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	TVarCov	NTotCov	NVarCov	dbSNPPopFreq	Trna_tot	Trna_ref	Trna_var	Trna_alt1	Trna_alt2
CHD5	26038	broad.mit.edu;bcgsc.ca	37	1	6204158	6204158	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CHD5-719	NM_015557	exon12	c.C1860A	p.D620E	GCACTGGTCGTAG	.	278	9	246	0	.	1	1	0	0	0
RPS6KA1	6195	hgsc.bcm.edu	37	1	26856462	26856462	+	Silent	SNP	T	T	G	rs11800553	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	RPS6KA1-510	NM_002953	exon1	c.T51G	p.P17P	AGTGCCTCTGGAC	.	6	6	0	0	T|0.065;G|0.935	0	0	0	0	0
SLC9A1	6548	broad.mit.edu	37	1	27440466	27440468	+	In_Frame_Del	DEL	TGT	TGT	-	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SLC9A1-91	NM_003047	exon2	c.662_664del	p.221_222del	GGCCGATGTTGTT	.	150	11	161	0	.	0	0	0	0	0
OPRD1	4985	hgsc.bcm.edu	37	1	29138975	29138975	+	Missense_Mutation	SNP	G	G	T	rs1042114	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	OPRD1-69	NM_000911	exon1	c.G80T	p.C27F	GCGCCTGCCCCAG	.	19	19	0	0	G|0.061;T|0.939	0	0	0	0	0
CSMD2	114784	broad.mit.edu	37	1	34291361	34291361	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CSMD2-103	NM_052896	exon7	c.G928T	p.E310X	TCAACTCAATTTG	.	92	3	58	0	.	0	0	0	0	0
KCNQ4	9132	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	41296756	41296756	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	KCNQ4-90	NM_004700	exon10	c.C1293G	p.S431R	TGCCAGCAGCCGG	.	137	77	133	0	.	0	0	0	0	0
TCTEX1D4	343521	hgsc.bcm.edu	37	1	45271828	45271828	+	Silent	SNP	T	T	C	rs17885815	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	TCTEX1D4-91	NM_001013632	exon2	c.A513G	p.V171V	ACTGCATACCAGC	.	19	17	0	0	T|0.859;C|0.141	0	0	0	0	0
DMRTB1	63948	broad.mit.edu;bcgsc.ca	37	1	53930345	53930345	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	DMRTB1-92	NM_033067	exon3	c.C786A	p.Y262X	AAGCTACTACCTG	.	176	12	119	1	.	0	0	0	0	0
FGGY	55277	broad.mit.edu	37	1	59844420	59844420	+	Splice_Site	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	FGGY-69	NM_001113411	exon5	c.466-1G>T	.	TTGGCAGAACTTG	.	45	3	61	0	.	0	0	0	0	0
TGFBR3	7049	broad.mit.edu	37	1	92187512	92187512	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	TGFBR3-93	NM_001195683	exon8	c.G1075T	p.E359X	ACTTACCATTATT	.	45	6	46	0	.	0	0	0	0	0
ATP5F1	515	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	111999313	111999313	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ATP5F1-90	NM_001688	exon5	c.T449C	p.I150T	ATGCAATTGATAC	.	342	208	355	2	.	207	52	155	0	0
TRIM33	51592	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	114948141	114948141	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	TRIM33-1351	NM_033020	exon15	c.G2659T	p.E887X	AGTCTTCATTTGG	.	116	77	120	0	.	0	0	0	0	0
NOTCH2	4853	hgsc.bcm.edu	37	1	120611964	120611964	+	Missense_Mutation	SNP	G	G	C	rs11810554	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	NOTCH2-1441	NM_024408	exon1	c.C57G	p.C19W	GGCCGCGCAGCAC	.	17	10	0	0	G|0.680;C|0.320	2	0	2	0	0
NOTCH2	4853	hgsc.bcm.edu	37	1	120612006	120612006	+	Silent	SNP	G	G	A	rs77243975	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	NOTCH2-1441	NM_024408	exon1	c.C15T	p.R5R	AGCGGGGCGCAGG	.	12	5	0	0	G|0.500;A|0.500	5	4	1	0	0
IVL	3713	bcgsc.ca	37	1	152883056	152883056	+	Silent	SNP	A	A	G	rs45609438	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	IVL-93	NM_005547	exon2	c.A783G	p.G261G	GGAGGGACAGCTG	.	122	15	110	3	A|0.697;G|0.303	0	0	0	0	0
SPRR3	6707	ucsc.edu;mdanderson.org	37	1	152975715	152975715	+	Silent	SNP	C	C	T	rs63405761	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SPRR3-45	NM_001097589	exon2	c.C219T	p.G73G	GCCAGGCTGTACC	.	117	54	108	0	A|0.000;C|0.697;T|0.303	0	0	0	0	0
SPRR3	6707	hgsc.bcm.edu;ucsc.edu	37	1	152975739	152975739	+	Silent	SNP	T	T	A	rs17851565	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SPRR3-45	NM_001097589	exon2	c.T243A	p.G81G	GCCAGGTTGTACC	.	109	22	125	0	A|0.010;C|0.001;T|0.988	0	0	0	0	0
CD1C	911	bcgsc.ca	37	1	158261043	158261043	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CD1C-94	NM_001765	exon2	c.G181T	p.E61X	GACAGTGAATCAG	.	349	31	398	2	.	0	0	0	0	0
FCRL6	343413	broad.mit.edu;bcgsc.ca	37	1	159778893	159778893	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	FCRL6-93	NM_001004310	exon4	c.C462T	p.H154H	CGGCCACACCTTG	.	140	6	174	0	.	3	3	0	0	0
HHIPL2	79802	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	222713605	222713605	+	Silent	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	HHIPL2-69	NM_024746	exon4	c.G1197T	p.S399S	ATTGTCCGAGGGG	.	100	11	118	0	.	0	0	0	0	0
LEFTY2	7044	bcgsc.ca	37	1	226125385	226125385	+	Missense_Mutation	SNP	G	G	A	rs2295418	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	LEFTY2-90	NM_003240	exon4	c.C857T	p.P286L	AAGCCCGGGGGCT	.	223	7	191	2	G|0.969;A|0.031	4	4	0	0	0
OBSCN	84033	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	1	228505189	228505189	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	OBSCN-403	NM_001271223	exon63	c.C16457G	p.A5486G	AGGATGCTGAGGT	.	107	19	114	0	.	0	0	0	0	0
SIPA1L2	57568	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	232615375	232615375	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SIPA1L2-95	NM_020808	exon5	c.C2083A	p.Q695K	ATACCTGTTGTCT	.	176	14	156	0	.	0	0	0	0	0
IRF2BP2	359948	hgsc.bcm.edu	37	1	234745009	234745009	+	Missense_Mutation	SNP	A	A	G	rs7545855	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	IRF2BP2-90	NM_182972	exon1	c.T232C	p.S78P	CGGCCGAGGCCGC	.	7	7	0	0	A|0.383;G|0.617	0	0	0	0	0
OR2T4	127074	bcgsc.ca	37	1	248525380	248525380	+	Silent	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	OR2T4-68	NM_001004696	exon1	c.C498A	p.V166V	CCCTGTCCTCATG	.	925	549	919	5	.	0	0	0	0	0
NFKB2	4791	hgsc.bcm.edu	37	10	104159196	104159196	+	Silent	SNP	A	A	G	rs4919633	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	NFKB2-522	NM_001077494	exon13	c.A1269G	p.P423P	GGAGCCAAGCGCC	.	13	13	0	0	A|0.009;G|0.991	6	0	6	0	0
NRAP	4892	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	115364490	115364490	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	NRAP-522	NM_001261463	exon35	c.G4105T	p.A1369S	TCTTGGCATGGAC	.	102	14	113	0	.	0	0	0	0	0
JAKMIP3	282973	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	133930934	133930934	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	JAKMIP3-23	NM_001105521	exon2	c.C489T	p.G163G	CAAGGGCGCCAAA	.	206	127	198	1	.	0	0	0	0	0
FRG2B	441581	mdanderson.org	37	10	135440214	135440214	+	Missense_Mutation	SNP	G	G	T	rs75987380	alternate_allele	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_001080998	exon1	c.C33A	p.H11Q	GGAGCAGTGGAGA	.	617	77	688	0	.	0	0	0	0	0
MUC5B	727897	bcgsc.ca	37	11	1253976	1253976	+	Missense_Mutation	SNP	A	A	G	rs76956995		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_002458	exon17	c.A2041G	p.S681G	CAGCTCAGCGACT	.	125	17	54	0	.	0	0	0	0	0
MUC5B	727897	bcgsc.ca	37	11	1253980	1253980	+	Missense_Mutation	SNP	A	A	G	rs202127660		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_002458	exon17	c.A2045G	p.D682G	TCAGCGACTGGAG	.	121	17	51	0	.	0	0	0	0	0
KRTAP5-3	387266	bcgsc.ca	37	11	1629043	1629043	+	Silent	SNP	T	T	C	rs12795274	by2hit2allele	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	KRTAP5-3-92	NM_001012708	exon1	c.A573G	p.K191K	GCAGGGTTTGCAG	.	33	15	54	3	A|0.500;T|0.500	0	0	0	0	0
MRGPRE	116534	hgsc.bcm.edu;broad.mit.edu	37	11	3249197	3249197	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	MRGPRE-136	NM_001039165	exon2	c.G833A	p.R278H	AGCCTGCGGCCCT	.	76	6	23	0	.	0	0	0	0	0
OR51Q1	390061	broad.mit.edu	37	11	5443642	5443642	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	OR51Q1-69	NM_001004757	exon1	c.C212T	p.T71M	CCCTGACGGACCT	.	152	6	119	0	.	0	0	0	0	0
TUB	7275	ucsc.edu;bcgsc.ca	37	11	8123050	8123050	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	TUB-91	NM_003320	exon13	c.C1570A	p.Q524K	GTGATGCAGTTTG	.	206	144	181	3	.	0	0	0	0	0
WEE1	7465	hgsc.bcm.edu	37	11	9595768	9595768	+	Silent	SNP	C	C	T	rs117347074	byfrequency;by1000genomes	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	WEE1-1404	NM_003390	exon1	c.C288T	p.P96P	GCTGCCCGGCGCC	.	5	5	0	0	C|0.953;T|0.047	0	0	0	0	0
LDHC	3948	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	18451364	18451364	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	LDHC-226	NM_002301	exon4	c.C325T	p.L109L	CTTGCCCTGGTCC	.	87	7	97	0	.	0	0	0	0	0
OR1S2	219958	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	11	57970736	57970736	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	OR1S2-69	NM_001004459	exon1	c.G918T	p.R306S	CTTATTCCTCAAG	.	184	51	201	0	.	0	0	0	0	0
RPS6KA4	8986	hgsc.bcm.edu	37	11	64138905	64138905	+	Missense_Mutation	SNP	T	T	G	rs17857342	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	RPS6KA4-1036	NM_003942	exon17	c.T2272G	p.S758A	GTCGCCTCCAAAG	.	5	5	0	0	T|0.731;G|0.269	15	0	14	0	1
IGHMBP2	3508	bcgsc.ca	37	11	68682402	68682402	+	Missense_Mutation	SNP	A	A	G	rs10896380	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	IGHMBP2-90	NM_002180	exon6	c.A823G	p.I275V	GAGTCCATTCAGC	.	133	5	136	1	A|0.824;G|0.176	0	0	0	0	0
DHCR7	1717	broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	71149950	71149950	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	DHCR7-228	NM_001163817	exon7	c.C806T	p.A269V	ACCATGGCATTGG	.	60	9	116	1	.	2	2	0	0	0
FAT3	120114	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	92532969	92532969	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	FAT3-73	NM_001008781	exon9	c.C6790A	p.L2264I	GACGCCCTTACTG	.	136	19	158	0	.	0	0	0	0	0
KBTBD3	143879	broad.mit.edu	37	11	105924412	105924412	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	KBTBD3-91	NM_152433	exon3	c.C1004A	p.S335Y	AGACTAGATCCTG	.	31	3	31	0	.	0	0	0	0	0
MIR34C	407042	broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	111384236	111384236	+	RNA	SNP	A	A	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	.	.	.	.	GTAAAAAGATTTG	.	59	9	57	0	.	0	0	0	0	0
CHD4	1108	broad.mit.edu	37	12	6710509	6710509	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CHD4-228	NM_001273	exon6	c.C745G	p.P249A	GAGGTGGTGGTGC	.	183	6	121	0	.	7	7	0	0	0
ZNF384	171017	hgsc.bcm.edu	37	12	6777081	6777081	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ZNF384-1083	NM_001135734	exon11	c.G1533A	p.Q511Q	CTGCTGCTGCTGC	.	72	6	31	0	.	161	160	1	0	0
USP15	9958	ucsc.edu;bcgsc.ca	37	12	62778065	62778065	+	Silent	SNP	A	A	G	rs2044846	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	USP15-1084	NM_001252078	exon11	c.A1455G	p.P485P	GGATCCACTTACC	.	61	6	55	0	A|0.415;G|0.585	6	6	0	0	0
NUP107	57122	broad.mit.edu;bcgsc.ca	37	12	69129046	69129046	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	NUP107-629	NM_020401	exon26	c.C2424T	p.A808A	GGATGCCCTAACT	.	299	11	232	2	.	127	123	4	0	0
AMDHD1	144193	hgsc.bcm.edu	37	12	96337183	96337183	+	Missense_Mutation	SNP	A	A	G	rs7955450	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	AMDHD1-90	NM_152435	exon1	c.A7G	p.S3G	ATGGCAAGCGGCC	.	20	20	0	0	A|0.273;G|0.727	0	0	0	0	0
NEDD1	121441	broad.mit.edu;bcgsc.ca	37	12	97345221	97345221	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	NEDD1-90	NM_001135175	exon14	c.A1844G	p.H615R	CATGCCATAGGGA	.	171	6	128	0	.	0	0	0	0	0
FAM109A	144717	hgsc.bcm.edu	37	12	111800827	111800835	+	In_Frame_Del	DEL	GCCACCCCC	GCCACCCCC	-	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	GCCACCCCC	GCCACCCCC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	FAM109A-90	NM_001177996	exon4	c.436_444del	p.146_148del	GGCCATGCCACCC	.	22	11	1	0	.	0	0	0	0	0
LINC00173	100287569	bcgsc.ca	37	12	116972637	116972637	+	RNA	SNP	G	G	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	.	.	.	.	AGGGCCGCATTCC	.	171	6	100	0	.	1	1	0	0	0
KDM2B	84678	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	121882310	121882310	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	KDM2B-638	NM_032590	exon15	c.C2133G	p.D711E	AAGCTCGTCGTTG	.	154	30	118	1	.	6	2	4	0	0
TMEM132D	121256	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	12	129558465	129558465	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	TMEM132D-106	NM_133448	exon9	c.C3255A	p.C1085X	CTCTTTGCAGTCC	.	188	77	134	0	.	0	0	0	0	0
PXMP2	5827	hgsc.bcm.edu	37	12	133264332	133264332	+	Silent	SNP	C	C	T	rs11538534	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	PXMP2-90	NM_018663	exon1	c.C76T	p.L26L	CAGTACCTGCTCT	.	8	8	0	0	C|0.572;T|0.428	22	7	15	0	0
CCDC168	643677	bcgsc.ca	37	13	103400936	103400936	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_001146197	exon4	c.C2111G	p.S704C	TCAGGAGAGGAAA	.	52	19	36	1	.	0	0	0	0	0
ING1	3621	hgsc.bcm.edu	37	13	111368316	111368316	+	Silent	SNP	C	C	T	rs9555726	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ING1-515	NM_005537	exon1	c.C526T	p.L176L	GCATCTCTGCTGA	.	11	10	0	0	C|0.372;T|0.628	6	2	4	0	0
ZNF219	51222	hgsc.bcm.edu	37	14	21560753	21560758	+	In_Frame_Del	DEL	GAGGCT	GAGGCT	-	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	GAGGCT	GAGGCT	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ZNF219-90	NM_001102454	exon3	c.698_703del	p.233_235del	GGGGTGGAGGCTG	.	45	13	0	0	.	0	0	0	0	0
SSTR1	6751	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	38679240	38679240	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SSTR1-947	NM_001049	exon3	c.G646A	p.A216T	GAGCCCGCTCAAC	.	97	11	116	0	.	0	0	0	0	0
TRIM9	114088	hgsc.bcm.edu	37	14	51492067	51492067	+	Silent	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	TRIM9-227	NM_015163	exon2	c.C834A	p.S278S	CGCCTGGGAGAGC	.	60	4	73	0	.	0	0	0	0	0
IRF2BPL	64207	broad.mit.edu	37	14	77493762	77493767	+	In_Frame_Del	DEL	TGCTGC	TGCTGC	-	rs71125518	alternate_allele	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	IRF2BPL-90	NM_024496	exon1	c.369_374del	p.123_125del	TGTTGTTGCTGCT	.	19	9	16	0	CTG|1.000;|0.000	0	0	0	0	0
FOXN3	1112	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	14	89817135	89817135	+	Silent	SNP	C	C	G	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	FOXN3-229	NM_005197	exon3	c.G561C	p.S187S	CCACAACGACCCT	.	85	32	90	0	.	1	1	0	0	0
CCDC88C	440193	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	14	91739504	91739504	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CCDC88C-25	NM_001080414	exon30	c.C5552T	p.P1851L	GAGCTGGGGGGTG	.	44	7	40	0	.	4	4	0	0	0
ASB2	51676	broad.mit.edu	37	14	94405527	94405527	+	Missense_Mutation	SNP	T	T	G	rs199833352		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ASB2-228	NM_001202429	exon8	c.A1544C	p.H515P	GGCGGGTGCGGGC	.	143	31	54	7	.	0	0	0	0	0
HHIPL1	84439	hgsc.bcm.edu	37	14	100141689	100141689	+	Missense_Mutation	SNP	T	T	C	rs7158073	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	HHIPL1-70	NM_001127258	exon9	c.T2075C	p.V692A	TGTTCGTGGGCGG	.	37	9	0	0	T|0.478;C|0.522	1	1	0	0	0
BEGAIN	57596	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	101011366	101011366	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	BEGAIN-68	NM_020836	exon4	c.C214T	p.Q72X	GCTCCTGGTTGAT	.	58	12	60	0	.	2	2	0	0	0
EXOC3L4	91828	hgsc.bcm.edu	37	14	103568729	103568729	+	Silent	SNP	A	A	G	rs10142200	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	EXOC3L4-23	NM_001077594	exon2	c.A669G	p.E223E	GGAGGAAGCCCAC	.	4	4	0	0	A|0.486;G|0.514	0	0	0	0	0
KIF26A	26153	hgsc.bcm.edu	37	14	104644168	104644168	+	Silent	SNP	C	C	T	rs201501169		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	KIF26A-24	NM_015656	exon12	c.C5043T	p.S1681S	CATGAGCGAGAGT	.	5	5	1	0	C|0.998;T|0.002	0	0	0	0	0
RYR3	6263	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	33962729	33962729	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	RYR3-520	NM_001243996	exon38	c.G5832T	p.Q1944H	GGAGCAGCCGACG	.	77	12	79	0	.	0	0	0	0	0
PLA2G4E	123745	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	15	42297141	42297141	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_001206670	exon5	c.G561T	p.E187D	CCTCTCCTCCAGC	.	149	12	159	0	.	0	0	0	0	0
SLC30A4	7782	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	45814279	45814279	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SLC30A4-90	NM_013309	exon2	c.G274C	p.V92L	AGTCCACCTTCAA	.	175	106	166	1	.	3	0	3	0	0
DMXL2	23312	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	15	51755647	51755647	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	DMXL2-99	NM_001174116	exon33	c.C7855T	p.L2619F	TAACAAGGAAATG	.	153	101	124	0	.	5	2	3	0	0
LACTB	114294	hgsc.bcm.edu	37	15	63414083	63414083	+	Missense_Mutation	SNP	A	A	C	rs34317102	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	LACTB-90	NM_171846	exon1	c.A13C	p.M5L	CGGCTCATGTCAG	.	6	6	0	0	A|0.226;C|0.774	0	0	0	0	0
CHD2	1106	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	93522377	93522377	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CHD2-229	NM_001271	exon22	c.C2740T	p.R914C	ATTTACCGCTTAG	.	57	6	57	0	.	0	0	0	0	0
EME2	197342	hgsc.bcm.edu	37	16	1823444	1823444	+	Silent	SNP	C	C	G	rs761065		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	EME2-229	NM_001257370	exon1	c.C216G	p.V72V	GCAGGTCCTGAAG	.	9	9	0	0	C|0.615;G|0.385	0	0	0	0	0
ZNF598	90850	hgsc.bcm.edu	37	16	2059674	2059674	+	Missense_Mutation	SNP	T	T	C	rs71384660		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ZNF598-432	NM_178167	exon2	c.A74G	p.E25G	CCGCCTTCCCGCT	.	6	6	0	0	T|0.007;C|0.993	0	0	0	0	0
PRSS27	83886	broad.mit.edu	37	16	2762757	2762757	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	PRSS27-91	NM_031948	exon6	c.T737G	p.V246G	CTGATCACCCCCG	.	106	21	45	2	.	0	0	0	0	0
DNAH3	55567	broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	20974923	20974923	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	DNAH3-167	NM_017539	exon53	c.C10283A	p.A3428D	GGTAAGGCAGATG	.	101	17	107	1	.	1	0	1	0	0
CHD9	80205	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	53326859	53326859	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CHD9-272	NM_025134	exon29	c.A5405G	p.Q1802R	AAATTCAGCAGAT	.	152	20	170	0	.	2	2	0	0	0
TANGO6	79613	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	69007975	69007975	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_024562	exon15	c.G2746T	p.D916Y	TTGCCGGACTTGT	.	181	116	181	1	.	6	1	5	0	0
CMC2	56942	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	81015457	81015457	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_020188	exon3	c.A107G	p.Y36C	TTACAATAACCAA	.	86	14	80	0	.	113	87	26	0	0
C17orf97	400566	hgsc.bcm.edu	37	17	260182	260182	+	Silent	SNP	T	T	C	rs7502594		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	C17orf97-91	NM_001013672	exon1	c.T49C	p.L17L	CGCCGATTAGTCG	.	35	7	2	0	T|0.657;C|0.343	0	0	0	0	0
SGSM2	9905	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	2280076	2280076	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SGSM2-68	NM_014853	exon20	c.C2659A	p.L887M	TGCGATCTGCTGG	.	101	10	78	0	.	16	16	0	0	0
SGSM2	9905	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	2280078	2280078	+	Silent	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SGSM2-68	NM_014853	exon20	c.G2661T	p.L887L	CGATCTGCTGGCG	.	101	10	76	0	.	17	17	0	0	0
SPNS2	124976	broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	4436414	4436414	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SPNS2-68	NM_001124758	exon7	c.G1078T	p.A360S	TGTGGGGCCAAGG	.	75	8	60	1	.	0	0	0	0	0
GLTPD2	388323	hgsc.bcm.edu	37	17	4693342	4693342	+	Missense_Mutation	SNP	C	C	A	rs35910358		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	GLTPD2-68	NM_001014985	exon4	c.C627A	p.D209E	CCCGGACGCGGGC	.	9	9	0	0	C|0.015;A|0.985	1	0	1	0	0
TP53	7157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	7579312	7579312	+	Silent	SNP	C	C	A	rs55863639		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	TP53-70225	NM_000546	exon4	c.G375T	p.T125T	ACTGACCGTGCAA	.	193	118	141	0	.	10	0	10	0	0
WDR16	146845	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	9542007	9542007	+	Silent	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	WDR16-71	NM_145054	exon12	c.C1554A	p.I518I	GATCATCACCAGC	.	111	69	106	0	.	0	0	0	0	0
NF1	4763	bcgsc.ca	37	17	29560115	29560115	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	NF1-3353	NM_000267	exon27	c.G3592T	p.E1198X	CTTGCAGAAACAG	.	250	151	241	5	.	0	0	0	0	0
ARHGAP23	57636	hgsc.bcm.edu	37	17	36666551	36666551	+	Silent	SNP	T	T	C	rs62074752		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ARHGAP23-205	NM_001199417	exon24	c.T3819C	p.D1273D	GGGGGATGAGGCG	.	7	6	0	0	C|0.823;G|0.000;T|0.177	1	0	1	0	0
C17orf96	100170841	hgsc.bcm.edu	37	17	36830727	36830727	+	Missense_Mutation	SNP	G	G	A	rs76756126	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_001130677	exon1	c.C22T	p.P8S	GGCGGGGCGCAGG	.	44	11	2	0	G|0.954;A|0.046	0	0	0	0	0
KRT17	3872	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	39780559	39780559	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	KRT17-92	NM_000422	exon1	c.G203T	p.G68V	CCATAGCCACCAC	.	343	39	215	0	.	0	0	0	0	0
HSD17B1	3292	hgsc.bcm.edu	37	17	40706906	40706906	+	Missense_Mutation	SNP	G	G	A	rs605059	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	HSD17B1-90	NM_000413	exon6	c.G937A	p.G313S	GGGCGCGGTGCGG	.	8	8	0	0	G|0.505;A|0.495	4	0	4	0	0
ABCC3	8714	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	17	48746781	48746781	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ABCC3-93	NM_003786	exon17	c.C2133A	p.F711L	GCTTTTCGGCAAA	.	141	12	105	0	.	0	0	0	0	0
APPBP2	10513	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	58525008	58525008	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	APPBP2-226	NM_006380	exon13	c.C1692T	p.P564P	GGACTGGGGGCTG	.	150	18	102	0	.	24	23	1	0	0
GRIN2C	2905	broad.mit.edu;bcgsc.ca	37	17	72842224	72842224	+	Silent	SNP	G	G	C	rs41282061	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	GRIN2C-228	NM_000835	exon11	c.C2331G	p.L777L	CTGCAAGAGCGCC	.	153	6	127	0	G|0.997;C|0.003	1	1	0	0	0
FADS6	283985	ucsc.edu	37	17	72889676	72889676	+	Silent	SNP	G	G	C	rs4319809	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	FADS6-22	NM_178128	exon1	c.C18G	p.P6P	TTCCATGGGCTCC	.	204	115	54	2	G|0.586;C|0.414	0	0	0	0	0
NT5C	30833	hgsc.bcm.edu	37	17	73127683	73127683	+	Silent	SNP	T	T	C	rs4788867	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	NT5C-90	NM_001252377	exon1	c.A120G	p.Q40Q	GCGGCGTTGCTCC	.	5	5	0	0	T|0.502;C|0.498	8	6	2	0	0
EVPL	2125	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	17	74003739	74003739	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	EVPL-93	NM_001988	exon22	c.G5547T	p.M1849I	GTCCAGCATGTTC	.	81	22	79	0	.	0	0	0	0	0
FOXJ1	2302	hgsc.bcm.edu	37	17	74133974	74133974	+	Silent	SNP	C	C	T	rs894542	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	FOXJ1-227	NM_001454	exon3	c.G726A	p.T242T	ATTCACCGTCAGC	.	18	5	1	0	C|0.925;T|0.075	0	0	0	0	0
GREB1L	80000	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	18	19053018	19053018	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_001142966	exon16	c.G2209T	p.E737X	CTGGAGGAAAATG	.	184	50	143	0	.	0	0	0	0	0
RBBP8	5932	broad.mit.edu	37	18	20602106	20602106	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	RBBP8-659	NM_002894	exon18	c.G2469T	p.M823I	AGATATGCCAGCA	.	68	3	56	2	.	1	1	0	0	0
MEX3C	51320	hgsc.bcm.edu	37	18	48723146	48723154	+	In_Frame_Del	DEL	GCCGCCGCG	GCCGCCGCG	-	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	GCCGCCGCG	GCCGCCGCG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	MEX3C-659	NM_016626	exon1	c.537_545del	p.179_182del	GCCGCCGCCGCCG	.	22	13	0	0	.	0	0	0	0	0
RAX	30062	hgsc.bcm.edu	37	18	56940307	56940307	+	Missense_Mutation	SNP	G	G	T	rs2271733	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	RAX-90	NM_013435	exon1	c.C132A	p.D44E	CCCGTCGTCCTTG	.	10	7	0	0	G|0.801;T|0.199	0	0	0	0	0
ZNF236	7776	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	18	74637402	74637402	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ZNF236-94	NM_007345	exon22	c.G3913C	p.D1305H	TCTACTGACCCAA	.	160	19	143	0	.	0	0	0	0	0
ARID3A	1820	hgsc.bcm.edu	37	19	929741	929741	+	Silent	SNP	C	C	T	rs34967265	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ARID3A-90	NM_005224	exon2	c.C213T	p.G71G	TGCGGGCCTGGGA	.	15	12	0	0	C|0.865;T|0.135	0	0	0	0	0
GRIN3B	116444	hgsc.bcm.edu	37	19	1009485	1009485	+	Missense_Mutation	SNP	C	C	G	rs10401245	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	GRIN3B-90	NM_138690	exon9	c.C3016G	p.Q1006E	CGCGGCCAGCTCC	.	6	6	0	0	C|0.474;G|0.526	0	0	0	0	0
ABCA7	10347	hgsc.bcm.edu	37	19	1065044	1065044	+	Silent	SNP	C	C	T	rs4147935	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ABCA7-98	NM_019112	exon46	c.C6159T	p.G2053G	TGGAGGCCGCCTG	.	24	12	2	0	C|0.766;T|0.234	4	0	4	0	0
FAM108A1	81926	broad.mit.edu	37	19	1881329	1881329	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	FAM108A1-90	NM_031213	exon2	c.C237T	p.S79S	GCGCTGGCTGTAC	.	95	5	45	1	.	152	152	0	0	0
FUT3	2525	broad.mit.edu;bcgsc.ca	37	19	5844077	5844077	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	FUT3-90	NM_001097640	exon3	c.G774T	p.E258D	CAGCTTCTCGGTG	.	427	48	393	1	.	0	0	0	0	0
KANK3	256949	hgsc.bcm.edu	37	19	8399628	8399628	+	Silent	SNP	A	A	G	rs710949	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	KANK3-90	NM_198471	exon3	c.T1083C	p.S361S	CTCCAGACTGGCG	.	8	8	0	0	A|0.411;G|0.589	0	0	0	0	0
CACNA1A	773	hgsc.bcm.edu	37	19	13319693	13319693	+	Silent	SNP	A	A	G	rs16051	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CACNA1A-67	NM_001127221	exon46	c.T6660C	p.H2220H	CGGGGGATGGTGG	.	14	12	4	0	A|0.360;G|0.640	0	0	0	0	0
RINL	126432	hgsc.bcm.edu	37	19	39360720	39360720	+	Missense_Mutation	SNP	G	G	A	rs8110393		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	RINL-91	NM_001195833	exon9	c.C1205T	p.P402L	GGGGCGGGGCTCT	.	25	25	0	0	G|0.349;A|0.651	0	0	0	0	0
ZNF221	7638	ucsc.edu;bcgsc.ca	37	19	44470147	44470147	+	Missense_Mutation	SNP	G	G	A	rs16976937	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ZNF221-91	NM_013359	exon6	c.G493A	p.V165M	AGTCACGTGCAAC	.	205	114	194	2	G|0.935;A|0.065	0	0	0	0	0
NTN5	126147	hgsc.bcm.edu	37	19	49164952	49164952	+	Silent	SNP	A	A	G	rs281392	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	NTN5-136	NM_145807	exon7	c.T1452C	p.S484S	CCTGGGACTGGGT	.	4	4	0	0	A|0.464;G|0.536	2	0	2	0	0
PPP1R15A	23645	bcgsc.ca	37	19	49377436	49377436	+	Missense_Mutation	SNP	G	G	C	rs556052	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	PPP1R15A-226	NM_014330	exon2	c.G946C	p.A316P	GTCAAGGCTTTGG	.	123	6	140	0	G|0.500;C|0.500	133	132	0	1	0
HAS1	3036	hgsc.bcm.edu	37	19	52223026	52223026	+	Silent	SNP	C	C	A	rs61736497	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	HAS1-92	NM_001523	exon2	c.G135T	p.P45P	GGCCAGCGGCACC	.	53	17	2	0	C|0.946;A|0.054	0	0	0	0	0
HSPBP1	23640	hgsc.bcm.edu;broad.mit.edu;mdanderson.org	37	19	55785775	55785775	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	HSPBP1-90	NM_012267	exon4	c.G631T	p.A211S	AGATGGCGAAGAG	.	37	20	13	0	.	0	0	0	0	0
ZNF579	163033	hgsc.bcm.edu	37	19	56090493	56090493	+	Silent	SNP	A	A	C	rs12974617	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ZNF579-90	NM_152600	exon2	c.T513G	p.P171P	CGTCTCAGGCCAC	.	6	6	0	0	A|0.837;C|0.163	2	0	2	0	0
TPO	7173	hgsc.bcm.edu	37	2	1481231	1481231	+	Missense_Mutation	SNP	G	G	C	rs2175977	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	TPO-332	NM_175719	exon8	c.G1193C	p.S398T	GCGCCAGCGAGGT	.	8	7	0	0	G|0.301;C|0.699	0	0	0	0	0
ALK	238	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	29754831	29754831	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ALK-3833	NM_004304	exon4	c.C1104T	p.H368H	CTCGTTGTGGGGC	.	158	19	160	0	.	0	0	0	0	0
AMER3	205147	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	131519854	131519854	+	Missense_Mutation	SNP	C	C	T	rs200636300		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_152698	exon2	c.C209T	p.A70V	AAGGGGCGCAGCT	.	75	45	84	0	.	0	0	0	0	0
ANKRD30BL	554226	broad.mit.edu;bcgsc.ca	37	2	132919167	132919167	+	RNA	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	.	.	.	.	TGAGATCCCCATG	.	325	33	325	0	.	0	0	0	0	0
MIR663B	100313824	bcgsc.ca	37	2	133014602	133014602	+	RNA	SNP	G	G	C	rs75245503	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	.	.	.	.	CAGACAGGAGGGA	.	114	35	52	3	G|0.500;C|0.500	0	0	0	0	0
MIR663B	100313824	bcgsc.ca	37	2	133014612	133014612	+	RNA	SNP	A	A	C	rs74853538	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	.	.	.	.	GGAGGTACCGCAG	.	127	38	55	3	A|0.333;C|0.667	0	0	0	0	0
NEB	4703	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	2	152484133	152484133	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	NEB-145	NM_001271208	exon69	c.C10047A	p.S3349R	CACATCGCTGACT	.	373	32	304	0	.	0	0	0	0	0
KCNH7	90134	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	163693261	163693261	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	KCNH7-95	NM_033272	exon2	c.T93G	p.I31M	ATTTGCAATGATA	.	61	41	64	0	.	0	0	0	0	0
HECW2	57520	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	2	197122592	197122592	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	HECW2-668	NM_020760	exon18	c.G3374T	p.G1125V	ACCAATCCTGGAG	.	116	9	93	0	.	0	0	0	0	0
SF3B1	23451	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	198281581	198281581	+	Missense_Mutation	SNP	C	C	A	rs139823279	alternate_allele	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SF3B1-140	NM_012433	exon6	c.G550T	p.V184F	CATTGACGACTTT	.	60	35	81	0	C|1.000;T|0.000	19	2	17	0	0
ADAM23	8745	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	207454139	207454139	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ADAM23-228	NM_003812	exon21	c.C1859A	p.A620E	AGGCTGCAGGGTC	.	66	47	73	0	.	0	0	0	0	0
ABCA12	26154	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	2	215866333	215866333	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ABCA12-99	NM_173076	exon21	c.G2812T	p.E938X	CCATTTCATCTAT	.	116	7	125	0	.	0	0	0	0	0
SMARCAL1	50485	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	2	217332761	217332761	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SMARCAL1-293	NM_014140	exon14	c.G2236T	p.E746X	GAGCTTGAGAGAA	.	70	49	69	0	.	0	0	0	0	0
PPP1R7	5510	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	2	242092956	242092956	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	PPP1R7-660	NM_002712	exon2	c.G118A	p.V40M	GGCATCGTGGCCG	.	185	10	125	0	.	78	69	9	0	0
TCF15	6939	hgsc.bcm.edu	37	20	590456	590456	+	Silent	SNP	A	A	G	rs282164	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	TCF15-90	NM_004609	exon1	c.T426C	p.R142R	CGCGGCACGGAAG	.	9	9	0	0	A|0.165;G|0.835	1	0	1	0	0
PANK2	80025	hgsc.bcm.edu	37	20	3870124	3870124	+	Missense_Mutation	SNP	G	G	C	rs3737084	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	PANK2-115	NM_153638	exon1	c.G377C	p.G126A	TGGGAGGGGGCCG	.	8	8	0	0	G|0.122;C|0.878	2	0	2	0	0
SMOX	54498	broad.mit.edu;ucsc.edu;bcgsc.ca	37	20	4168035	4168035	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SMOX-153	NM_001270691	exon8	c.T1739C	p.L580P	GAGACCTCTTCCA	.	172	13	166	1	.	53	42	11	0	0
LRRN4	164312	hgsc.bcm.edu	37	20	6033033	6033033	+	Missense_Mutation	SNP	G	G	A	rs6107751	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	LRRN4-93	NM_152611	exon2	c.C413T	p.P138L	CACGGCGGCAGAG	.	7	5	0	0	G|0.864;A|0.136	0	0	0	0	0
RBM12	10137	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	20	34241123	34241123	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	RBM12-93	NM_001198840	exon2	c.C2122A	p.L708M	CAGTCAGGAAGGC	.	83	7	83	0	.	20	20	0	0	0
CDH22	64405	hgsc.bcm.edu;broad.mit.edu	37	20	44803312	44803312	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CDH22-95	NM_021248	exon12	c.G2320A	p.A774T	CGAAGGCGTAGGT	.	108	13	24	0	.	0	0	0	0	0
LAMA5	3911	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	20	60900600	60900600	+	Silent	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	LAMA5-93	NM_005560	exon41	c.G5301T	p.G1767G	GAAGTTCCCCTGT	.	197	42	166	0	.	0	0	0	0	0
LZTR1	8216	broad.mit.edu	37	22	21343966	21344002	+	In_Frame_Del	DEL	GAGGAGGTGAGGGGCGTGGGGAGCCAGGGCGCAGGTA	GAGGAGGTGAGGGGCGTGGGGAGCCAGGGCGCAGGTA	-	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	LZTR1-280	NM_006767	exon7	c.646_651del	p.216_217del	TGCTGGGAGGAGG	.	30	8	26	0	.	0	0	0	0	0
NEFH	4744	hgsc.bcm.edu;ucsc.edu	37	22	29885594	29885594	+	Silent	SNP	A	A	T	rs79235463	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	NEFH-90	NM_021076	exon4	c.A1965T	p.P655P	GTCCCCAGAGAAG	.	198	47	223	0	A|0.500;T|0.500	0	0	0	0	0
NEFH	4744	broad.mit.edu	37	22	29885599	29885604	+	In_Frame_Del	DEL	AGGAAG	AGGAAG	-	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	NEFH-90	NM_021076	exon4	c.1970_1975del	p.657_659del	CAGAGAAGGAAGA	.	195	20	224	0	.	0	0	0	0	0
C22orf26	55267	hgsc.bcm.edu	37	22	46449678	46449678	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	C22orf26-90	NM_018280	exon1	c.C296T	p.A99V	AGCCTGGCACCGT	.	12	11	0	0	.	0	0	0	0	0
BTD	686	broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	15683552	15683552	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	BTD-90	NM_000060	exon3	c.C447A	p.F149L	CCGCTTCAATGAC	.	115	26	105	1	.	14	11	3	0	0
DLEC1	9940	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	38105387	38105387	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	DLEC1-161	NM_007337	exon6	c.T1150C	p.Y384H	ACAGATTATGAAA	.	110	17	102	0	.	0	0	0	0	0
PROK2	60675	hgsc.bcm.edu	37	3	71834135	71834135	+	Silent	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	PROK2-90	NM_001126128	exon1	c.C69A	p.R23R	CCCAGCGCGGGGC	.	48	25	2	0	.	0	0	0	0	0
CHST13	166012	hgsc.bcm.edu	37	3	126260630	126260630	+	Missense_Mutation	SNP	A	A	G	rs12495696	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CHST13-90	NM_152889	exon3	c.A235G	p.S79G	CTGAACAGCGCCT	.	30	23	2	0	A|0.936;G|0.064	0	0	0	0	0
RUVBL1	8607	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	127842496	127842496	+	Silent	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	RUVBL1-227	NM_003707	exon1	c.G72T	p.L24L	CAGCCCCAGCCCT	.	104	12	66	0	.	20	19	1	0	0
HLTF	6596	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	148763946	148763946	+	Missense_Mutation	SNP	T	T	A	rs137866464	alternate_allele	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	HLTF-659	NM_139048	exon18	c.A1993T	p.I665F	GCTGAATAAATAC	.	121	83	119	0	T|1.000;C|0.000	4	0	4	0	0
RNF13	11342	bcgsc.ca	37	3	149678534	149678534	+	Silent	SNP	C	C	T	rs6768054	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	RNF13-227	NM_007282	exon11	c.C789T	p.H263H	TTATCACTGCAAG	.	207	11	139	0	C|0.360;T|0.640	0	0	0	0	0
TSC22D2	9819	hgsc.bcm.edu	37	3	150128392	150128392	+	Missense_Mutation	SNP	G	G	A	rs879634	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	TSC22D2-91	NM_014779	exon1	c.G1255A	p.A419T	CAGAATGCTTCCT	.	14	13	1	0	G|0.797;A|0.203	1	0	1	0	0
CLCN2	1181	broad.mit.edu;ucsc.edu	37	3	184075805	184075805	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CLCN2-90	NM_001171087	exon5	c.C560A	p.A187D	ACCTTAGCTATAA	.	125	18	123	2	.	1	1	0	0	0
CLDN1	9076	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	190039777	190039777	+	Silent	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CLDN1-91	NM_021101	exon1	c.G219T	p.L73L	ACTGCTCAGATTC	.	130	72	113	0	.	0	0	0	0	0
CC2D2A	57545	broad.mit.edu	37	4	15516455	15516455	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CC2D2A-25	NM_001080522	exon10	c.G843T	p.M281I	GCAGATGGAAAGA	.	133	8	76	1	.	0	0	0	0	0
FGFBP2	83888	broad.mit.edu;bcgsc.ca	37	4	15964327	15964327	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	FGFBP2-22	NM_031950	exon1	c.G426T	p.Q142H	CTCAGGCTGCTGG	.	56	45	48	1	.	0	0	0	0	0
SOD3	6649	hgsc.bcm.edu	37	4	24801354	24801354	+	Silent	SNP	C	C	T	rs8192291	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SOD3-90	NM_003102	exon2	c.C211T	p.L71L	GCCACGCTGGACG	.	26	18	0	0	C|0.777;T|0.223	12	0	12	0	0
RBM47	54502	hgsc.bcm.edu	37	4	40440854	40440854	+	Silent	SNP	G	G	C	rs1052153	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	RBM47-25	NM_001098634	exon4	c.C57G	p.S19S	CTTGGCGGAGGAC	.	8	7	0	0	G|0.794;C|0.206	1	0	1	0	0
UGT2B17	7367	broad.mit.edu;bcgsc.ca	37	4	69417567	69417567	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	UGT2B17-91	NM_001077	exon4	c.G1068A	p.K356K	TAACCACTTATAC	.	321	12	370	0	.	0	0	0	0	0
SHROOM3	57619	hgsc.bcm.edu	37	4	77662248	77662248	+	Silent	SNP	G	G	A	rs60216375	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SHROOM3-93	NM_020859	exon5	c.G2922A	p.S974S	GGCGTCGGCCTCC	.	5	4	0	0	G|0.531;A|0.469	0	0	0	0	0
NUDT9	53343	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	88372877	88372877	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	NUDT9-90	NM_024047	exon6	c.A779T	p.D260V	GCCAAGACCACCT	.	48	35	58	0	.	0	0	0	0	0
GSTCD	79807	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	106746955	106746955	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	GSTCD-92	NM_001031720	exon8	c.G1528T	p.G510X	AATATTGGAGTAA	.	81	48	121	0	.	0	0	0	0	0
ENPEP	2028	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	4	111470691	111470691	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ENPEP-157	NM_001977	exon16	c.C2233A	p.R745S	TTACTCCGTTCCT	.	108	33	120	0	.	0	0	0	0	0
C4orf32	132720	hgsc.bcm.edu	37	4	113066831	113066831	+	Missense_Mutation	SNP	G	G	A	rs10002700		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	C4orf32-90	NM_152400	exon1	c.G95A	p.G32E	GGACCGGGTGGGA	.	8	7	0	0	G|0.022;A|0.978	3	0	3	0	0
ANP32C	23520	hgsc.bcm.edu;ucsc.edu;bcgsc.ca	37	4	165118218	165118218	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ANP32C-90	NM_012403	exon1	c.G646T	p.D216Y	CGCCATCTACCTC	.	142	21	148	0	.	0	0	0	0	0
EXOC3	11336	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	5	446342	446342	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	EXOC3-90	NM_007277	exon2	c.G22C	p.A8P	CGGGAGGCCGTTG	.	165	12	101	0	.	4	4	0	0	0
SRD5A1	6715	hgsc.bcm.edu	37	5	6633779	6633779	+	Silent	SNP	C	C	G	rs248793	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SRD5A1-90	NM_001047	exon1	c.C90G	p.R30R	CGCGCGCAATCGT	.	7	7	0	0	C|0.454;G|0.546	2	0	2	0	0
SPEF2	79925	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	35644627	35644627	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SPEF2-26	NM_024867	exon4	c.G585T	p.K195N	TGAAAAGGTTCTA	.	173	50	122	0	.	0	0	0	0	0
ZSWIM6	57688	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	60831349	60831349	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_020928	exon10	c.G2284C	p.E762Q	CATCGGGAGAGCG	.	212	102	206	0	.	3	2	1	0	0
RGMB	285704	hgsc.bcm.edu	37	5	98109828	98109828	+	Silent	SNP	G	G	A	rs2547973	bycluster;byfrequency;by1000genomes	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_001012761	exon3	c.G177A	p.E59E	GGTTGAGCAGCGC	.	7	7	0	0	G|0.735;A|0.265	0	0	0	0	0
SLCO6A1	133482	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	5	101755672	101755672	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SLCO6A1-96	NM_173488	exon8	c.G1330T	p.V444F	TGGAAACAATGAC	.	126	53	139	0	.	0	0	0	0	0
PCDHGB7	56099	hgsc.bcm.edu;broad.mit.edu	37	5	140799203	140799203	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	PCDHGB7-29	NM_018927	exon1	c.G1777C	p.A593P	GTGGTGGCCGTGG	.	100	6	20	0	.	2	2	0	0	0
KCTD16	57528	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	143586513	143586513	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	KCTD16-137	NM_020768	exon3	c.G236T	p.G79V	GAGATGGATTCTT	.	127	20	135	0	.	0	0	0	0	0
ZNF346	23567	hgsc.bcm.edu	37	5	176449890	176449890	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ZNF346-90	NM_012279	exon1	c.G151T	p.A51S	TCCGGTGCCCAGC	.	94	5	41	0	.	3	3	0	0	0
PPP1R3G	648791	hgsc.bcm.edu	37	6	5086211	5086211	+	Silent	SNP	G	G	C	rs584962		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	PPP1R3G-136	NM_001145115	exon1	c.G492C	p.L164L	GCGCCTGCGAAGC	.	4	4	0	0	G|0.000;C|1.000	5	0	5	0	0
MYLIP	29116	bcgsc.ca	37	6	16145325	16145325	+	Missense_Mutation	SNP	A	A	G	rs9370867	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	MYLIP-91	NM_013262	exon6	c.A1025G	p.N342S	CAAGAAACAACCA	.	201	6	172	0	A|0.313;G|0.687	31	31	0	0	0
KIAA0319	9856	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	24581184	24581184	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	KIAA0319-92	NM_001168377	exon7	c.G1249T	p.E417X	ATCCTTCTCCAAA	.	50	9	72	0	.	0	0	0	0	0
IER3	8870	hgsc.bcm.edu	37	6	30712154	30712154	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	IER3-90	NM_003897	exon1	c.C142A	p.P48T	CGGCAGGGGCCGC	.	26	7	4	0	.	10	9	1	0	0
KCNK17	89822	hgsc.bcm.edu	37	6	39282036	39282036	+	Missense_Mutation	SNP	T	T	C	rs10947804	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	KCNK17-227	NM_001135111	exon1	c.A61G	p.S21G	CGGTGCTGGGCAC	.	30	30	0	0	T|0.441;C|0.559	0	0	0	0	0
TTBK1	84630	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	43230667	43230667	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	TTBK1-353	NM_032538	exon13	c.C1565T	p.A522V	AGGAGGCCCTGAG	.	423	72	351	0	.	0	0	0	0	0
PKHD1	5314	broad.mit.edu	37	6	51524024	51524024	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	PKHD1-603	NM_138694	exon61	c.G10900A	p.V3634I	GACCAACTCTTCT	.	105	3	148	0	.	0	0	0	0	0
EYS	346007	broad.mit.edu	37	6	65767590	65767590	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	EYS-660	NM_001142800	exon13	c.G2054T	p.C685F	GAAGCACACTCAT	.	222	4	250	0	.	0	0	0	0	0
SENP6	26054	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	76423518	76423518	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SENP6-660	NM_015571	exon23	c.C3106T	p.Q1036X	GTATTGCAGTATG	.	75	7	56	0	.	16	12	4	0	0
TSPYL4	23270	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	116574092	116574092	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_021648	exon1	c.C1080G	p.D360E	GCTGTGGTCTGAA	.	124	12	115	0	.	2	2	0	0	0
CTGF	1490	hgsc.bcm.edu	37	6	132271952	132271952	+	Missense_Mutation	SNP	G	G	C	rs7451102		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CTGF-90	NM_001901	exon2	c.C247G	p.H83D	CGAAGTGACAGAA	.	5	5	0	0	G|0.000;C|1.000	0	0	0	0	0
CTGF	1490	hgsc.bcm.edu	37	6	132271959	132271959	+	Silent	SNP	T	T	G	rs12206231		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CTGF-90	NM_001901	exon2	c.A240C	p.L80L	ACAGAATAGGCCC	.	4	4	0	0	T|0.000;G|1.000	0	0	0	0	0
CTGF	1490	hgsc.bcm.edu	37	6	132271980	132271980	+	Silent	SNP	T	T	G	rs6934749		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CTGF-90	NM_001901	exon2	c.A219C	p.P73P	GTCGCATGGGTCG	.	5	5	0	0	T|0.000;G|1.000	41	0	41	0	0
VNN1	8876	broad.mit.edu;bcgsc.ca	37	6	133014263	133014263	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	VNN1-93	NM_004666	exon4	c.G726A	p.L242L	ATGTGGCAAAACA	.	292	26	167	1	.	0	0	0	0	0
GPR126	57211	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	6	142729367	142729367	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	GPR126-91	NM_198569	exon16	c.G2349T	p.K783N	TCTGAAGGATCCT	.	257	15	198	0	.	0	0	0	0	0
TULP4	56995	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	6	158900810	158900810	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	TULP4-91	NM_020245	exon7	c.C1054A	p.H352N	TGGGGTCACCGGG	.	103	37	69	0	.	0	0	0	0	0
PRR18	285800	hgsc.bcm.edu	37	6	166720806	166720806	+	Silent	SNP	G	G	C	rs911203	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	PRR18-514	NM_175922	exon1	c.C825G	p.S275S	AGCCGCGGACTCC	.	12	9	4	0	G|0.796;C|0.204	0	0	0	0	0
TNRC18	84629	hgsc.bcm.edu	37	7	5372406	5372406	+	Silent	SNP	G	G	T	rs13238738	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	TNRC18-46	NM_001080495	exon19	c.C5994A	p.R1998R	CTCGCTGCGGCGC	.	11	6	0	0	G|0.411;T|0.589	1	0	1	0	0
USP42	84132	hgsc.bcm.edu	37	7	6193521	6193521	+	Missense_Mutation	SNP	G	G	C	rs61729726	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	USP42-659	NM_032172	exon15	c.G2336C	p.R779P	CGCCCCGCGATCC	.	21	9	0	0	G|0.456;C|0.544	3	2	1	0	0
TWISTNB	221830	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	19738103	19738103	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	TWISTNB-91	NM_001002926	exon4	c.C853A	p.Q285K	CTTCCTGGTGCTT	.	94	5	46	0	.	8	6	2	0	0
GPNMB	10457	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	23296587	23296587	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	GPNMB-580	NM_002510	exon4	c.C444T	p.T148T	TGGCACCGGCCAA	.	317	135	225	0	.	239	124	115	0	0
PURB	5814	hgsc.bcm.edu	37	7	44924461	44924461	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	PURB-90	NM_033224	exon1	c.C487A	p.P163T	CGCCCGGCCCGGG	.	21	6	3	0	.	0	0	0	0	0
PKD1L1	168507	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	47930172	47930172	+	Silent	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	PKD1L1-145	NM_138295	exon16	c.G2643T	p.V881V	CAGGAACACCCGG	.	139	11	88	0	.	0	0	0	0	0
PHTF2	57157	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	77579101	77579101	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	PHTF2-23	NM_001127357	exon15	c.C1964A	p.S655X	TTGGATCAGAAAC	.	167	9	114	0	.	1	1	0	0	0
NPTX2	4885	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	98256610	98256610	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	NPTX2-515	NM_002523	exon4	c.G1022A	p.W341X	CCCCCTGGCACCC	.	178	17	105	0	.	6	5	1	0	0
FAM185A	222234	bcgsc.ca	37	7	102427889	102427889	+	Missense_Mutation	SNP	C	C	T	rs17842496	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_001145268	exon7	c.C1039T	p.R347C	GAAGTTCGTAAAG	.	1093	108	835	5	C|0.859;T|0.141	1	1	0	0	0
ZNF277	11179	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	111982631	111982631	+	Silent	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ZNF277-155	NM_021994	exon12	c.C1200A	p.T400T	TCCAACCTATGAA	.	93	37	67	0	.	27	21	6	0	0
TMEM229A	730130	broad.mit.edu	37	7	123672457	123672462	+	In_Frame_Del	DEL	GCTGCT	GCTGCT	-	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_001136002	exon1	c.596_601del	p.199_201del	CCCTCCGCTGCTG	.	20	0	3	0	.	0	0	0	0	0
PODXL	5420	hgsc.bcm.edu	37	7	131241030	131241035	+	In_Frame_Del	DEL	GGCGAC	GGCGAC	-	rs11277659	alternate_allele	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	GGCGAC	GGCGAC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	PODXL-136	NM_001018111	exon1	c.84_89del	p.28_30del	TGGGAGGGCGACG	.	63	12	1	0	.	0	0	0	0	0
EXOC4	60412	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	133692487	133692487	+	Silent	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	EXOC4-159	NM_021807	exon17	c.C2586A	p.I862I	GCGCATCAGTGAG	.	151	44	108	0	.	10	5	5	0	0
KLRG2	346689	hgsc.bcm.edu	37	7	139168063	139168063	+	Missense_Mutation	SNP	G	G	A	rs12707447		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	KLRG2-90	NM_198508	exon1	c.C326T	p.A109V	CCGGGCGCCTCGC	.	9	6	2	0	G|0.735;A|0.265	0	0	0	0	0
TAS2R40	259286	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	142919418	142919418	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	TAS2R40-23	NM_176882	exon1	c.C247A	p.L83I	AGTCTGCTATTCC	.	70	6	61	0	.	0	0	0	0	0
OR2A14	135941	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	143826247	143826247	+	Silent	SNP	G	G	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	OR2A14-90	NM_001001659	exon1	c.G42A	p.P14P	CTTGCCGCGATTC	.	187	57	165	0	.	0	0	0	0	0
OR2A14	135941	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	143826338	143826338	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	OR2A14-90	NM_001001659	exon1	c.T133G	p.F45V	GTCATCTTTGGGA	.	276	27	197	0	.	0	0	0	0	0
ARHGEF5	7984	broad.mit.edu	37	7	144062343	144062343	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ARHGEF5-229	NM_005435	exon2	c.A2581T	p.R861W	AGGGGGAGGAGCA	.	392	9	331	2	.	0	0	0	0	0
C7orf33	202865	bcgsc.ca	37	7	148311375	148311375	+	Missense_Mutation	SNP	G	G	T	rs145413433	alternate_allele	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	C7orf33-90	NM_145304	exon2	c.G446T	p.S149I	TGACAAGTTCATA	.	188	9	142	0	G|1.000;A|0.000	0	0	0	0	0
ADCY8	114	hgsc.bcm.edu	37	8	132052342	132052342	+	Missense_Mutation	SNP	C	C	T	rs2228949	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ADCY8-157	NM_001115	exon1	c.G238A	p.A80T	GCGGCGCGTGGTG	.	28	21	0	0	C|0.979;T|0.021	0	0	0	0	0
PHF20L1	51105	broad.mit.edu;bcgsc.ca	37	8	133816893	133816893	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	PHF20L1-92	NM_016018	exon8	c.T755G	p.F252C	TGGTCTTTCCACA	.	213	8	197	0	.	7	7	0	0	0
COL22A1	169044	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	8	139609190	139609190	+	Silent	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	COL22A1-103	NM_152888	exon62	c.C4389A	p.T1463T	ACGCAGGGTTTCC	.	101	20	100	0	.	0	0	0	0	0
ZNF696	79943	hgsc.bcm.edu	37	8	144378868	144378868	+	Silent	SNP	A	A	G	rs7386259	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ZNF696-90	NM_030895	exon3	c.A1023G	p.R341R	CCAGCGACTCCAC	.	11	11	1	0	A|0.118;G|0.882	0	0	0	0	0
MAFA	389692	hgsc.bcm.edu	37	8	144511538	144511538	+	Missense_Mutation	SNP	C	C	A	rs62521874		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	MAFA-278	NM_201589	exon1	c.G1039T	p.G347C	CCGTGCCCTTGGC	.	5	5	0	0	C|0.946;A|0.054	0	0	0	0	0
C9orf66	157983	hgsc.bcm.edu	37	9	215057	215057	+	Missense_Mutation	SNP	T	T	C	rs481905	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	C9orf66-514	NM_152569	exon1	c.A340G	p.N114D	GCAGGTTGCGGCC	.	6	6	0	0	T|0.413;C|0.587	0	0	0	0	0
TUSC1	286319	hgsc.bcm.edu	37	9	25678122	25678122	+	Silent	SNP	G	G	C	rs72631814	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	TUSC1-90	NM_001004125	exon1	c.C198G	p.A66A	CAGGTCGGCAAAC	.	38	13	0	0	G|0.807;C|0.193	2	2	0	0	0
SPATA31A3	727830	broad.mit.edu;bcgsc.ca	37	9	40702725	40702725	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_001083124	exon4	c.G382T	p.E128X	GTGGGCGAAAGAG	.	856	50	969	0	.	0	0	0	0	0
ZCCHC6	79670	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	9	88918065	88918065	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ZCCHC6-92	NM_024617	exon25	c.G4030T	p.D1344Y	ATCTATCATTTGG	.	125	11	111	0	.	10	9	1	0	0
WNK2	65268	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	9	96025908	96025908	+	Silent	SNP	T	T	C	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	WNK2-765	NM_006648	exon14	c.T3471C	p.F1157F	CGCCTTTGGAGGG	.	74	9	51	0	.	0	0	0	0	0
DBH	1621	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	9	136518101	136518101	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	DBH-516	NM_000787	exon9	c.G1414T	p.D472Y	ACAGAAGACCGGG	.	264	23	249	0	.	0	0	0	0	0
GLT6D1	360203	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	138517976	138517976	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	GLT6D1-91	NM_182974	exon4	c.C196A	p.L66M	TTTCCAGGACCCG	.	144	51	123	0	.	0	0	0	0	0
KIAA1984	84960	hgsc.bcm.edu	37	9	139694613	139694613	+	Missense_Mutation	SNP	C	C	A	rs35342663	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	KIAA1984-91	NM_001039374	exon4	c.C430A	p.L144M	CTGCGGCTGCTGC	.	21	11	3	0	C|0.928;A|0.072	0	0	0	0	0
FAM157B	100132403	broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	9	141109762	141109762	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_001145249	exon3	c.C391T	p.P131S	AGGCGGCCCTCAT	.	373	51	345	0	.	0	0	0	0	0
AKAP17A	8227	bcgsc.ca	37	X	1713021	1713021	+	Silent	SNP	C	C	T	rs6644621	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	AKAP17A-40	NM_005088	exon2	c.C666T	p.R222R	GTACCGCGAGTAC	.	125	6	156	0	C|0.453;T|0.547	20	20	0	0	0
MAP7D2	256714	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	X	20044071	20044071	+	Splice_Site	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	MAP7D2-195	NM_001168467	exon9	c.729-1G>T	.	GCTGTCCTGGAAA	.	87	21	48	0	.	0	0	0	0	0
SUPT20HL1	100130302	hgsc.bcm.edu	37	X	24382525	24382525	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_001136234	exon1	c.G1648C	p.A550P	CCTGCCGCTGCTC	.	91	14	72	0	.	0	0	0	0	0
CXorf22	170063	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	X	35993875	35993875	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CXorf22-131	NM_152632	exon15	c.C2558A	p.S853Y	TATCTTCTAATGA	.	140	18	90	0	.	0	0	0	0	0
GUCY2F	2986	ucsc.edu;bcgsc.ca	37	X	108696981	108696981	+	Missense_Mutation	SNP	C	C	A	rs2272925	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	GUCY2F-540	NM_001522	exon4	c.G1140T	p.Q380H	GGAATGCTGAACC	.	42	5	63	0	C|0.934;A|0.066	0	0	0	0	0
SLC25A43	203427	bcgsc.ca	37	X	118587003	118587003	+	Missense_Mutation	SNP	C	C	T	rs3810755	byfrequency	TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	SLC25A43-130	NM_145305	exon5	c.C1001T	p.P334L	GAAAACCGAAGCC	.	125	8	94	0	0|0.015;T|0.445	8	8	0	0	0
CXorf64	100130613	broad.mit.edu	37	X	125954964	125954964	+	Missense_Mutation	SNP	C	C	G	rs12835991		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_001122716	exon2	c.C343G	p.L115V	GATGCACTGGCAG	.	88	5	84	1	C|0.945;G|0.055	0	0	0	0	0
CTBP2	1488	hgsc.bcm.edu	37	10	126715159	126715160	+	In_Frame_Ins	INS	-	-	GCCGCAGGCTGGGGCTGCAGG	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	CTBP2-90	NM_022802	exon1	c.1170_1171insCCTGCAGCCCCAGCCTGCGGC	p.A390delinsALQPQPAA	CAGAGGAGCCGCA	.	20	9	2	1	.	0	0	0	0	0
SARM1	23098	hgsc.bcm.edu	37	17	26699367	26699368	+	Frame_Shift_Ins	INS	-	-	C	rs34421136		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_015077	exon2	c.313_314insC	p.A105fs	GCTGCTGCGGCCG	.	12	12	0	0	-|0.009;C|0.991	0	0	0	0	0
CCDC150	284992	hgsc.bcm.edu	37	2	197531518	197531519	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	.	NM_001080539	exon7	c.838_839insA	p.Q280fs	CAGGAACAAAAAA	.	216	0	178	0	.	0	0	0	0	0
NEFH	4744	broad.mit.edu	37	22	29885622	29885623	+	In_Frame_Ins	INS	-	-	AGGAAG	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	NEFH-90	NM_021076	exon4	c.1993_1994insAGGAAG	p.K665delinsKEE	CCTGAGAAGGCCA	.	228	7	277	0	.	0	0	0	0	0
ATP13A5	344905	broad.mit.edu	37	3	193042730	193042731	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	ATP13A5-144	NM_198505	exon14	c.1597_1598insC	p.C533fs	AGTGGCAGCTGGC	.	137	7	137	0	.	0	0	0	0	0
MCC	4163	broad.mit.edu	37	5	112824048	112824049	+	In_Frame_Ins	INS	-	-	GCC	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	MCC-69	NM_001085377	exon1	c.64_65insGGC	p.S22delinsGS	TGCCGCTGCCGCC	.	25	8	11	0	.	0	0	0	0	0
VARS	7407	hgsc.bcm.edu	37	6	31762843	31762844	+	Missense_Mutation	DNP	GG	GG	CT	novel		TCGA-OR-A5J8-01A-11D-A29I-10	TCGA-OR-A5J8-10A-01D-A29L-10	GG	GG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	b2182eee-242e-4d38-8d23-aa9ea31e69e9	bcbf3b2d-2175-4d7e-a175-1a4f35149860	.	VARS-93	NM_006295	exon2	c.C151A	p.P51S	GAAAGGGAGTCCT	.	8	0	1	0	G|0.721;T|0.279	0	0	0	0	0