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	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	6204188	6204188	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	CHD5-719	NM_015557	exon12	c.C1830T	p.Y610Y	GATCAGGTAGTGC	.	169	82	187	0	.	0	0	0	0	0
PTCHD2	57540	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	11562884	11562884	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PTCHD2-209	NM_020780	exon3	c.G1246T	p.E416X	CGCTGGGAGGAAC	.	80	8	87	1	.	0	0	0	0	0
ARID1A	8289	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	27057775	27057775	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ARID1A-584	NM_006015	exon3	c.C1483T	p.H495Y	ACCCCTCATGCCC	.	446	61	443	0	.	83	73	10	0	0
C1orf177	163747	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	55272686	55272686	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	C1orf177-90	NM_001110533	exon2	c.T122C	p.V41A	CTGCTGTTTATCC	.	240	97	304	0	.	0	0	0	0	0
L1TD1	54596	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	62672679	62672679	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	L1TD1-92	NM_001164835	exon4	c.G379C	p.G127R	AAAATAGGTGATG	.	96	46	118	0	.	0	0	0	0	0
VANGL1	81839	broad.mit.edu;bcgsc.ca	37	1	116202267	116202267	+	Missense_Mutation	SNP	G	G	C	rs143990097	alternate_allele	TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	VANGL1-226	NM_001172412	exon3	c.G77C	p.R26T	GGGAAAGAACTAG	.	190	8	186	0	G|1.000;A|0.000	0	0	0	0	0
NTRK1	4914	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	156849153	156849153	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	NTRK1-1393	NM_002529	exon15	c.G2045A	p.R682H	ATTACCGTGTAAG	.	79	42	74	0	.	0	0	0	0	0
GLRX2	51022	hgsc.bcm.edu;bcgsc.ca	37	1	193074704	193074704	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	GLRX2-186	NM_016066	exon1	c.C65T	p.A22V	GCGAGTGCCACCC	.	31	14	33	0	.	0	0	0	0	0
NEK7	140609	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	198266319	198266319	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	NEK7-358	NM_133494	exon9	c.G747C	p.K249N	TAAGAAGATAGAA	.	188	84	206	0	.	25	22	3	0	0
SPAG6	9576	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	22676767	22676767	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SPAG6-153	NM_172242	exon6	c.G694T	p.A232S	CTTTCAGCTCTCA	.	80	27	129	0	.	0	0	0	0	0
PIP4K2A	5305	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	10	23003187	23003187	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PIP4K2A-665	NM_005028	exon1	c.C69T	p.F23F	CGCTACGAAGTGC	.	48	23	63	0	.	20	8	12	0	0
ZNF485	220992	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	44112496	44112496	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ZNF485-90	NM_145312	exon5	c.C1005T	p.F335F	ATCTTTCAGGTAT	.	119	46	145	0	.	2	1	1	0	0
PCDH15	65217	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	55583106	55583106	+	Silent	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PCDH15-193	NM_001142763	exon35	c.C4401G	p.L1467L	ATGGTAGAGAAGG	.	79	12	104	0	.	0	0	0	0	0
AGAP5	729092	broad.mit.edu	37	10	75457454	75457454	+	Silent	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	AGAP5-68	NM_001144000	exon1	c.A60G	p.Q20Q	CCCCTGTTGCTGG	.	89	5	91	0	.	23	5	18	0	0
DLG5	9231	broad.mit.edu;bcgsc.ca	37	10	79686110	79686110	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	DLG5-98	NM_004747	exon1	c.C169T	p.L57F	GCTTGAGCAGCAG	.	11	4	25	0	.	15	5	10	0	0
RPS24	6229	hgsc.bcm.edu;broad.mit.edu	37	10	79796974	79796974	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	RPS24-91	NM_001142283	exon4	c.A302G	p.K101R	AGAAAAAGACCTC	.	17	3	12	0	.	2745	2743	1	0	1
FAM178A	55719	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	102683799	102683799	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	.	NM_001136123	exon5	c.C1041T	p.S347S	GAAAAGCACAAGA	.	50	22	76	0	.	12	8	4	0	0
NFKB2	4791	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	104161522	104161522	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	NFKB2-522	NM_001077494	exon21	c.G2314C	p.D772H	CTTGGTGATACAG	.	43	9	37	0	.	88	81	7	0	0
BRSK2	9024	broad.mit.edu	37	11	1466527	1466527	+	Silent	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	BRSK2-333	NM_001256630	exon10	c.G954C	p.G318G	CAGAGGGGGCAAG	.	13	4	10	0	.	0	0	0	0	0
OR52J3	119679	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	5068082	5068082	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	OR52J3-71	NM_001001916	exon1	c.C327T	p.F109F	TGCCTTCACTGGC	.	93	12	65	1	.	0	0	0	0	0
OR51B6	390058	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	5373545	5373545	+	Missense_Mutation	SNP	G	G	T	rs138981931	alternate_allele	TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	OR51B6-70	NM_001004750	exon1	c.G808T	p.V270F	CATGTCGTTCACA	.	195	83	220	0	G|1.000;A|0.000	0	0	0	0	0
TUB	7275	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	8120419	8120419	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	TUB-91	NM_003320	exon10	c.C1278G	p.C426W	TGTGTGCTACGTG	.	101	37	99	0	.	0	0	0	0	0
ELP4	26610	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	31561263	31561263	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ELP4-948	NM_019040	exon3	c.A314G	p.E105G	TGGCAGAAGGAAT	.	211	85	271	1	.	22	13	9	0	0
OR4A16	81327	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	55111508	55111508	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	OR4A16-69	NM_001005274	exon1	c.C832A	p.L278I	ATCACACTCATGT	.	93	28	87	0	.	0	0	0	0	0
BSCL2	26580	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	62458109	62458109	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	BSCL2-514	NM_001122955	exon10	c.G1209A	p.E403E	TAGCTCCTCTTCT	.	161	72	180	1	.	176	89	86	1	0
NANOG	79923	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	7942255	7942255	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	NANOG-90	NM_024865	exon1	c.A45C	p.E15D	CTTTGAAGCATCC	.	190	30	214	0	.	0	0	0	0	0
MAGOHB	55110	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	12	10766047	10766047	+	Silent	SNP	G	G	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	MAGOHB-153	NM_018048	exon1	c.C85A	p.R29R	CCGGCCGAAATTC	.	110	9	96	0	.	3	3	0	0	0
CIT	11113	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	120173153	120173153	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	CIT-399	NM_001206999	exon25	c.G2968A	p.D990N	CCAGGTCTGTGAT	.	110	43	108	0	.	0	0	0	0	0
OASL	8638	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	121465530	121465530	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	OASL-69	NM_003733	exon4	c.G748T	p.E250X	CGTCTTCTTCAGT	.	73	26	84	0	.	2	2	0	0	0
C14orf93	60686	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	23467861	23467861	+	Silent	SNP	A	A	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	C14orf93-91	NM_021944	exon2	c.T372G	p.P124P	AGGCCCAGGCTCC	.	53	23	98	0	.	33	20	13	0	0
SOS2	6655	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	50605361	50605361	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SOS2-849	NM_006939	exon18	c.C2927T	p.P976L	CAGTAAGGCTGAT	.	110	46	161	0	.	35	12	23	0	0
FBXO34	55030	broad.mit.edu	37	14	55818482	55818482	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	FBXO34-228	NM_017943	exon2	c.C1374T	p.I458I	TAGTATCACTGTG	.	174	4	229	0	.	88	86	2	0	0
AK7	122481	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	96917831	96917831	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	AK7-228	NM_152327	exon10	c.G1022A	p.R341Q	ATATTCGATGGGC	.	78	29	78	0	.	7	2	5	0	0
ARHGAP11A	9824	broad.mit.edu;bcgsc.ca	37	15	32929514	32929514	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ARHGAP11A-292	NM_014783	exon12	c.C2540T	p.S847F	TTAATTCTTTGTT	.	145	6	154	0	.	0	0	0	0	0
MAP2K5	5607	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	15	67956981	67956981	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	MAP2K5-546	NM_145160	exon13	c.G845C	p.R282T	TACATAGAGGTAT	.	93	8	105	0	.	0	0	0	0	0
AGBL1	123624	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	87217502	87217502	+	Splice_Site	SNP	A	A	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	.	NM_152336	exon22	c.2920-2A>G	.	ACTGGCAGGGTCT	.	18	8	16	0	.	0	0	0	0	0
SRRM2	23524	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	2816146	2816146	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SRRM2-93	NM_016333	exon11	c.C5617G	p.H1873D	GCCACTCACCGGC	.	73	22	88	0	.	242	145	97	0	0
SRRM2	23524	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	2818196	2818196	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SRRM2-93	NM_016333	exon11	c.C7667G	p.S2556C	CCTCCTCTGGCTC	.	42	15	44	0	.	124	76	48	0	0
LONP2	83752	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	48385617	48385617	+	Silent	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	LONP2-90	NM_031490	exon15	c.T2463C	p.F821F	AAGTTTTGTCACA	.	89	34	100	0	.	59	27	32	0	0
HP	3240	hgsc.bcm.edu	37	16	72094682	72094682	+	Missense_Mutation	SNP	A	A	G	rs470428		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	HP-22	NM_005143	exon7	c.A1114G	p.T372A	TATGCGACTGGGA	.	96	21	165	0	T|0.840;C|0.001	0	0	0	0	0
HPR	3250	hgsc.bcm.edu	37	16	72110800	72110800	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	HPR-515	NM_020995	exon5	c.G867A	p.Q289Q	GTACCAGGAAGAC	.	123	7	108	1	.	0	0	0	0	0
ZFHX3	463	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	72828734	72828734	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ZFHX3-72	NM_006885	exon9	c.G7847A	p.R2616K	AGCTTCCTCTTGA	.	461	188	533	1	.	6	4	2	0	0
GEMIN4	50628	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	649344	649344	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	GEMIN4-206	NM_015721	exon2	c.G1939C	p.E647Q	CTGGCTCAAGAAG	.	84	10	82	0	.	19	12	7	0	0
ADPRM	56985	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	10608559	10608559	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	.	NM_020233	exon2	c.C316T	p.H106Y	GTTCATCATACAT	.	115	18	106	0	.	10	10	0	0	0
TVP23C	201158	ucsc.edu	37	17	15457087	15457087	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	.	NM_145301	exon3	c.G152A	p.C51Y	AGAAGACAGACGA	.	465	69	490	85	.	76	25	51	0	0
MYO18A	399687	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	27430634	27430634	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	MYO18A-22	NM_078471	exon21	c.T3490A	p.C1164S	CCATGCAGCAGCT	.	32	16	61	0	.	28	16	12	0	0
KCNJ16	3773	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	68129360	68129360	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	KCNJ16-516	NM_001270422	exon6	c.G1132A	p.A378T	GCAGTTGCCATTG	.	84	43	80	0	.	162	68	94	0	0
FOXK2	3607	broad.mit.edu	37	17	80525990	80525990	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	FOXK2-226	NM_004514	exon3	c.C675T	p.G225G	GGTGGGCCGAGTG	.	47	3	53	0	.	39	39	0	0	0
YES1	7525	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	18	756694	756694	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	YES1-547	NM_005433	exon2	c.C134T	p.S45F	GCTGAAGATGACG	.	235	33	289	0	.	64	55	9	0	0
TRAPPC8	22878	broad.mit.edu	37	18	29496396	29496396	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	TRAPPC8-159	NM_014939	exon4	c.G456A	p.A152A	AGATGACGCTACC	.	55	3	59	0	.	0	0	0	0	0
MUC16	94025	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	19	9087506	9087506	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	MUC16-566	NM_024690	exon1	c.G4309A	p.D1437N	GGACATCAGAAGT	.	149	12	130	0	.	0	0	0	0	0
ECSIT	51295	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	11618829	11618829	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ECSIT-91	NM_001142464	exon5	c.A773G	p.D258G	GGGGGATCTGCTG	.	117	39	105	0	.	87	49	38	0	0
ZNF844	284391	broad.mit.edu	37	19	12187704	12187704	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	.	NM_001136501	exon4	c.G1769A	p.S590N	TAAAGAGTGTGAC	.	6	3	8	0	.	14	8	6	0	0
HOOK2	29911	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	19	12875721	12875721	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	HOOK2-92	NM_013312	exon20	c.G1734A	p.R578R	CTCGATCCGCCGG	.	145	9	108	0	.	1	1	0	0	0
NOTCH3	4854	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	15288375	15288375	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	NOTCH3-855	NM_000435	exon24	c.A4364G	p.N1455S	TCGAAGTTGTCGT	.	15	4	28	0	.	581	306	275	0	0
UNC13A	23025	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	17750273	17750273	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	UNC13A-25	NM_001080421	exon23	c.T2918A	p.L973H	CTGGTGAGAAGGT	.	32	8	40	0	.	0	0	0	0	0
ZNF85	7639	broad.mit.edu	37	19	21131687	21131687	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ZNF85-514	NM_001256171	exon5	c.G457C	p.E153Q	ATGGATGAGTGTA	.	80	3	82	0	.	5	5	0	0	0
CYP2A13	1553	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	41596079	41596079	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	CYP2A13-93	NM_000766	exon3	c.C471G	p.I157M	CCTCATCGACGCC	.	75	46	76	0	.	0	0	0	0	0
DMWD	1762	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	19	46289265	46289265	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	DMWD-90	NM_004943	exon3	c.C1489T	p.P497S	GGTGCGGGAGACT	.	19	7	25	0	.	36	20	16	0	0
HRC	3270	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	49658341	49658341	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	HRC-91	NM_002152	exon1	c.G154A	p.E52K	ATGCCTCCTCGGA	.	173	24	187	0	.	0	0	0	0	0
FPR2	2358	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	52272650	52272650	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	FPR2-501	NM_001005738	exon2	c.G739C	p.V247L	GCTGTGGTGGCTT	.	63	28	81	0	.	0	0	0	0	0
LAIR2	3904	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	55019129	55019129	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	LAIR2-91	NM_002288	exon3	c.T94A	p.S32T	TCCATCTCGGCTG	.	222	79	259	0	.	18	18	0	0	0
ZNF417	147687	broad.mit.edu	37	19	58420138	58420138	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ZNF417-90	NM_152475	exon3	c.C1508G	p.S503C	GAGCTGGAAAGAA	.	179	4	195	0	.	12	12	0	0	0
GDF7	151449	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	20871056	20871056	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	GDF7-226	NM_182828	exon2	c.C1224T	p.D408D	ACCAGACGCGGCG	.	15	11	39	0	.	2	0	2	0	0
AUP1	550	hgsc.bcm.edu	37	2	74756587	74756587	+	Silent	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	AUP1-90	NM_181575	exon2	c.C90G	p.L30L	CGCGTAGAGCAGC	.	10	6	5	0	.	211	124	87	0	0
HOXD8	3234	hgsc.bcm.edu	37	2	176995295	176995295	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	HOXD8-90	NM_001199746	exon1	c.G201C	p.Q67H	CCCGCAGGCGCAC	.	6	3	2	1	.	0	0	0	0	0
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	179401833	179401833	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	TTN-636	NM_001267550	exon356	c.G100003A	p.E33335K	CCCCCTCCTTGGC	.	79	15	27	0	.	0	0	0	0	0
TTN	7273	hgsc.bcm.edu;broad.mit.edu	37	2	179452053	179452053	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	TTN-636	NM_001267550	exon307	c.G63885A	p.G21295G	TTGGCTCCCACCG	.	92	6	29	0	.	0	0	0	0	0
TTN	7273	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	179458757	179458757	+	Missense_Mutation	SNP	C	C	T	rs191927501		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	TTN-636	NM_001267550	exon297	c.G58363A	p.G19455S	ATTTGCCGGAATC	.	424	62	150	0	C|0.999;T|0.000	0	0	0	0	0
FSIP2	401024	broad.mit.edu	37	2	186671552	186671552	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	FSIP2-90	NM_173651	exon17	c.C17786G	p.S5929X	AGTTCTCAGATGC	.	188	3	88	0	.	0	0	0	0	0
CPO	130749	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	207833968	207833968	+	Silent	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	CPO-154	NM_173077	exon9	c.G933C	p.L311L	TGAGCTGAGGGAC	.	81	36	89	0	.	0	0	0	0	0
ABCA12	26154	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	215840568	215840568	+	Silent	SNP	A	A	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ABCA12-99	NM_173076	exon34	c.T5322C	p.Y1774Y	CTCTGGATAACTG	.	87	31	130	0	.	6	3	3	0	0
PROCR	10544	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	20	33762617	33762617	+	Silent	SNP	A	A	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PROCR-226	NM_006404	exon2	c.A183T	p.P61P	AGGCCCAGACACC	.	75	30	63	0	.	42	18	24	0	0
SLC13A3	64849	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	20	45204227	45204227	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SLC13A3-91	NM_022829	exon10	c.G1317T	p.M439I	TTTGGCCATGGCG	.	17	7	25	0	.	4	2	2	0	0
ZNF831	128611	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	20	57766279	57766279	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ZNF831-126	NM_178457	exon1	c.G205A	p.G69R	CCTCCCGGGGGCC	.	25	11	29	0	.	0	0	0	0	0
LIPI	149998	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	21	15554081	15554081	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	LIPI-70	NM_198996	exon4	c.A704G	p.N235S	TTACCATTGGAGT	.	45	22	42	0	.	0	0	0	0	0
DEPDC5	9681	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	22	32301997	32301997	+	Silent	SNP	T	T	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	DEPDC5-519	NM_001242896	exon42	c.T4464G	p.S1488S	ATATTCTGCCTCT	.	39	20	61	0	.	6	3	3	0	0
TMPPE	643853	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	33135655	33135655	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	TMPPE-90	NM_001039770	exon2	c.G33A	p.A11A	GGCCTTCGCGCCT	.	82	8	91	0	.	1	1	0	0	0
CTNNB1	1499	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	41274905	41274905	+	Silent	SNP	C	C	T	rs74692094	alternate_allele	TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	CTNNB1-24361	NM_001098209	exon8	c.C1155T	p.L385L	GACTCTCAGGAAT	.	126	47	103	0	C|0.999;A|0.001	349	201	148	0	0
RAD54L2	23132	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	51697406	51697406	+	Silent	SNP	C	C	T	rs192987707		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	RAD54L2-93	NM_015106	exon22	c.C4374T	p.D1458D	TAAAGACGATGAT	.	54	24	48	0	C|0.999;T|0.001	9	7	2	0	0
TMF1	7110	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	69101211	69101211	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	TMF1-90	NM_007114	exon1	c.C27T	p.L9L	GCTGGAGAGCTGG	.	133	57	129	0	.	37	23	14	0	0
MAPK10	5602	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	86950416	86950416	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	MAPK10-1402	NM_002753	exon13	c.A1186G	p.K396E	CTTCCTTGTAGAT	.	79	41	110	0	.	0	0	0	0	0
LRBA	987	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	151827110	151827110	+	Silent	SNP	A	A	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	LRBA-157	NM_006726	exon13	c.T1635A	p.L545L	AAGTTCAAGTACT	.	82	37	76	0	.	20	10	10	0	0
HMGB2	3148	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	174254775	174254775	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	HMGB2-650	NM_001130689	exon1	c.C26T	p.P9L	CCCCGCGGCTTGT	.	87	43	99	0	.	71	41	30	0	0
EXOC3	11336	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	446365	446365	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	EXOC3-90	NM_007277	exon2	c.G45A	p.R15R	GCAAAGGGTTGCT	.	100	45	97	1	.	82	36	46	0	0
SLC45A2	51151	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	5	33984558	33984558	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SLC45A2-93	NM_016180	exon1	c.G131A	p.G44E	TCTCTTCCGAACA	.	32	12	33	1	.	0	0	0	0	0
PRLR	5618	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	35070231	35070231	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PRLR-93	NM_000949	exon7	c.C680G	p.P227R	CCACTAGGTATCT	.	49	19	66	0	.	0	0	0	0	0
SEPP1	6414	broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	42801313	42801313	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SEPP1-68	.	.	.	.	TGCTGCCAAGGTG	.	108	44	132	0	.	228	148	80	0	0
GCNT4	51301	broad.mit.edu	37	5	74325475	74325475	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	GCNT4-93	NM_016591	exon1	c.A388G	p.S130G	GGAAGCTTTTCTC	.	248	5	209	0	.	5	5	0	0	0
SPOCK1	6695	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	136328174	136328174	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SPOCK1-91	NM_004598	exon7	c.C705T	p.G235G	CTTACTGCCTTGG	.	122	48	163	0	.	0	0	0	0	0
KDM3B	51780	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	137715373	137715373	+	Silent	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	KDM3B-542	NM_016604	exon5	c.T681C	p.R227R	CACTCGTCTTATG	.	103	37	105	0	.	52	26	26	0	0
PSD2	84249	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	139197069	139197069	+	Silent	SNP	C	C	T	rs142589356		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PSD2-91	NM_032289	exon5	c.C1020T	p.N340N	CAGCAACGAGTTT	.	62	21	68	0	C|1.000;T|0.000	0	0	0	0	0
PCDHB15	56121	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	5	140625417	140625417	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PCDHB15-156	NM_018935	exon1	c.G271C	p.D91H	AAGCTGGACCGGG	.	99	8	127	0	.	3	3	0	0	0
FAT2	2196	broad.mit.edu	37	5	150892049	150892049	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	FAT2-96	NM_001447	exon20	c.A11582G	p.D3861G	GAAGCGTCCATCT	.	89	4	95	0	.	0	0	0	0	0
RPL26L1	51121	hgsc.bcm.edu;broad.mit.edu	37	5	172396527	172396527	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	RPL26L1-90	NM_016093	exon4	c.G421A	p.E141K	CTTATTGAGAAAA	.	114	8	127	0	.	79	70	9	0	0
F13A1	2162	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	6196094	6196094	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	F13A1-519	NM_000129	exon10	c.C1241T	p.S414L	TGAACCGAGGCGG	.	37	10	37	0	.	13	13	0	0	0
HMGA1	3159	broad.mit.edu	37	6	34210572	34210572	+	Silent	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	HMGA1-650	NM_145901	exon3	c.G219A	p.R73R	GACCCGGGTGAGA	.	12	3	12	0	.	0	0	0	0	0
GFRAL	389400	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	55223928	55223928	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	GFRAL-154	NM_207410	exon6	c.C944T	p.S315L	GAAAATCATGTTT	.	85	9	88	0	.	0	0	0	0	0
AIM1	202	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	106968949	106968949	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	AIM1-139	NM_001624	exon2	c.A2642T	p.E881V	CGACTGAGGGTGC	.	142	62	127	0	.	15	7	8	0	0
LAMA4	3910	broad.mit.edu	37	6	112457351	112457351	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	LAMA4-140	NM_001105206	exon25	c.C3388T	p.Q1130X	TAATTTGAGCTTT	.	81	4	87	0	.	43	43	0	0	0
CTGF	1490	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	132271489	132271489	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	CTGF-90	NM_001901	exon3	c.G484A	p.E162K	ACTCCTCGCAGCA	.	185	79	170	0	.	88	42	46	0	0
SASH1	23328	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	148808752	148808752	+	Silent	SNP	C	C	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SASH1-90	NM_015278	exon8	c.C630G	p.L210L	ACAGCTCAAGGAA	.	194	68	221	0	.	0	0	0	0	0
RMND1	55005	ucsc.edu	37	6	151751272	151751272	+	Splice_Site	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	RMND1-90	NM_017909	exon6	c.729+1G>A	.	CACTTACAGTTTT	.	100	1	102	0	.	0	0	0	0	0
TNRC18	84629	hgsc.bcm.edu;broad.mit.edu	37	7	5352384	5352384	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	TNRC18-46	NM_001080495	exon27	c.C8138T	p.S2713L	TGGGCCGAGGGCC	.	38	7	39	0	.	49	31	18	0	0
TNS3	64759	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	47440438	47440438	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	TNS3-94	NM_022748	exon14	c.C797T	p.A266V	TGCACAGCCCCAG	.	92	38	95	0	.	52	25	27	0	0
POM121	9883	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	72412723	72412723	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	POM121-226	NM_172020	exon11	c.A1396G	p.I466V	AAGCCCATTTTCA	.	87	30	99	0	.	126	98	27	1	0
POM121	9883	hgsc.bcm.edu	37	7	72413896	72413896	+	Missense_Mutation	SNP	A	A	G	rs71554689		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	POM121-226	NM_172020	exon11	c.A2569G	p.T857A	TCCAGCACCACCA	.	35	2	36	0	A|0.500;G|0.500	113	54	59	0	0
GATAD1	57798	broad.mit.edu	37	7	92078080	92078080	+	Silent	SNP	T	T	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	GATAD1-514	NM_021167	exon2	c.T264A	p.I88I	GGAAATTCACAGG	.	161	4	139	0	.	37	35	2	0	0
PPP1R9A	55607	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	94915545	94915545	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PPP1R9A-208	NM_001166160	exon18	c.C3637A	p.P1213T	TTCAGTCCCAGCA	.	64	23	55	0	.	35	16	19	0	0
SLC35G5	83650	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	8	11188670	11188670	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	.	NM_054028	exon1	c.C55T	p.P19S	TCGCCGCCCTCCG	.	72	28	82	0	.	0	0	0	0	0
ANK1	286	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	8	41577342	41577342	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ANK1-716	NM_001142446	exon10	c.G1043A	p.G348E	TGGTCTCCCTGAG	.	142	57	157	0	.	13	6	7	0	0
GDAP1	54332	broad.mit.edu	37	8	75263599	75263599	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	GDAP1-90	NM_018972	exon2	c.C208T	p.R70C	TTTATGCGTTTGA	.	324	5	266	0	.	30	30	0	0	0
SPIN1	10927	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	9	91083448	91083448	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SPIN1-44	NM_006717	exon5	c.G517C	p.D173H	GAGAAAGACCCTG	.	132	11	173	0	.	84	71	13	0	0
RXRA	6256	ucsc.edu	37	9	137300036	137300036	+	Silent	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	RXRA-188	NM_002957	exon3	c.C321T	p.I107I	GGACATCAAGCCC	.	42	2	51	0	.	13	12	1	0	0
LCN1	3933	broad.mit.edu	37	9	138415819	138415819	+	Missense_Mutation	SNP	G	G	A	rs199573452		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	LCN1-90	NM_001252617	exon4	c.G386A	p.R129Q	CGGTCCGAGGGGT	.	50	4	69	0	G|0.999;A|0.001	0	0	0	0	0
GPKOW	27238	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	X	48979068	48979068	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	GPKOW-132	NM_015698	exon2	c.C235T	p.R79C	GCCTGCGATGGCC	.	35	17	24	0	.	36	35	1	0	0
ESX1	80712	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	X	103499100	103499100	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ESX1-131	NM_153448	exon2	c.G241A	p.E81K	CCGGCTCGTGGCC	.	274	33	283	0	.	0	0	0	0	0
AMOT	154796	hgsc.bcm.edu	37	X	112022638	112022638	+	Missense_Mutation	SNP	A	A	G	rs201619225		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	AMOT-131	NM_001113490	exon10	c.T2744C	p.V915A	GCAGCAACAGCAA	.	5	2	10	0	.	0	0	0	0	0
AMOT	154796	hgsc.bcm.edu;broad.mit.edu	37	X	112022644	112022644	+	Missense_Mutation	SNP	A	A	G	rs200107563		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	AMOT-131	NM_001113490	exon10	c.T2738C	p.V913A	ACAGCAACTGGAG	.	5	2	10	0	.	0	0	0	0	0
GLUD2	2747	ucsc.edu	37	X	120182123	120182123	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	GLUD2-131	NM_012084	exon1	c.A585T	p.E195D	TACCGAAAATGAA	.	248	1	242	0	.	7	7	0	0	0
HS6ST2	90161	hgsc.bcm.edu;broad.mit.edu	37	X	132091225	132091225	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	HS6ST2-130	NM_001077188	exon3	c.C558G	p.F186L	GGAGCTGAACGCC	.	51	4	45	0	.	10	10	0	0	0
F8	2157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	X	154130375	154130375	+	Silent	SNP	G	G	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	F8-182	NM_000132	exon19	c.C6066A	p.G2022G	ATGCTCGCCAATA	.	126	65	122	1	.	8	8	0	0	0
POMGNT1	55624	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	46662703	46662704	+	Frame_Shift_Del	DEL	GA	GA	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	GA	GA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	POMGNT1-91	NM_017739	exon3	c.173_174del	p.58_58del	.	.	257	97	312	0	.	0	0	0	0	0
RAB6A	5870	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	73418504	73418504	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	RAB6A-227	NM_002869	exon6	c.456delT	p.F152fs	.	.	121	51	184	0	.	0	0	0	0	0
USP28	57646	hgsc.bcm.edu	37	11	113679119	113679119	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	USP28-706	NM_020886	exon18	c.2205delG	p.S735fs	.	.	143	39	122	0	.	0	0	0	0	0
MLL2	8085	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	12	49434210	49434210	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	MLL2-612	NM_003482	exon31	c.7343delA	p.D2448fs	.	.	76	31	76	0	.	0	0	0	0	0
DSC3	1825	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	18	28576918	28576918	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	DSC3-94	NM_024423	exon15	c.2332delA	p.T778fs	.	.	60	22	62	0	.	0	0	0	0	0
PCSK4	54760	broad.mit.edu	37	19	1489873	1489873	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PCSK4-90	NM_017573	exon2	c.213delT	p.F71fs	CAGGTGAAAGTAC	.	16	7	22	0	.	0	0	0	0	0
NAPSA	9476	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	19	50862007	50862007	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	NAPSA-90	NM_004851	exon9	c.1066delT	p.S356fs	.	.	22	11	31	0	.	0	0	0	0	0
DIDO1	11083	broad.mit.edu	37	20	61510808	61510808	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	DIDO1-96	NM_001193369	exon16	c.6500delA	p.K2167fs	CACTCCTTGCCCC	.	9	4	10	0	.	0	0	0	0	0
TENM3	55714	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	4	183664509	183664515	+	Frame_Shift_Del	DEL	GCGATTT	GCGATTT	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	GCGATTT	GCGATTT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	.	NM_001080477	exon18	c.3566_3572del	p.1189_1191del	.	.	70	19	112	0	.	0	0	0	0	0
SLC23A1	9963	hgsc.bcm.edu	37	5	138715041	138715067	+	In_Frame_Del	DEL	GACCTGTGCTCGGAGGGAGACAGGATG	GACCTGTGCTCGGAGGGAGACAGGATG	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	GACCTGTGCTCGGAGGGAGACAGGATG	GACCTGTGCTCGGAGGGAGACAGGATG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	SLC23A1-90	NM_152685	exon9	c.938_940del	p.313_314del	.	.	32	11	46	0	.	0	0	0	0	0
ZNF318	24149	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	6	43320114	43320114	+	Splice_Site	DEL	C	C	-	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	ZNF318-157	NM_014345	exon6	c.2770+1G>-	.	.	.	68	30	66	0	.	0	0	0	0	0
USP28	57646	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	113679118	113679119	+	Frame_Shift_Ins	INS	-	-	TG	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	USP28-706	NM_020886	exon18	c.2206_2207insCA	p.S736fs	.	.	142	54	122	0	.	0	0	0	0	0
PLXNB2	23654	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	22	50719301	50719302	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	PLXNB2-211	NM_012401	exon24	c.3865_3866insA	p.S1289fs	.	.	42	13	52	0	.	0	0	0	0	0
ASIC5	51802	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	4	156763435	156763436	+	Missense_Mutation	DNP	GC	GC	AT	novel		TCGA-BQ-5878-01A-11D-1589-08	TCGA-BQ-5878-11A-01D-1589-08	GC	GC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	01600b4b-cddc-41a5-b541-326677217bc2	0d002eab-1f4e-4846-b2cc-25aae886715d	.	.		exon6	c.G932A	p.S311N	GAAGTGCTGTAGC	.	112.0	64.0	104.0	0.0	.	0	0	0	0	0