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
CCDC27	148870	hgsc.bcm.edu	37	1	3679839	3679839	+	Silent	SNP	A	A	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	CCDC27-91	NM_152492	exon7	c.A1122G	p.E374E	GGAGGAAGAGGAG	.	36	2	19	0	.	0	0	0	0	0
KIF1B	23095	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	10342493	10342493	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	KIF1B-93	NM_183416	exon13	c.T1198A	p.C400S	TCTTCCTGCTCAC	.	144	24	183	1	.	0	0	0	0	0
SCMH1	22955	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	41503104	41503104	+	Silent	SNP	G	G	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SCMH1-90	NM_001172219	exon13	c.C1608T	p.H536H	GGGCCGGTGCCTT	.	181	24	225	0	.	64	37	27	0	0
INADL	10207	hgsc.bcm.edu	37	1	62516665	62516665	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	INADL-94	NM_176877	exon31	c.A4060G	p.S1354G	ATTAGTAGTGAGG	.	39	2	90	0	.	13	13	0	0	0
PTGFR	5737	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	78959187	78959187	+	Silent	SNP	G	G	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PTGFR-527	NM_000959	exon2	c.G759A	p.A253A	CCTGGCGATAATG	.	127	17	153	0	.	0	0	0	0	0
AGL	178	broad.mit.edu	37	1	100346330	100346330	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	AGL-92	NM_000644	exon14	c.T1878A	p.H626Q	TACGCATGATAAT	.	68	4	377	0	.	1	1	0	0	0
LRIG2	9860	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	113657326	113657326	+	Silent	SNP	C	C	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	LRIG2-229	NM_014813	exon15	c.C2358A	p.S786S	TTCATCCCCCAAT	.	111	15	298	1	.	3	2	1	0	0
PEX19	5824	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	160253370	160253370	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PEX19-90	NM_002857	exon2	c.G130A	p.A44T	CAGGGGCCGTGGT	.	200	27	186	0	.	70	30	40	0	0
TMEM183B	653659	hgsc.bcm.edu	37	1	202976622	202976622	+	Missense_Mutation	SNP	G	G	T	rs199910238		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	.	NM_001079809	exon1	c.G29T	p.R10M	TAGGCAGGCCTCG	.	12	6	3	0	.	14	3	11	0	0
ESRRG	2104	hgsc.bcm.edu	37	1	216680501	216680501	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	ESRRG-187	NM_001243518	exon8	c.A1193C	p.E398A	ACGGCTTCAACAT	.	41	3	244	0	.	0	0	0	0	0
RYR2	6262	broad.mit.edu	37	1	237713899	237713899	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	RYR2-158	NM_001035	exon27	c.G3122A	p.R1041Q	ATGACCGAACCAA	.	18	3	15	0	.	0	0	0	0	0
EPC1	80314	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	10	32560793	32560793	+	Silent	SNP	A	A	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	EPC1-93	NM_025209	exon14	c.T2127C	p.H709H	ACTTGTATGTACA	.	53	5	179	1	.	25	18	7	0	0
CUEDC2	79004	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	104184514	104184514	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	CUEDC2-90	NM_024040	exon3	c.G110A	p.G37E	AGGACCCCAAGCA	.	216	30	106	0	.	118	68	50	0	0
SORCS3	22986	hgsc.bcm.edu	37	10	107022222	107022222	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SORCS3-99	NM_014978	exon26	c.G3577C	p.D1193H	CTGCTGGACAAAG	.	27	2	122	0	.	10	10	0	0	0
HTRA1	5654	broad.mit.edu	37	10	124273765	124273765	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	HTRA1-90	NM_002775	exon9	c.G1333A	p.A445T	GTCTCCGCCAATG	.	397	10	319	0	.	216	216	0	0	0
MUC2	4583	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	1104253	1104253	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	MUC2-90	NM_002457	exon50	c.G8432A	p.G2811E	ATCTGGGGAGCGG	.	111	17	36	0	.	0	0	0	0	0
MRGPRX3	117195	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	18159638	18159638	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	MRGPRX3-92	NM_054031	exon3	c.G889A	p.D297N	CTGCAGGACACGC	.	168	10	132	0	.	0	0	0	0	0
SNX15	29907	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	64802325	64802325	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SNX15-227	NM_147777	exon4	c.T263G	p.F88C	GCCGGTTTGAAGC	.	237	27	123	0	.	0	0	0	0	0
FOLH1B	219595	broad.mit.edu	37	11	89413808	89413808	+	Silent	SNP	A	A	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	FOLH1B-519	NM_153696	exon8	c.A480G	p.P160P	TACACCACTGATG	.	26	6	82	1	.	14	0	14	0	0
BIRC3	330	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	102206814	102206814	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	BIRC3-662	NM_001165	exon7	c.T1442G	p.V481G	ATGATGTTATTAA	.	63	12	243	0	.	621	308	313	0	0
CASP1	834	broad.mit.edu;ucsc.edu	37	11	104903803	104903803	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	CASP1-661	NM_001257118	exon3	c.T325A	p.S109T	AGGAAGAAAGTAC	.	20	3	117	0	.	0	0	0	0	0
OR8G5	219865	hgsc.bcm.edu	37	11	124135727	124135727	+	Silent	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	.	NM_001005198	exon1	c.C1005T	p.A335A	CGTTGCCCTGAAG	.	46	11	87	0	.	0	0	0	0	0
PKNOX2	63876	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	125280693	125280693	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PKNOX2-93	NM_022062	exon9	c.C737T	p.P246L	ACCAACCGGTTAC	.	137	27	110	0	.	0	0	0	0	0
SNX19	399979	ucsc.edu	37	11	130785010	130785010	+	Silent	SNP	T	T	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SNX19-229	NM_014758	exon1	c.A825C	p.A275A	GCAGGGTGCTGGA	.	287	18	193	21	.	10	9	1	0	0
WNK1	65125	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	978188	978188	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	WNK1-916	NM_213655	exon10	c.T3551A	p.F1184Y	CACTTTTCTTCTG	.	315	51	735	1	.	3	1	2	0	0
CD27	939	hgsc.bcm.edu;broad.mit.edu	37	12	6554287	6554287	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	CD27-659	NM_001242	exon1	c.T26A	p.L9Q	GGTGGCTGTGCGT	.	41	6	25	0	.	140	140	0	0	0
SOX5	6660	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	12	24102509	24102509	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SOX5-655	NM_006940	exon1	c.G27C	p.Q9H	AAACTCCTGAGGT	.	98	17	140	0	.	0	0	0	0	0
DDX11	1663	hgsc.bcm.edu	37	12	31242981	31242981	+	Silent	SNP	C	C	A	rs3892690		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	DDX11-229	NM_030653	exon9	c.C1042A	p.R348R	GAGGCCCGGGCCT	.	48	10	21	1	C|1.000;|0.000	7	5	2	0	0
SRGAP1	57522	hgsc.bcm.edu;broad.mit.edu	37	12	64377805	64377805	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SRGAP1-653	NM_020762	exon2	c.T146A	p.L49Q	AGGATCTGCAAGA	.	86	12	207	0	.	0	0	0	0	0
SLC35E3	55508	hgsc.bcm.edu	37	12	69140471	69140471	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SLC35E3-514	NM_018656	exon1	c.T314C	p.L105P	ATCAGCTGGCCAA	.	505	36	249	2	.	10	5	5	0	0
MYBPC1	4604	broad.mit.edu	37	12	102046970	102046970	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	MYBPC1-94	NM_206819	exon18	c.G1711T	p.E571X	CGTCTTGAGATCC	.	34	3	98	0	.	0	0	0	0	0
NID2	22795	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	52485956	52485956	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	NID2-158	NM_007361	exon14	c.T2851G	p.Y951D	AGGCATACTGGGC	.	103	27	74	0	.	0	0	0	0	0
KNSTRN	90417	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	40685795	40685795	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	.	NM_033286	exon9	c.G948T	p.M316I	AGAAATGTAAGAA	.	90	18	97	0	.	16	15	1	0	0
RAB27A	5873	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	55516128	55516128	+	Silent	SNP	T	T	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	RAB27A-228	NM_183235	exon6	c.A426T	p.V142V	TTTCACTACTCTC	.	91	12	447	0	.	58	55	3	0	0
PIGQ	9091	broad.mit.edu	37	16	624651	624651	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PIGQ-226	NM_148920	exon2	c.T577G	p.S193A	TGGCAGTCGGAGG	.	42	10	32	4	.	22	22	0	0	0
ZNF598	90850	hgsc.bcm.edu	37	16	2059674	2059674	+	Missense_Mutation	SNP	T	T	C	rs71384660		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	ZNF598-432	NM_178167	exon2	c.A74G	p.E25G	CCGCCTTCCCGCT	.	4	4	0	0	T|0.007;C|0.993	0	0	0	0	0
RNPS1	10921	broad.mit.edu	37	16	2313224	2313224	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	RNPS1-91	NM_006711	exon4	c.A292C	p.S98R	AAGAGCTGGAGCC	.	81	13	25	5	.	157	140	17	0	0
TMC7	79905	hgsc.bcm.edu;broad.mit.edu	37	16	19073098	19073098	+	Splice_Site	SNP	A	A	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	TMC7-93	NM_024847	exon16	c.2107-2A>T	.	TTTTTTAGGAAAG	.	90	13	83	0	.	0	0	0	0	0
DNAH3	55567	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	16	21080893	21080893	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	DNAH3-167	NM_017539	exon23	c.G3224A	p.R1075H	TGTATGCGAATTA	.	96	14	176	0	.	0	0	0	0	0
TMEM107	84314	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	8079579	8079579	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	TMEM107-90	NM_183065	exon1	c.C26A	p.P9H	CGAGAGGGCACAA	.	159	21	84	0	.	41	25	16	0	0
TBC1D29	26083	hgsc.bcm.edu	37	17	28887148	28887148	+	Missense_Mutation	SNP	T	T	A	rs200596738		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	TBC1D29-22	NM_015594	exon2	c.T26A	p.L9Q	AAGGTCTATGCAC	.	95	5	43	2	T|1.000;A|0.000	0	0	0	0	0
ASIC2	40	hgsc.bcm.edu	37	17	31618997	31618997	+	Missense_Mutation	SNP	C	C	A	rs112647385		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	.	NM_183377	exon1	c.G137T	p.R46L	AGCGCCCGCTCGC	.	7	7	2	1	C|0.740;A|0.260	0	0	0	0	0
PSMC3IP	29893	broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	40726133	40726133	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PSMC3IP-92	NM_016556	exon4	c.C321A	p.C107X	GTAGCGGCAGCTC	.	64	15	79	0	.	5	3	2	0	0
TMEM106A	113277	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	41365849	41365849	+	Silent	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	.	NM_145041	exon4	c.C214T	p.L72L	CTAGAGCTGGAGA	.	165	17	108	0	.	0	0	0	0	0
CDC27	996	hgsc.bcm.edu	37	17	45247409	45247409	+	Splice_Site	SNP	C	C	T	rs78111769		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	CDC27-291	NM_001256	exon5	c.252-1G>A	.	GCAAGCCTTTAAA	.	71	6	177	2	.	0	0	0	0	0
TRAPPC8	22878	hgsc.bcm.edu	37	18	29444612	29444612	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	TRAPPC8-159	NM_014939	exon19	c.C2723G	p.T908R	TCTTCTGTGATTA	.	26	2	187	0	.	15	15	0	0	0
ME2	4200	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	18	48442562	48442562	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	ME2-90	NM_001168335	exon5	c.C417G	p.D139E	CTCAGACAGAGGT	.	38	4	234	0	.	20	10	10	0	0
ACSBG2	81616	hgsc.bcm.edu;broad.mit.edu	37	19	6177251	6177251	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	ACSBG2-23	NM_030924	exon8	c.T750G	p.I250M	GTGGATTGCAGGA	.	36	6	82	0	.	0	0	0	0	0
MUC16	94025	broad.mit.edu	37	19	9067237	9067237	+	Missense_Mutation	SNP	T	T	G	rs201826382		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	MUC16-566	NM_024690	exon3	c.A20209C	p.T6737P	TTCGAGTGATGAT	.	73	3	427	1	T|0.999;G|0.001	0	0	0	0	0
APLP1	333	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	36362560	36362560	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	APLP1-92	NM_005166	exon5	c.T584A	p.L195X	TGCTCTTACCCTG	.	345	57	155	0	.	0	0	0	0	0
WDR62	284403	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	36582178	36582178	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	WDR62-90	NM_173636	exon17	c.C2111T	p.S704L	TTTACTCGGGCGA	.	161	25	92	1	.	0	0	0	0	0
ZNF585B	92285	hgsc.bcm.edu;broad.mit.edu	37	19	37678072	37678072	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	ZNF585B-91	NM_152279	exon5	c.A367T	p.I123F	AATAAATTTTTTG	.	88	9	174	0	.	3	3	0	0	0
ZNF320	162967	broad.mit.edu	37	19	53385207	53385207	+	Silent	SNP	A	A	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	ZNF320-91	NM_207333	exon4	c.T172C	p.L58L	ATGACAATGTATT	.	187	5	310	0	.	16	16	0	0	0
WDR35	57539	broad.mit.edu	37	2	20175308	20175308	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	WDR35-91	NM_020779	exon6	c.A553T	p.N185Y	CTTGATTATCGTA	.	24	4	50	0	.	0	0	0	0	0
PUM2	23369	hgsc.bcm.edu	37	2	20511256	20511256	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PUM2-91	NM_015317	exon4	c.A517G	p.N173D	CTTACTTAAAATC	.	24	2	121	0	.	0	0	0	0	0
GDF7	151449	hgsc.bcm.edu	37	2	20870531	20870531	+	Silent	SNP	G	G	A	rs192407174		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	GDF7-226	NM_182828	exon2	c.G699A	p.L233L	CCTCTTGCTGCGC	.	14	13	6	2	G|0.989;A|0.011	0	0	0	0	0
ANKRD36B	57730	hgsc.bcm.edu	37	2	98128421	98128421	+	Missense_Mutation	SNP	T	T	C	rs78091509	bycluster	TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	.	NM_025190	exon39	c.A2900G	p.K967R	TGGTTTTTTATTG	.	26	4	143	2	T|0.250;C|0.750	5	5	0	0	0
SCN3A	6328	hgsc.bcm.edu	37	2	165947167	165947167	+	Silent	SNP	G	G	C	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SCN3A-141	NM_006922	exon28	c.C5496G	p.V1832V	AAGCTGGACTTTG	.	39	2	238	0	.	0	0	0	0	0
LRP2	4036	broad.mit.edu;ucsc.edu	37	2	170029726	170029726	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	LRP2-175	NM_004525	exon57	c.G11023A	p.A3675T	GATGGGCAGAGCT	.	69	6	77	0	.	1	0	1	0	0
SPHKAP	80309	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	228882137	228882137	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SPHKAP-167	NM_030623	exon7	c.G3433A	p.E1145K	GTAACTCAAATCC	.	157	25	121	0	.	0	0	0	0	0
PLK1S1	55857	broad.mit.edu;ucsc.edu	37	20	21143713	21143713	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	.	.	.	.	.	GAGTTGCCCTATC	.	33	5	124	0	.	8	8	0	0	0
XRN2	22803	hgsc.bcm.edu	37	20	21367553	21367553	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	XRN2-515	NM_012255	exon29	c.C2696G	p.T899S	TGCAAACCCAGAA	.	35	2	180	1	.	161	161	0	0	0
MYH7B	57644	broad.mit.edu;bcgsc.ca	37	20	33577862	33577862	+	Silent	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	MYH7B-136	NM_020884	exon21	c.C1939T	p.L647L	GATCCCCTGAATG	.	405	11	193	0	.	1	1	0	0	0
CSE1L	1434	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	20	47675025	47675025	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	CSE1L-290	NM_001256135	exon2	c.C25A	p.Q9K	AATCTGCAAACAC	.	234	24	173	0	.	1	1	0	0	0
DSCAM	1826	broad.mit.edu;bcgsc.ca	37	21	41447083	41447083	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	DSCAM-101	NM_001271534	exon27	c.A4769G	p.N1590S	CCCTCGTTGGTCG	.	186	6	122	0	.	0	0	0	0	0
OXSM	54995	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	25832524	25832524	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	OXSM-132	NM_017897	exon2	c.C13A	p.L5M	AACTGCCTGCAAA	.	196	36	278	0	.	11	3	8	0	0
ZKSCAN7	55888	broad.mit.edu	37	3	44612491	44612491	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	.	NM_018651	exon6	c.C1889T	p.T630M	TTCACACGGGTGA	.	46	3	157	0	.	1	1	0	0	0
SPATA12	353324	hgsc.bcm.edu	37	3	57108279	57108279	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SPATA12-90	NM_181727	exon2	c.T557C	p.I186T	CACACATACACAC	.	117	8	253	1	.	0	0	0	0	0
PROS1	5627	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	93624723	93624723	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PROS1-153	NM_000313	exon6	c.G506C	p.G169A	CAACCTCCATTTA	.	287	47	268	0	.	14	6	8	0	0
FBXO40	51725	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	121341915	121341915	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	FBXO40-273	NM_016298	exon3	c.C1639T	p.P547S	ATTAAGCCGGAGG	.	133	24	132	1	.	0	0	0	0	0
INTU	27152	hgsc.bcm.edu	37	4	128608920	128608920	+	Silent	SNP	T	T	C	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	INTU-91	NM_015693	exon8	c.T1347C	p.H449H	ACTGCATTCCAGC	.	35	2	188	2	.	2	2	0	0	0
ITGA1	3672	hgsc.bcm.edu	37	5	52223476	52223476	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	ITGA1-228	NM_181501	exon20	c.C2676G	p.F892L	TCCCTTCCTGAGA	.	40	2	233	0	.	7	7	0	0	0
GPBP1	65056	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	56542173	56542173	+	Silent	SNP	T	T	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	GPBP1-135	NM_001127236	exon6	c.T546A	p.I182I	GGTCATTAAGAAA	.	68	10	124	0	.	47	28	19	0	0
MAST4	375449	hgsc.bcm.edu	37	5	66432458	66432458	+	Silent	SNP	C	C	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	MAST4-647	NM_001164664	exon19	c.C2460G	p.L820L	CTTACTCCTCAGG	.	9	2	29	0	.	1	1	0	0	0
PCDHA4	56144	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	5	140188710	140188710	+	Silent	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PCDHA4-96	NM_031500	exon1	c.C1938T	p.R646R	CCACCGCCTACTG	.	345	50	156	0	.	0	0	0	0	0
PBX2	5089	broad.mit.edu	37	6	32156280	32156280	+	Silent	SNP	G	G	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PBX2-91	NM_002586	exon3	c.C297A	p.G99G	GCTGAGGCCTAGC	.	125	11	68	1	.	6	5	0	0	1
HLA-DQB1	3119	hgsc.bcm.edu	37	6	32632659	32632659	+	Missense_Mutation	SNP	C	C	G	rs9274389	byfrequency;alternate_allele	TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	HLA-DQB1-22	NM_002123	exon2	c.G295C	p.V99L	CCAGGACTTCCTT	.	37	3	28	0	C|0.951;G|0.020	0	0	0	0	0
LAMA2	3908	broad.mit.edu	37	6	129670492	129670492	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	LAMA2-162	NM_000426	exon31	c.G4486A	p.A1496T	TGCACGGCTTGTC	.	27	4	189	0	.	0	0	0	0	0
STXBP5	134957	broad.mit.edu	37	6	147637421	147637421	+	Silent	SNP	G	G	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	STXBP5-90	NM_139244	exon16	c.G1680A	p.E560E	GGGTGAGCAGCCA	.	23	3	96	1	.	3	2	1	0	0
NOD1	10392	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	7	30472766	30472766	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	NOD1-229	NM_006092	exon12	c.T2651C	p.V884A	TCTGCCACTTCAT	.	44	8	125	0	.	25	23	2	0	0
HERPUD2	64224	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	35674964	35674964	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	HERPUD2-93	NM_022373	exon7	c.C722A	p.P241Q	GGAGCTGGTGGGG	.	120	17	358	1	.	55	44	11	0	0
NAPEPLD	222236	broad.mit.edu	37	7	102769017	102769017	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	NAPEPLD-227	NM_001122838	exon2	c.G207A	p.W69X	TGTTGGCCACGGA	.	63	4	196	0	.	3	3	0	0	0
SSPO	23145	hgsc.bcm.edu	37	7	149487608	149487608	+	Splice_Site	SNP	T	T	G	rs1635798		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	.	NM_198455	exon32	c.4921+1T>G	.	CCTGCGTTGAGGC	.	2	2	0	0	T|0.784;G|0.216	0	0	0	0	0
GAS1	2619	hgsc.bcm.edu	37	9	89560846	89560846	+	Silent	SNP	C	C	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	GAS1-226	NM_002048	exon1	c.G849C	p.P283P	GTCCAGCGGCTGC	.	29	2	5	0	.	0	0	0	0	0
OR1L4	254973	hgsc.bcm.edu	37	9	125486286	125486286	+	Silent	SNP	T	T	C	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	OR1L4-68	NM_001005235	exon1	c.T18C	p.Y6Y	GAATTATAGCAGC	.	40	4	248	2	.	0	0	0	0	0
RLIM	51132	hgsc.bcm.edu	37	X	73811841	73811841	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	RLIM-228	NM_183353	exon5	c.A1309G	p.M437V	TTTCCATATTTCG	.	28	2	133	0	.	11	11	0	0	0
COL4A6	1288	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	X	107433650	107433650	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	COL4A6-199	NM_001847	exon20	c.A1401C	p.K467N	GTTTCCTTTTGGA	.	99	38	179	0	.	0	0	0	0	0
FLNA	2316	ucsc.edu	37	X	153588776	153588776	+	Silent	SNP	G	G	A	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	FLNA-599	NM_001456	exon22	c.C3387T	p.T1129T	GGGCTCGGTGGGC	.	175	1	68	0	.	7	6	1	0	0
FCGR2A	2212	broad.mit.edu	37	1	161475799	161475804	+	Splice_Site	DEL	TGAGTA	TGAGTA	-	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	TGAGTA	TGAGTA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	FCGR2A-91	.	.	.	.	AGCTGGTGAGTAT	.	1172	0	761	0	.	0	0	0	0	0
PITRM1	10531	broad.mit.edu;bcgsc.ca	37	10	3199645	3199645	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PITRM1-91	NM_014889	exon12	c.1329delT	p.F443fs	CAGCCCAAAGCTG	.	34	8	53	0	.	0	0	0	0	0
TCF7L2	6934	broad.mit.edu	37	10	114925317	114925317	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	TCF7L2-586	NM_001146274	exon14	c.1395delA	p.R465fs	TAGGAGAAAAAAA	.	547	7	277	0	.	0	0	0	0	0
PHB	5245	broad.mit.edu	37	17	47486482	47486483	+	Frame_Shift_Del	DEL	CT	CT	-	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	CT	CT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PHB-90	NM_002634	exon5	c.431_432del	p.144_144del	GACCAGCTCTCTC	.	139	17	76	0	.	0	0	0	0	0
SLC25A42	284439	broad.mit.edu	37	19	19221630	19221630	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	SLC25A42-90	NM_178526	exon8	c.902delT	p.I301fs	TGGGCATCAGCTT	.	192	24	106	0	.	0	0	0	0	0
TRIOBP	11078	broad.mit.edu	37	22	38129406	38129406	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	TRIOBP-136	NM_001039141	exon8	c.4049delC	p.A1350fs	GCCCTGCCCCCAG	.	7	2	2	0	.	0	0	0	0	0
LAMB2	3913	broad.mit.edu	37	3	49167097	49167098	+	Frame_Shift_Del	DEL	GG	GG	-	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	LAMB2-93	NM_002292	exon11	c.1457_1458del	p.486_486del	ACTGTTGGGGTCA	.	125	0	94	0	.	0	0	0	0	0
BAP1	8314	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	52437889	52437889	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	BAP1-1032	NM_004656	exon13	c.1272delG	p.G424fs	.	.	333	62	158	0	.	0	0	0	0	0
ZXDC	79364	broad.mit.edu	37	3	126178522	126178522	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	ZXDC-91	NM_025112	exon7	c.2186delA	p.K729fs	CTCTGCTTTTTTT	.	858	7	825	0	.	0	0	0	0	0
KIAA1967	57805	broad.mit.edu;bcgsc.ca	37	8	22474942	22474942	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	KIAA1967-92	NM_021174	exon15	c.1855delG	p.G619fs	GAGGATGGGCTTT	.	669	97	322	0	.	0	0	0	0	0
GDPD5	81544	broad.mit.edu	37	11	75146590	75146591	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	GDPD5-91	NM_030792	exon17	c.1780_1781insC	p.S594fs	TGTGGCTGCCACC	.	234	4	109	0	.	0	0	0	0	0
CLIP1	6249	broad.mit.edu	37	12	122812690	122812691	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	CLIP1-155	NM_001247997	exon17	c.3053_3054insA	p.S1018fs	TTGTGGCTTGTTT	.	396	6	267	0	.	0	0	0	0	0
PEX13	5194	broad.mit.edu	37	2	61275734	61275735	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	PEX13-91	NM_002618	exon4	c.1041_1042insG	p.K347fs	AAGTAAAGTTTCC	.	79	8	126	0	.	0	0	0	0	0
VHL	7428	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	3	10188203	10188204	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	VHL-6694	NM_000551	exon2	c.346_347insT	p.L116fs	.	.	443	81	308	0	.	0	0	0	0	0
METTL17	64745	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	14	21464718	21464719	+	Missense_Mutation	DNP	GG	GG	TT	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	GG	GG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	METTL17		exon13	c.G1114T	p.MV371IL	TCTATGGTGATCC	.	164.0	25.0	171.0	0.0	.	0	0	0	0	0
ZNF512B	57473	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	20	62598869	62598870	+	Missense_Mutation	DNP	CG	CG	AA	novel		TCGA-AL-3473-01A-01D-1252-08	TCGA-AL-3473-10A-01D-1252-08	CG	CG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	23f15c01-fc74-46bf-8ba5-afc140084aa1	0e794ded-be71-4cd3-932d-121f1b81ecf2	.	ZNF512B		exon3	c.C128T	p.P43L	ACCACCGGCATCC	.	417.0	69.0	198.0	0.0	.	0	0	0	0	0