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
AK2	204	bcgsc.ca	37	1	33478983	33478983	+	Silent	SNP	G	G	A	rs79403800		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	AK2-252	NM_013411	exon6	c.C519T	p.I173I	TCGACGGATCAAG	.	84	9	78	2	G|0.500;A|0.500	172	172	0	0	0
BMP8A	353500	hgsc.bcm.edu	37	1	39957913	39957913	+	Missense_Mutation	SNP	A	A	G	rs4660269	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	BMP8A-90	NM_181809	exon1	c.A250G	p.M84V	CACGCCATGGCTG	.	7	7	0	0	A|0.302;G|0.698	0	0	0	0	0
NT5C1A	84618	broad.mit.edu	37	1	40126766	40126766	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	NT5C1A-91	NM_032526	exon5	c.C726A	p.N242K	AGGTTTGTTCTCG	.	113	5	100	0	.	0	0	0	0	0
TCTEX1D4	343521	hgsc.bcm.edu	37	1	45271828	45271828	+	Silent	SNP	T	T	C	rs17885815	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	TCTEX1D4-91	NM_001013632	exon2	c.A513G	p.V171V	ACTGCATACCAGC	.	15	12	0	0	T|0.859;C|0.141	2	0	2	0	0
RSBN1	54665	hgsc.bcm.edu	37	1	114354654	114354654	+	Silent	SNP	T	T	C	rs3195954	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	RSBN1-91	NM_018364	exon1	c.A381G	p.P127P	ATTCGTTGGCGGC	.	18	16	5	0	T|0.861;C|0.139	2	0	2	0	0
ZBTB37	84614	broad.mit.edu;bcgsc.ca	37	1	173855208	173855208	+	Silent	SNP	A	A	G	rs16846520	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	ZBTB37-90	NM_001122770	exon5	c.A1458G	p.T486T	AGAGACAGTTGCT	.	107	5	116	1	A|0.908;G|0.092	0	0	0	0	0
TOR3A	64222	hgsc.bcm.edu	37	1	179051300	179051300	+	Missense_Mutation	SNP	T	T	C	rs2296377	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	TOR3A-90	NM_022371	exon1	c.T37C	p.F13L	CTCTTTTTCCTGC	.	10	10	0	0	T|0.229;C|0.771	0	0	0	0	0
C1orf106	55765	hgsc.bcm.edu	37	1	200880978	200880978	+	Missense_Mutation	SNP	C	C	T	rs296520	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	C1orf106-93	NM_018265	exon9	c.C1654T	p.R552C	GAGCTGCGCCGCG	.	25	25	0	0	C|0.242;T|0.758	0	0	0	0	0
LEMD1	93273	broad.mit.edu	37	1	205350973	205350973	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	LEMD1-90	NM_001001552	exon4	c.G217T	p.E73X	GGTGCTCTTGCAG	.	79	3	105	0	.	0	0	0	0	0
IL24	11009	broad.mit.edu	37	1	207073701	207073701	+	Missense_Mutation	SNP	C	C	T	rs142816743	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	IL24-90	NM_001185156	exon4	c.C305T	p.S102L	ACGTCTCGGTAAT	.	82	3	111	0	C|0.998;T|0.002	0	0	0	0	0
CR1	1378	bcgsc.ca	37	1	207760773	207760773	+	Missense_Mutation	SNP	C	C	T	rs3737002	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	CR1-93	NM_000651	exon34	c.C5573T	p.T1858M	GTCCTACGATCCC	.	111	5	111	1	C|0.751;N|0.000	0	0	0	0	0
PTPN14	5784	broad.mit.edu	37	1	214558119	214558119	+	Missense_Mutation	SNP	T	T	G	rs112523432	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	PTPN14-290	NM_005401	exon13	c.A1079C	p.H360P	TTCCCATGAAAAA	.	77	4	56	0	T|0.994;G|0.006	0	0	0	0	0
OBSCN	84033	hgsc.bcm.edu	37	1	228504670	228504670	+	Missense_Mutation	SNP	C	C	T	rs11810627	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	OBSCN-403	NM_001271223	exon62	c.C16417T	p.R5473W	TCTGCGCGGCTCA	.	47	7	1	0	C|0.643;T|0.357	0	0	0	0	0
FMN2	56776	hgsc.bcm.edu	37	1	240256171	240256171	+	Silent	SNP	G	G	A	rs142232913		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	FMN2-145	NM_020066	exon1	c.G762A	p.L254L	CCTGCTGGGGCCG	.	11	10	1	0	G|0.994;A|0.006	0	0	0	0	0
SKIDA1	387640	broad.mit.edu	37	10	21805484	21805484	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_207371	exon4	c.A1268T	p.E423V	TCTTCCTCCTCCT	.	85	6	101	1	.	3	2	0	1	0
CSGALNACT2	55454	broad.mit.edu	37	10	43659419	43659419	+	Missense_Mutation	SNP	G	G	T	rs79064394		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	CSGALNACT2-69	NM_018590	exon5	c.G1086T	p.L362F	GGTCTTGATGTTT	.	117	3	137	1	.	0	0	0	0	0
FAM21C	253725	bcgsc.ca	37	10	46254776	46254776	+	Missense_Mutation	SNP	A	A	C	rs2596979	bycluster;byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	FAM21C-91	NM_015262	exon17	c.A1562C	p.Y521S	TATCTTACAGCAA	.	35	7	166	4	A|0.300;C|0.700	13	1	12	0	0
TAF5	6877	hgsc.bcm.edu	37	10	105128134	105128134	+	Missense_Mutation	SNP	T	T	G	rs10883859	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	TAF5-92	NM_006951	exon1	c.T388G	p.S130A	GCGGGCTCCGGAG	.	11	4	1	0	T|0.623;G|0.377	0	0	0	0	0
CPXM2	119587	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	10	125516731	125516731	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	CPXM2-92	NM_198148	exon12	c.1915delC	p.Q639fs	ATACCTGCTCCAT	.	90	64	144	0	.	0	0	0	0	0
MUC5B	727897	hgsc.bcm.edu	37	11	1253980	1253980	+	Missense_Mutation	SNP	A	A	G	rs202127660		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_002458	exon17	c.A2045G	p.D682G	TCAGCGACTGGAG	.	108	6	55	0	.	0	0	0	0	0
MYBPC3	4607	bcgsc.ca	37	11	47354787	47354787	+	Silent	SNP	C	C	T	rs1052373	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	MYBPC3-92	NM_000256	exon29	c.G3288A	p.E1096E	CCAGAGCTCCGTG	.	72	5	135	1	C|0.557;T|0.443	25	25	0	0	0
FNBP4	23360	hgsc.bcm.edu	37	11	47788664	47788669	+	In_Frame_Del	DEL	GGTGGT	GGTGGT	-	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	GGTGGT	GGTGGT	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	FNBP4-91	NM_015308	exon1	c.172_177del	p.58_59del	CACCGCGGTGGTG	.	19	18	1	0	.	0	0	0	0	0
OR5M10	390167	hgsc.bcm.edu;ucsc.edu	37	11	56344846	56344846	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_001004741	exon1	c.A352T	p.M118L	ATGCCATTGAAGC	.	123	18	178	0	.	0	0	0	0	0
OR5M10	390167	hgsc.bcm.edu	37	11	56344847	56344847	+	Silent	SNP	T	T	G	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_001004741	exon1	c.A351C	p.S117S	TGCCATTGAAGCA	.	120	13	181	0	.	0	0	0	0	0
SLC43A3	29015	broad.mit.edu;bcgsc.ca	37	11	57175299	57175299	+	Missense_Mutation	SNP	C	C	T	rs141037487	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	SLC43A3-90	NM_017611	exon14	c.G1442A	p.R481H	CAAGTACGGCATT	.	121	5	121	0	C|0.999;T|0.001	17	17	0	0	0
TM7SF2	7108	hgsc.bcm.edu	37	11	64880090	64880090	+	Silent	SNP	G	G	C	rs4930284		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	TM7SF2-91	NM_003273	exon2	c.G156C	p.P52P	CCTGCCGGGGCTG	.	10	10	0	0	G|0.005;C|0.995	663	0	661	0	2
B3GNT6	192134	hgsc.bcm.edu	37	11	76751587	76751587	+	Silent	SNP	G	G	A	rs34153015		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_138706	exon4	c.G990A	p.R330R	ATCCTGGCCCTTC	.	20	15	1	0	A|1.000;|0.000	0	0	0	0	0
TAS2R19	259294	bcgsc.ca	37	12	11174466	11174466	+	Silent	SNP	G	G	A	rs199592952		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	TAS2R19-91	NM_176888	exon1	c.C705T	p.L235L	TAACATGAGGAAG	.	272	18	201	4	.	1	1	0	0	0
ALG10	84920	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca;mdanderson.org	37	12	34175538	34175538	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	ALG10-91	NM_032834	exon1	c.G4A	p.A2T	GGAATGGCGCAGC	.	173	63	126	0	.	1	0	1	0	0
AMDHD1	144193	hgsc.bcm.edu	37	12	96337183	96337183	+	Missense_Mutation	SNP	A	A	G	rs7955450	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	AMDHD1-90	NM_152435	exon1	c.A7G	p.S3G	ATGGCAAGCGGCC	.	12	11	0	0	A|0.273;G|0.727	0	0	0	0	0
GLT8D2	83468	broad.mit.edu	37	12	104383225	104383225	+	Silent	SNP	A	A	G	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	GLT8D2-92	NM_031302	exon11	c.T1011C	p.P337P	AGGGTCAGGAACA	.	119	4	97	0	.	10	10	0	0	0
ELF1	1997	broad.mit.edu	37	13	41515284	41515284	+	Silent	SNP	T	T	A	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	ELF1-227	NM_172373	exon8	c.A1029T	p.T343T	TAGAACTGTAGTG	.	75	3	71	0	.	0	0	0	0	0
DACH1	1602	hgsc.bcm.edu	37	13	72440668	72440668	+	Silent	SNP	G	G	T	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	DACH1-135	NM_080759	exon1	c.C240A	p.G80G	GCCGCCGCCGCCG	.	4	4	0	0	.	0	0	0	0	0
DACH1	1602	hgsc.bcm.edu	37	13	72440673	72440673	+	Missense_Mutation	SNP	C	C	T	rs200162861		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	DACH1-135	NM_080759	exon1	c.G235A	p.G79S	CGCCGCCGCCGCC	.	4	4	0	0	.	4	4	0	0	0
COL4A1	1282	bcgsc.ca	37	13	110850842	110850842	+	Silent	SNP	A	A	G	rs995224	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	COL4A1-654	NM_001845	exon21	c.T1257C	p.P419P	GGGCCCAGGGGAA	.	60	4	100	0	T|0.212;G|0.182;C|0.057;A|0.548	3	3	0	0	0
C15orf55	256646	bcgsc.ca	37	15	34649211	34649211	+	Missense_Mutation	SNP	C	C	A	rs2279683	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	C15orf55-206	NM_175741	exon7	c.C2918A	p.T973N	GAAGCACTTTGCC	.	156	6	222	0	C|0.931;A|0.069	0	0	0	0	0
C15orf55	256646	bcgsc.ca	37	15	34649247	34649247	+	Missense_Mutation	SNP	C	C	G	rs2279684	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	C15orf55-206	NM_175741	exon7	c.C2954G	p.P985R	TAGTTCCGAGAGA	.	169	7	226	0	C|0.929;G|0.071	0	0	0	0	0
PLCB2	5330	hgsc.bcm.edu	37	15	40583560	40583560	+	Silent	SNP	G	G	T	rs62021888		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	PLCB2-275	NM_004573	exon26	c.C2776A	p.R926R	CGCCCCGCTGCAG	.	6	6	0	0	G|0.817;T|0.183	0	0	0	0	0
DMXL2	23312	ucsc.edu	37	15	51855576	51855576	+	Splice_Site	SNP	A	A	T	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	DMXL2-99	NM_015263	exon7	c.567+2T>A	.	TCCTTTACCTTTC	.	41	4	49	0	.	1	1	0	0	0
RASGRF1	5923	broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	79339163	79339163	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	RASGRF1-662	NM_001145648	exon5	c.G803A	p.R268H	AGCGGGCGCAGGA	.	110	64	150	1	.	20	0	20	0	0
CCDC64B	146439	bcgsc.ca	37	16	3079685	3079685	+	Missense_Mutation	SNP	T	T	C	rs2244494	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_001103175	exon5	c.A818G	p.Q273R	CGCCGCTGCAGCC	.	46	43	6	0	T|0.740;C|0.260	0	0	0	0	0
IRX3	79191	hgsc.bcm.edu	37	16	54318528	54318528	+	Missense_Mutation	SNP	A	A	G	rs1450355		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	IRX3-90	NM_024336	exon2	c.T1265C	p.L422P	GGGTGCAGGCGGG	.	18	18	0	0	T|0.035;G|0.004	1	0	1	0	0
LRRC36	55282	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	16	67400961	67400961	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	LRRC36-90	NM_018296	exon8	c.C796T	p.P266S	CGATCCCCAGAGA	.	102	72	124	0	.	0	0	0	0	0
ZFPM1	161882	hgsc.bcm.edu	37	16	88599697	88599705	+	In_Frame_Del	DEL	AGCCTCTGG	AGCCTCTGG	-	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	AGCCTCTGG	AGCCTCTGG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	ZFPM1-90	NM_153813	exon10	c.1331_1339del	p.444_447del	GAGCGGAGCCTCT	.	19	0	1	0	.	0	0	0	0	0
CDH15	1013	hgsc.bcm.edu	37	16	89258747	89258747	+	Missense_Mutation	SNP	A	A	C	rs75791347	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	CDH15-523	NM_004933	exon11	c.A1750C	p.K584Q	TGCGGCAAGGACG	.	7	7	0	0	A|0.532;C|0.468	0	0	0	0	0
SMCR7	125170	bcgsc.ca	37	17	18167505	18167505	+	Silent	SNP	T	T	C	rs2605143	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	SMCR7-90	NM_148886	exon4	c.T825C	p.A275A	GGCTGCTTCTGTC	.	48	4	26	0	T|0.281;C|0.719	41	41	0	0	0
PRKAR1A	5573	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	17	66526554	66526554	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	PRKAR1A-1141	NM_212472	exon11	c.1110delC	p.I370fs	AAACATCCAGCAG	.	114	81	145	0	.	0	0	0	0	0
TMEM200C	645369	hgsc.bcm.edu	37	18	5890565	5890565	+	Missense_Mutation	SNP	G	G	C	rs200146022		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_001080209	exon1	c.C1498G	p.L500V	TGGCCAGAGGGCT	.	20	18	1	0	.	0	0	0	0	0
GNAL	2774	hgsc.bcm.edu	37	18	11689699	11689699	+	Missense_Mutation	SNP	G	G	A	rs7236433	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	GNAL-228	NM_182978	exon1	c.G137A	p.R46K	CCGCAAGGGACAC	.	21	19	1	0	G|0.908;A|0.092	0	0	0	0	0
ZNF407	55628	broad.mit.edu	37	18	72346693	72346693	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	ZNF407-92	NM_001146190	exon1	c.G3718T	p.G1240C	GGAGACGGTGGAG	.	87	4	111	0	.	1	1	0	0	0
ATP9B	374868	hgsc.bcm.edu	37	18	76829525	76829525	+	Missense_Mutation	SNP	A	A	G	rs4078115		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	ATP9B-93	NM_198531	exon1	c.A115G	p.S39G	CGGCACAGCAGGT	.	20	20	0	0	A|0.693;G|0.307	0	0	0	0	0
ARID3A	1820	hgsc.bcm.edu	37	19	929753	929753	+	Silent	SNP	A	A	G	rs1799595		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	ARID3A-90	NM_005224	exon2	c.A225G	p.P75P	ACACCCAGCCAGC	.	11	11	0	0	A|0.114;G|0.886	0	0	0	0	0
TCF3	6929	hgsc.bcm.edu	37	19	1619333	1619333	+	Silent	SNP	G	G	A	rs1140828	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	TCF3-721	NM_003200	exon15	c.C1308T	p.G436G	CCGCCCGCCCAGT	.	27	26	0	0	G|0.749;A|0.251	2	2	0	0	0
TCF3	6929	hgsc.bcm.edu	37	19	1619339	1619339	+	Silent	SNP	T	T	C	rs8140	bycluster;byfrequency;byhapmap;by1000genomes	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	TCF3-721	NM_003200	exon15	c.A1302G	p.S434S	GCCCAGTGACATG	.	25	23	0	0	T|0.403;C|0.597	0	0	0	0	0
KLF16	83855	hgsc.bcm.edu	37	19	1854557	1854557	+	Silent	SNP	A	A	G	rs3746045	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	KLF16-90	NM_031918	exon2	c.T660C	p.P220P	GGCACCAGGGCGC	.	18	17	3	0	A|0.591;G|0.409	1	0	1	0	0
LINGO3	645191	bcgsc.ca	37	19	2290132	2290132	+	Silent	SNP	C	C	T	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_001101391	exon2	c.G1644A	p.L548L	GAACAGCAGCACG	.	156	105	141	3	.	0	0	0	0	0
CACTIN	58509	hgsc.bcm.edu	37	19	3613346	3613346	+	Missense_Mutation	SNP	G	G	A	rs2074789	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_021231	exon9	c.C1496T	p.A499V	GGCGCCGCGTCCT	.	6	5	0	0	G|0.535;A|0.465	1	0	1	0	0
ANKRD24	170961	hgsc.bcm.edu	37	19	4217956	4217956	+	Silent	SNP	A	A	G	rs6510794	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	ANKRD24-68	NM_133475	exon18	c.A2799G	p.A933A	CCGGGCAGCCAGT	.	11	11	0	0	A|0.541;G|0.459	1	0	1	0	0
MAP1S	55201	hgsc.bcm.edu	37	19	17837417	17837417	+	Silent	SNP	G	G	A	rs138676223		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	MAP1S-90	NM_018174	exon5	c.G1224A	p.T408T	GCGCACGCTGGCC	.	27	25	0	0	G|0.987;A|0.013	6	0	6	0	0
DMWD	1762	broad.mit.edu	37	19	46289396	46289396	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	DMWD-90	NM_004943	exon3	c.A1358C	p.H453P	GGGGGGTGCGGGT	.	161	39	79	3	.	0	0	0	0	0
RASIP1	54922	hgsc.bcm.edu	37	19	49232226	49232226	+	Missense_Mutation	SNP	G	G	A	rs2287922		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	RASIP1-228	NM_017805	exon5	c.C1801T	p.R601C	CCAGGCGGCCCAG	.	10	4	0	0	G|0.738;A|0.262	8	3	5	0	0
PRR12	57479	hgsc.bcm.edu	37	19	50104897	50104897	+	Missense_Mutation	SNP	C	C	T	rs189937355		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	PRR12-70	NM_020719	exon6	c.C4495T	p.P1499S	CCGCCACCGCCGC	.	7	7	0	0	C|0.986;T|0.014	4	0	4	0	0
SHANK1	50944	hgsc.bcm.edu	37	19	51171188	51171188	+	Silent	SNP	G	G	A	rs750578		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	SHANK1-153	NM_016148	exon22	c.C4029T	p.T1343T	CTTGCCGGTCAGC	.	6	6	0	0	G|0.661;A|0.339	0	0	0	0	0
KLK14	43847	bcgsc.ca	37	19	51584951	51584951	+	Missense_Mutation	SNP	T	T	C	rs35287116	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	KLK14-226	NM_022046	exon4	c.A98G	p.Q33R	TGGCTCTGTGTCA	.	111	5	97	1	T|0.653;C|0.347	0	0	0	0	0
MZF1	7593	hgsc.bcm.edu	37	19	59074028	59074081	+	In_Frame_Del	DEL	CGCTCGCCACTGTGCACGCGCCGGTGCTGCAGCAGCACTGAGCGGCGGCCGAAG	CGCTCGCCACTGTGCACGCGCCGGTGCTGCAGCAGCACTGAGCGGCGGCCGAAG	-	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	CGCTCGCCACTGTGCACGCGCCGGTGCTGCAGCAGCACTGAGCGGCGGCCGAAG	CGCTCGCCACTGTGCACGCGCCGGTGCTGCAGCAGCACTGAGCGGCGGCCGAAG	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	MZF1-91	NM_198055	exon6	c.1563_1616del	p.521_539del	AAGGGCCGCTCGC	.	23	0	2	0	.	0	0	0	0	0
TPO	7173	hgsc.bcm.edu	37	2	1481231	1481231	+	Missense_Mutation	SNP	G	G	C	rs2175977	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	TPO-332	NM_175719	exon8	c.G1193C	p.S398T	GCGCCAGCGAGGT	.	11	11	0	0	G|0.301;C|0.699	0	0	0	0	0
SEMA4F	10505	hgsc.bcm.edu	37	2	74881514	74881514	+	Missense_Mutation	SNP	C	C	G	rs187477207		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	SEMA4F-93	NM_001271662	exon1	c.C11G	p.S4C	CGGCCTCTGCTGC	.	7	7	2	0	C|0.998;G|0.002	1	0	1	0	0
CNOT11	55571	broad.mit.edu	37	2	101869801	101869808	+	Frame_Shift_Del	DEL	CACGGCGC	CACGGCGC	-	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_017546	exon1	c.375_382del	p.125_128del	GCGCCTCACGGCG	.	39	20	10	0	.	0	0	0	0	0
CNOT11	55571	hgsc.bcm.edu	37	2	101869801	101869810	+	Frame_Shift_Del	DEL	CACGGCGCTC	CACGGCGCTC	-	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	CACGGCGCTC	CACGGCGCTC	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_017546	exon1	c.375_384del	p.125_128del	GCGCCTCACGGCG	.	39	0	10	0	.	0	0	0	0	0
CNOT11	55571	broad.mit.edu	37	2	101869810	101869810	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_017546	exon1	c.384delC	p.L128fs	GGCGCTCTACCTG	.	36	19	6	0	.	0	0	0	0	0
UGGT1	56886	bcgsc.ca	37	2	128934400	128934400	+	Silent	SNP	T	T	C	rs2290111	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	UGGT1-91	NM_020120	exon32	c.T3552C	p.T1184T	TGGCACTGATTCT	.	170	6	188	0	T|0.323;C|0.677	0	0	0	0	0
OBSL1	23363	hgsc.bcm.edu	37	2	220435375	220435375	+	Silent	SNP	G	G	A	rs1061399	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	OBSL1-71	NM_001173431	exon1	c.C580T	p.L194L	TGCGCAGTGCCAG	.	7	7	0	0	G|0.621;A|0.379	13	0	13	0	0
KIF1A	547	hgsc.bcm.edu	37	2	241696843	241696843	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	KIF1A-91	NM_001244008	exon27	c.G2751T	p.E917D	CTCATCCTCCTCC	.	125	8	181	0	.	1	1	0	0	0
PANK2	80025	hgsc.bcm.edu	37	20	3870124	3870124	+	Missense_Mutation	SNP	G	G	C	rs3737084	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	PANK2-115	NM_153638	exon1	c.G377C	p.G126A	TGGGAGGGGGCCG	.	8	8	0	0	G|0.122;C|0.878	0	0	0	0	0
RPN2	6185	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	20	35838497	35838497	+	Silent	SNP	T	T	G	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	RPN2-93	NM_002951	exon8	c.T915G	p.V305V	CACTGTTAAACTA	.	43	8	61	0	.	140	97	43	0	0
PREX1	57580	bcgsc.ca	37	20	47269233	47269233	+	Missense_Mutation	SNP	C	C	G	rs41283558	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	PREX1-231	NM_020820	exon21	c.G2358C	p.Q786H	GATCCACTGGTAC	.	101	5	117	0	C|0.851;G|0.149	0	0	0	0	0
TRIOBP	11078	hgsc.bcm.edu	37	22	38122462	38122462	+	Missense_Mutation	SNP	A	A	G	rs739138	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	TRIOBP-136	NM_001039141	exon7	c.A3899G	p.H1300R	GCACCCACAGCCC	.	22	22	0	0	A|0.354;G|0.646	0	0	0	0	0
C22orf26	55267	hgsc.bcm.edu	37	22	46449891	46449891	+	Missense_Mutation	SNP	G	G	A	rs12159707		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	C22orf26-90	NM_018280	exon1	c.C83T	p.P28L	GGGTTGGGGGGGG	.	10	7	0	0	A|0.248;C|0.000;G|0.752	0	0	0	0	0
GPR62	118442	hgsc.bcm.edu	37	3	51990315	51990315	+	Missense_Mutation	SNP	A	A	G	rs28651222		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	GPR62-91	NM_080865	exon1	c.A647G	p.H216R	GACTCCACTCGGA	.	5	5	0	0	A|0.003;G|0.997	0	0	0	0	0
NXPE3	91775	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	3	101520307	101520307	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_145037	exon5	c.T322A	p.F108I	AGCTACTTTGTCA	.	105	84	122	0	.	2	0	2	0	0
EFCC1	79825	hgsc.bcm.edu	37	3	128720487	128720487	+	Missense_Mutation	SNP	A	A	G	rs1871951	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_024768	exon1	c.A16G	p.T6A	GTCAGCACGGGCG	.	5	5	0	0	A|0.315;G|0.685	0	0	0	0	0
OTOP1	133060	broad.mit.edu	37	4	4228274	4228282	+	In_Frame_Del	DEL	CCACAGCAG	CCACAGCAG	-	rs75328065	alternate_allele	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	OTOP1-92	NM_177998	exon1	c.310_318del	p.104_106del	CAGCATCCACAGC	.	88	8	6	0	.	0	0	0	0	0
CCDC96	257236	hgsc.bcm.edu	37	4	7044357	7044357	+	Silent	SNP	A	A	G	rs871133		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	CCDC96-90	NM_153376	exon1	c.T309C	p.V103V	AGCCCCAACCTCG	.	12	12	0	0	A|0.036;G|0.964	9	0	9	0	0
FAM184B	27146	hgsc.bcm.edu	37	4	17643848	17643848	+	Missense_Mutation	SNP	G	G	A	rs2286771	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	FAM184B-23	NM_015688	exon13	c.C2350T	p.R784W	CGCCCCGCTCCTG	.	19	5	2	0	G|0.440;A|0.560	0	0	0	0	0
ZAR1	326340	hgsc.bcm.edu	37	4	48492434	48492434	+	Missense_Mutation	SNP	G	G	C	rs10008444		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	ZAR1-90	NM_175619	exon1	c.G126C	p.Q42H	GCAGCAGCGCGGC	.	31	31	0	0	G|0.025;C|0.975	0	0	0	0	0
PDGFRA	5156	broad.mit.edu	37	4	55124953	55124953	+	Silent	SNP	G	G	T	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	PDGFRA-9497	NM_006206	exon2	c.G18T	p.P6P	CCATCCGGCGTTC	.	123	4	85	0	.	0	0	0	0	0
C4orf32	132720	hgsc.bcm.edu	37	4	113066831	113066831	+	Missense_Mutation	SNP	G	G	A	rs10002700		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	C4orf32-90	NM_152400	exon1	c.G95A	p.G32E	GGACCGGGTGGGA	.	8	8	0	0	G|0.022;A|0.978	2	0	2	0	0
SH3D19	152503	broad.mit.edu	37	4	152096227	152096227	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	SH3D19-92	NM_001128924	exon1	c.C289A	p.P97T	TTACTGGGATGCT	.	46	3	35	0	.	5	5	0	0	0
FRG1	2483	bcgsc.ca	37	4	190876283	190876283	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	FRG1-90	NM_004477	exon5	c.C409A	p.Q137K	AGAGAACAATGGG	.	311	22	290	6	.	146	146	0	0	0
ADAMTS16	170690	hgsc.bcm.edu	37	5	5140632	5140632	+	Silent	SNP	T	T	C	rs270208	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	ADAMTS16-275	NM_139056	exon1	c.T52C	p.L18L	ATGCTGTTGGCGC	.	16	8	0	0	T|0.352;C|0.648	0	0	0	0	0
NSUN2	54888	hgsc.bcm.edu	37	5	6633042	6633042	+	Silent	SNP	C	C	T	rs10062086	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	NSUN2-91	NM_017755	exon1	c.G51A	p.E17E	CGCGTCCTCCGGC	.	22	13	0	0	C|0.687;T|0.313	3	2	1	0	0
ERAP2	64167	hgsc.bcm.edu	37	5	96232568	96232568	+	Splice_Site	SNP	G	G	A	rs75364820		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	ERAP2-68	NM_022350	exon9	c.1503+1G>A	.	TCAAATGTAAGTC	.	67	5	43	0	.	0	0	0	0	0
PROB1	389333	hgsc.bcm.edu	37	5	138730037	138730037	+	Missense_Mutation	SNP	T	T	C	rs11748963		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_001161546	exon1	c.A734G	p.Q245R	GCGGCCTGCAGGG	.	32	14	1	0	T|0.632;C|0.368	0	0	0	0	0
ZNF879	345462	broad.mit.edu	37	5	178459426	178459426	+	Missense_Mutation	SNP	A	A	C	rs17078991	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	ZNF879-47	NM_001136116	exon5	c.A477C	p.E159D	TGTTGAATTTGGG	.	251	6	147	0	A|0.634;C|0.365	0	0	0	0	0
FOXQ1	94234	hgsc.bcm.edu	37	6	1313078	1313078	+	Missense_Mutation	SNP	G	G	A	rs78460560		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	FOXQ1-226	NM_033260	exon1	c.G139A	p.A47T	GACTGCGCGGCCA	.	7	7	0	0	G|0.763;A|0.237	0	0	0	0	0
ZKSCAN4	387032	broad.mit.edu	37	6	28213111	28213111	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	ZKSCAN4-91	NM_019110	exon5	c.C1421A	p.T474K	CTTTCCGTCCTAC	.	99	3	104	0	.	1	1	0	0	0
CDSN	1041	bcgsc.ca	37	6	31084639	31084639	+	Silent	SNP	C	C	T	rs4713436	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	CDSN-92	NM_001264	exon2	c.G753A	p.R251R	CACAGGCCTCTGA	.	48	5	72	0	C|0.838;T|0.162	1	0	1	0	0
PEX6	5190	hgsc.bcm.edu	37	6	42946490	42946490	+	Silent	SNP	C	C	A	rs9462858	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	PEX6-91	NM_000287	exon1	c.G399T	p.V133V	TCCGGGCACTGGG	.	17	12	1	0	C|0.673;A|0.327	11	0	11	0	0
KCNQ5	56479	hgsc.bcm.edu	37	6	73332040	73332040	+	Silent	SNP	C	C	G	rs3734212	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	KCNQ5-158	NM_001160132	exon1	c.C123G	p.S41S	GGAGTCCGGCCGG	.	4	4	0	0	C|0.505;G|0.495	0	0	0	0	0
EIF3B	8662	hgsc.bcm.edu	37	7	2394991	2394991	+	Silent	SNP	C	C	T	rs11551167	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	EIF3B-68	NM_001037283	exon1	c.C435T	p.N145N	GGAGAACGGCGAC	.	10	5	0	0	C|0.787;T|0.213	42	21	21	0	0
GARS	2617	hgsc.bcm.edu	37	7	30634661	30634661	+	Missense_Mutation	SNP	C	C	G	rs1049402	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	GARS-91	NM_002047	exon1	c.C124G	p.P42A	TCCTGCCCCCCGA	.	29	29	0	0	C|0.329;G|0.671	23	0	23	0	0
GLI3	2737	hgsc.bcm.edu	37	7	42005678	42005678	+	Missense_Mutation	SNP	G	G	A	rs929387	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	GLI3-1149	NM_000168	exon15	c.C2993T	p.P998L	TGGCCCGGCGCAT	.	9	5	1	0	G|0.565;A|0.435	1	1	0	0	0
PSMC2	5701	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca;mdanderson.org	37	7	102995342	102995342	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	PSMC2-90	NM_001204453	exon3	c.A136C	p.K46Q	CAGATCAAGCAAG	.	71	24	61	0	.	61	33	28	0	0
KCP	375616	hgsc.bcm.edu	37	7	128550681	128550681	+	Splice_Site	DEL	C	C	-	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	KCP-68	NM_001135914	exon2	c.49+1G>-	.	CCAGGGCCCCCGA	.	14	13	0	0	.	0	0	0	0	0
TRIM24	8805	broad.mit.edu	37	7	138252356	138252356	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	TRIM24-1030	NM_015905	exon10	c.A1661C	p.N554T	AGCCAAACCCCCT	.	152	33	95	16	.	32	31	1	0	0
SVOPL	136306	broad.mit.edu	37	7	138363767	138363767	+	Silent	SNP	A	A	G	rs10250576	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	SVOPL-68	NM_001139456	exon1	c.T24C	p.P8P	CGTGACAGGCTCT	.	226	4	170	1	A|0.433;G|0.567	0	0	0	0	0
SSPO	23145	bcgsc.ca	37	7	149522162	149522162	+	Missense_Mutation	SNP	G	G	T	rs62617122	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_198455	exon96	c.G13949T	p.C4650F	GAGGCTGCCGGGA	.	126	7	78	0	G|0.840;T|0.160	0	0	0	0	0
SNTB1	6641	hgsc.bcm.edu	37	8	121824063	121824063	+	Silent	SNP	C	C	A	rs190526297	by1000genomes	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	SNTB1-228	NM_021021	exon1	c.G21T	p.A7A	CGCCGCCGCCGCC	.	5	5	0	0	C|0.937;A|0.063	0	0	0	0	0
FAM83H	286077	hgsc.bcm.edu	37	8	144810138	144810138	+	Missense_Mutation	SNP	G	G	A	rs1137806		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	G	G	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	FAM83H-92	NM_198488	exon5	c.C1493T	p.P498L	AGCTCCGGGAAGC	.	5	5	0	0	G|0.853;A|0.147	1	0	1	0	0
PLEC	5339	hgsc.bcm.edu	37	8	144998169	144998169	+	Silent	SNP	C	C	T	rs1140522	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	PLEC-141	NM_201380	exon31	c.G6339A	p.A2113A	CTCCGCCGCCAGC	.	19	18	0	0	C|0.740;T|0.260	2	0	2	0	0
PLEC	5339	hgsc.bcm.edu	37	8	144998190	144998190	+	Silent	SNP	A	A	G	rs2857829	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	PLEC-141	NM_201380	exon31	c.T6318C	p.A2106A	CCTCGCAGCCTCC	.	27	25	1	0	A|0.738;G|0.262	0	0	0	0	0
PLEC	5339	hgsc.bcm.edu	37	8	144999417	144999417	+	Silent	SNP	C	C	T	rs55836855	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	PLEC-141	NM_201380	exon31	c.G5091A	p.A1697A	CTGCCGCGCTCGC	.	5	5	0	0	C|0.731;T|0.269	0	0	0	0	0
PLEC	5339	hgsc.bcm.edu	37	8	145001784	145001784	+	Silent	SNP	A	A	G	rs3135109	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	A	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	PLEC-141	NM_201380	exon27	c.T3961C	p.L1321L	CAAGCAACTGGGC	.	18	18	0	0	G|0.246;A|0.754	0	0	0	0	0
ZNF517	340385	hgsc.bcm.edu	37	8	146033347	146033347	+	Missense_Mutation	SNP	T	T	C	rs2976653		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	ZNF517-90	NM_213605	exon5	c.T1046C	p.V349A	GCGGCGTGGGGCA	.	17	17	0	0	G|0.992;C|0.006	4	0	4	0	0
DMRT1	1761	hgsc.bcm.edu	37	9	841971	841971	+	Missense_Mutation	SNP	T	T	A	rs3739583	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	T	T	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	DMRT1-515	NM_021951	exon1	c.T133A	p.S45T	AGCGGCTCGAGCG	.	22	21	0	0	T|0.317;A|0.683	0	0	0	0	0
TMEM215	401498	broad.mit.edu	37	9	32784293	32784293	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	TMEM215-90	NM_212558	exon2	c.G112T	p.G38X	ACTTTGGGAAACA	.	113	4	135	0	.	0	0	0	0	0
COL27A1	85301	bcgsc.ca	37	9	116940594	116940594	+	Silent	SNP	A	A	G	rs3810930	byfrequency	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	A	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	COL27A1-94	NM_032888	exon4	c.A1932G	p.L644L	TGGGCTACCTGGA	.	120	6	135	0	A|0.938;G|0.062	1	1	0	0	0
PHKA2	5256	broad.mit.edu;ucsc.edu;bcgsc.ca	37	X	18938279	18938279	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	PHKA2-131	NM_000292	exon18	c.T1834C	p.F612L	TGTAGAACGATGT	.	163	65	125	1	.	5	5	0	0	0
LOC100873065	0	broad.mit.edu	37	X	23020626	23020629	+	RNA	DEL	GAGT	GAGT	-	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	.	.	.	.	ATGAGAGAGTGAG	.	433	7	262	0	.	0	0	0	0	0
FAM47C	442444	broad.mit.edu	37	X	37027466	37027466	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	FAM47C-111	NM_001013736	exon1	c.C983A	p.S328Y	GAGTGTCCCATCT	.	119	3	88	0	.	0	0	0	0	0
CELSR2	1952	hgsc.bcm.edu	37	1	109792735	109792736	+	In_Frame_Ins	INS	-	-	CGC	rs144034706		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	CELSR2-526	NM_001408	exon1	c.34_35insCGC	p.T12delinsTP	CTCCCAACGCCGC	.	12	12	0	0	-|0.389;CGC|0.611	0	0	0	0	0
KCNN3	3782	broad.mit.edu	37	1	154842199	154842200	+	In_Frame_Ins	INS	-	-	GCTGCTGCTGCT	rs3831942	alternate_allele	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	KCNN3-91	NM_001204087	exon1	c.242_243insAGCAGCAGCAGC	p.P81delinsQQQQP	TGCGGTGGCTGCT	.	53	16	57	0	.	0	0	0	0	0
NCOR2	9612	broad.mit.edu	37	12	124824721	124824722	+	In_Frame_Ins	INS	-	-	GCCGCTGCT	rs143952466	bycluster;by1000genomes	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10			-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	NCOR2-229	NM_006312	exon39	c.5518_5519insAGCAGCGGC	p.G1840delinsSSGG	CACCCCCGCCGCT	.	47	21	6	0	.	0	0	0	0	0
KIAA1211	57482	hgsc.bcm.edu	37	4	57180576	57180577	+	In_Frame_Ins	INS	-	-	GGAGCGGAG	rs138358443	by1000genomes	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	KIAA1211-70	NM_020722	exon8	c.908_909insGGAGCGGAG	p.A303delinsAERR	AGGACGCGGAGCG	.	126	33	17	0	.	0	0	0	0	0
PODXL	5420	hgsc.bcm.edu	37	7	131241029	131241030	+	In_Frame_Ins	INS	-	-	GGCGAC	rs11277659		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	PODXL-136	NM_005397	exon1	c.90_91insGTCGCC	p.P30delinsPSP	CTGGGAGGGCGAC	.	44	23	2	0	.	0	0	0	0	0
LURAP1L	286343	bcgsc.ca	37	9	12775861	12775862	+	In_Frame_Ins	INS	-	-	GGCGGCGGC	rs139315731	bycluster;by1000genomes	TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_203403	exon1	c.147_148insGGCGGCGGC	p.G49delinsGGGG	TGGTGGTGGCGGC	.	50	22	38	0	.	0	0	0	0	0
SPATA31C1	441452	hgsc.bcm.edu	37	9	90534192	90534193	+	In_Frame_Ins	INS	-	-	TCTTGTCTCCCAGCGTCA	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	-	-	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	.	NM_001145124	exon2	c.212_213insTCTTGTCTCCCAGCGTCA	p.H71delinsHLVSQRH	AGCGTCATCTTGT	.	261	0	379	0	.	0	0	0	0	0
KNDC1	85442	hgsc.bcm.edu	37	10	135012429	135012430	+	Missense_Mutation	DNP	TT	TT	AC	novel		TCGA-OR-A5LH-01A-11D-A29I-10	TCGA-OR-A5LH-10A-01D-A29L-10	TT	TT	-	-	-	-	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina GAIIx	249e8468-e4e0-47ae-ad6e-ed43feac2004	8e5e2764-3193-4937-a8cf-d72cbf9b6353	.	KNDC1-229	NM_152643	exon14	c.T2418C	p.V806D	TGGAGTTGCTTCC	.	9	0	1	0	T|0.470;C|0.530	0	0	0	0	0