad.mit.edu	37	7	101843351	101843351	+	Splice_Site	SNP	G	G	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	CUX1	NM_001202543	exon17	c.G1994T	p.G665V	CCACAGGTAACAT		176	6	0.03	161	0	0		253		16	0	0.00			
SSPO	23145	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;mdanderson.org	37	7	149513025	149513025	+	Missense_Mutation	SNP	C	C	A	rs369846479	alternate_allele	TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_198455	exon77	c.C10928A	p.P3643Q	ACTGCCCGGACCC		140	15	0.11	164	0	0				2	0	0.00			
TUSC3	7991	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	15517060	15517060	+	Silent	SNP	A	A	G	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	A	A					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	NM_178234	exon4	c.A471G	p.K157K	TCCAAAAGGCAGA		87	29	0.33	72	0	0				387	103	0.27			
DCAF13	25879	broad.mit.edu	37	8	104439486	104439487	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	-	-					Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	DCAF13	.	.	.	.	GGTAATGTTTTTT		272	0	0.00	173	0	0		66		2	0	0.00			
RRAGA	10670	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	9	19050445	19050453	+	In_Frame_Del	DEL	TCGACATCT	TCGACATCT	-	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	TCGACATCT	TCGACATCT					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	RRAGA	NM_006570	exon1	c.787_795del	p.263_265del	CTTTCATCGACAT		104	53	0.51	109	0	0		17		168	0	0.00			
.	441420	bcgsc.ca	37	9	45376198	45376198	+	RNA	SNP	G	G	A	rs146422224		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	G	G					Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	CGGCTCGCGGACC		31	8	0.26	59	0	0				0	0				
FBXW5	54461	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	139835465	139835465	+	Missense_Mutation	SNP	C	C	T	rs140846203		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	FBXW5,NS,carcinoma,-1,1	FBXW5	NM_018998	exon9	c.G1616A	p.R539H	GGGGAGCGCCAGG		92	28	0.30	66	0	0	0	-1	1	298	94	0.32			
tRNA-Trp	0	hgsc.bcm.edu	37	MT	5552	5552	+	RNA	SNP	C	C	T	novel		TCGA-2G-AAFJ-01A-11D-A42Y-10	TCGA-2G-AAFJ-10A-01D-A433-10	C	C					Unknown	Untested	Somatic	.	WXS	none			Illumina HiSeq	c7ec7db5-2a0a-4300-aedc-f26b90255648	5bc449b5-fc22-49d0-9145-887f4c16e2ea	.	.	.	.	.	.	AAAGCCCTCAGTA		112	101	0.90	101	0	0				0	0				
