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
CCNL2	81669	hgsc.bcm.edu;broad.mit.edu	37	1	1334456	1334456	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CCNL2-70	NM_030937	exon1	c.C231T	p.L77L	CACGCGGAGGTCG	.	47	16	46	0	.	63	28	35	0	0
CCNL2	81669	hgsc.bcm.edu;broad.mit.edu	37	1	1334592	1334592	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CCNL2-70	NM_030937	exon1	c.C95T	p.S32L	CCCTGCGACCCTG	.	63	28	49	0	.	31	16	15	0	0
PLEKHG5	57449	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	6528353	6528353	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	PLEKHG5-652	NM_001265592	exon21	c.G2780A	p.R927Q	GGAACTCGTGGGG	.	18	8	25	0	.	28	13	15	0	0
PRAMEF1	65121	hgsc.bcm.edu;broad.mit.edu	37	1	12854436	12854436	+	Silent	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	PRAMEF1-22	NM_023013	exon3	c.G660C	p.L220L	ACGTCTGATAAGA	.	1313	504	789	1	.	0	0	0	0	0
THRAP3	9967	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	36748232	36748232	+	Missense_Mutation	SNP	G	G	A	rs148045717		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	THRAP3-663	NM_005119	exon3	c.G68A	p.R23H	GATCTCGTTCTCG	.	182	82	91	0	G|1.000;A|0.000	48	30	18	0	0
MACF1	23499	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	39910503	39910503	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	MACF1-165	NM_012090	exon77	c.G13424C	p.R4475T	AAGAAAGAAAGGT	.	109	49	83	0	.	0	0	0	0	0
ST7L	54879	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	113126670	113126670	+	Silent	SNP	T	T	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ST7L-90	NM_138728	exon7	c.A780G	p.A260A	CTTGAGTGCCTGT	.	223	105	144	1	.	0	0	0	0	0
ATP1A1	476	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	116931284	116931284	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ATP1A1-91	NM_000701	exon6	c.G526A	p.E176K	AATGGTGAGAAAA	.	251	98	175	0	.	101	59	42	0	0
NBPF14	25832	hgsc.bcm.edu	37	1	148025786	148025786	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	NBPF14-91	NM_015383	exon1	c.C46T	p.Q16X	TGAGCTGCTCTGC	.	1187	144	1065	0	.	87	84	3	0	0
NBPF14	25832	hgsc.bcm.edu;broad.mit.edu	37	1	148025829	148025829	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	NBPF14-91	NM_015383	exon1	c.G3A	p.M1I	CCTCAGCATAGAT	.	1037	184	879	1	.	9	9	0	0	0
SHE	126669	hgsc.bcm.edu	37	1	154474217	154474217	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	SHE-95	NM_001010846	exon1	c.G286A	p.V96I	GGCCGACGCCGGC	.	21	8	27	0	.	0	0	0	0	0
TDRD10	126668	hgsc.bcm.edu;broad.mit.edu	37	1	154493835	154493835	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	TDRD10-91	NM_182499	exon6	c.G249A	p.V83V	GAAAGTGACACTT	.	368	35	311	0	.	1	1	0	0	0
NDUFS2	4720	broad.mit.edu	37	1	161183707	161183707	+	Silent	SNP	C	C	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	NDUFS2-91	NM_001166159	exon13	c.C1350A	p.I450I	TGCCATCATAGGT	.	329	5	267	0	.	21	21	0	0	0
F5	2153	broad.mit.edu	37	1	169525999	169525999	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	F5-157	NM_000130	exon6	c.C837G	p.N279K	ATGATGGTTCTGC	.	120	4	105	0	.	1	1	0	0	0
XPR1	9213	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	1	180849312	180849312	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	XPR1-90	NM_004736	exon14	c.G1909C	p.D637H	AACGCAGATGATC	.	185	90	129	1	.	36	24	12	0	0
LRRN2	10446	hgsc.bcm.edu;broad.mit.edu	37	1	204587907	204587907	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	LRRN2-514	NM_006338	exon3	c.G1214A	p.R405H	GGGAGGCGCTGGA	.	116	8	140	0	.	0	0	0	0	0
SLC26A9	115019	hgsc.bcm.edu;ucsc.edu	37	1	205888030	205888030	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	SLC26A9-92	NM_134325	exon19	c.G2194A	p.D732N	CTGCGTCATGTAT	.	646	307	502	2	.	0	0	0	0	0
NEBL	10529	hgsc.bcm.edu;broad.mit.edu	37	10	21309109	21309109	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	NEBL-92	NM_001173484	exon3	c.C186T	p.F62F	CGTGGTGAAGGAC	.	193	11	153	0	.	6	6	0	0	0
SGMS1	259230	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	10	52071078	52071078	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	SGMS1-227	NM_147156	exon9	c.A839G	p.Y280C	TACAGATAGTCCC	.	129	57	113	0	.	25	11	14	0	0
IDE	3416	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	10	94297234	94297234	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	IDE-92	NM_004969	exon2	c.C172G	p.P58A	CTTCAGGAGACTT	.	210	85	166	0	.	9	4	5	0	0
RIC8A	60626	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	209483	209483	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	RIC8A-514	NM_021932	exon3	c.T209A	p.V70D	AGAGTGTCCGAAT	.	107	23	142	0	.	54	50	4	0	0
OR4S2	219431	broad.mit.edu	37	11	55418712	55418712	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	OR4S2-71	NM_001004059	exon1	c.C333T	p.F111F	GATCTTCATCCTT	.	591	20	447	1	.	0	0	0	0	0
APLNR	187	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	57004337	57004337	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	APLNR-573	NM_005161	exon1	c.C142G	p.L48V	GCACCAGACCGTT	.	149	70	181	0	.	2	2	0	0	0
MS4A15	219995	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	60540926	60540926	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	MS4A15-69	NM_001098835	exon5	c.T467A	p.I156N	CAGCCATTCTGCT	.	70	39	71	0	.	0	0	0	0	0
VWCE	220001	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	61026184	61026184	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	VWCE-91	NM_152718	exon20	c.C2831T	p.P944L	CCCACTGGGGGCT	.	178	55	224	0	.	4	4	0	0	0
STARD10	10809	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	72470333	72470333	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	STARD10-90	NM_006645	exon3	c.G301C	p.E101Q	AAGTCTCAATGAC	.	127	64	128	0	.	68	38	30	0	0
ARRB1	408	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	11	74985127	74985127	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ARRB1-567	NM_020251	exon11	c.C905G	p.S302C	GTGCTAGAGGCCA	.	366	162	382	0	.	0	0	0	0	0
RAPGEF3	10411	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	48142257	48142257	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	RAPGEF3-660	NM_001098531	exon12	c.C1223T	p.S408F	GCACTGGAATCTG	.	82	30	87	0	.	4	2	2	0	0
MLL2	8085	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	12	49425839	49425839	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	MLL2-612	NM_003482	exon39	c.C12649T	p.Q4217X	GCTGCTGAGGACT	.	81	36	96	0	.	18	12	6	0	0
MLL2	8085	hgsc.bcm.edu;broad.mit.edu	37	12	49426526	49426526	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	MLL2-612	NM_003482	exon39	c.C11962T	p.Q3988X	GTTGCTGAGGAGA	.	31	13	42	0	.	7	2	5	0	0
HSP90B1	7184	broad.mit.edu	37	12	104327895	104327895	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	HSP90B1-93	NM_003299	exon5	c.G573C	p.L191F	TGAATTGATTGGC	.	261	6	201	0	.	290	284	6	0	0
INSM2	84684	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	36005048	36005048	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	INSM2-226	NM_032594	exon1	c.C1590T	p.C530C	GCACTGCCCGTCC	.	116	23	133	0	.	0	0	0	0	0
MIA2	117153	hgsc.bcm.edu	37	14	39717145	39717145	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	MIA2-154	NM_054024	exon4	c.A1367G	p.Y456C	TACCATATTTGAA	.	102	6	70	1	.	0	0	0	0	0
FKBP3	2287	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	45603575	45603575	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	FKBP3-226	NM_002013	exon1	c.C85T	p.L29L	CCTGCAGAAACTT	.	161	59	215	0	.	20	13	7	0	0
ZFP36L1	677	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	69256349	69256349	+	Silent	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ZFP36L1-91	NM_001244701	exon3	c.G1125C	p.L375L	GCTGCTCAGGTAG	.	196	81	229	0	.	169	90	78	1	0
MLH3	27030	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	14	75514890	75514890	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	MLH3-228	NM_014381	exon2	c.C1469G	p.S490C	AGGAAAGATTTTT	.	358	134	223	0	.	4	1	3	0	0
PPP2R5C	5527	broad.mit.edu	37	14	102391505	102391505	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	PPP2R5C-659	NM_001161725	exon16	c.C1564G	p.P522A	GACCGTCCTCTTG	.	427	7	343	0	.	20	19	1	0	0
SNORD116-1	100033413	broad.mit.edu;ucsc.edu	37	15	25296712	25296712	+	RNA	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	.	.	.	.	.	GGAACTGAGGTCC	.	190	88	124	0	.	0	0	0	0	0
GABRB3	2562	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	26793190	26793190	+	Nonsense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	GABRB3-518	NM_021912	exon9	c.C1172G	p.S391X	ATTGCTGAATTCC	.	273	125	245	0	.	8	8	0	0	0
APBA2	321	broad.mit.edu	37	15	29368274	29368274	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	APBA2-90	NM_005503	exon5	c.C1049A	p.S350X	TGGCATCATTTCC	.	423	8	311	0	.	0	0	0	0	0
DMXL2	23312	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	15	51857284	51857284	+	Splice_Site	SNP	C	C	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	DMXL2-99	NM_015263	exon5	c.364+1G>T	.	TAAATACCTTGAG	.	55	24	31	0	.	0	0	0	0	0
NTN3	4917	broad.mit.edu	37	16	2522390	2522390	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	NTN3-90	NM_006181	exon1	c.G688C	p.A230P	AGCACGGCAGGTG	.	91	3	120	0	.	0	0	0	0	0
GGA2	23062	broad.mit.edu	37	16	23503028	23503028	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	GGA2-91	NM_015044	exon5	c.C445G	p.R149G	CGTCTCGAATCTT	.	407	9	289	0	.	47	46	1	0	0
SEZ6L2	26470	broad.mit.edu	37	16	29884594	29884594	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	SEZ6L2-92	NM_001243332	exon14	c.T2455C	p.S819P	ACTGGGAGGGGTG	.	82	13	88	7	.	4	4	0	0	0
CX3CL1	6376	hgsc.bcm.edu;broad.mit.edu	37	16	57413597	57413597	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CX3CL1-226	NM_002996	exon2	c.C122T	p.S41L	TGACATCAAAGAT	.	109	6	108	0	.	9	9	0	0	0
WDR59	79726	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	74990405	74990405	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	WDR59-92	NM_030581	exon3	c.C208T	p.H70Y	TGTCATGAGGATT	.	123	42	94	0	.	10	3	7	0	0
ZDHHC7	55625	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	16	85010706	85010706	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ZDHHC7-289	NM_001145548	exon8	c.G856A	p.E286K	CCGTCTCGTCGTT	.	285	130	223	0	.	1	0	1	0	0
ITGAE	3682	hgsc.bcm.edu;broad.mit.edu	37	17	3659152	3659152	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ITGAE-161	NM_002208	exon11	c.T1211A	p.I404N	AAGCCAATCTGTG	.	15	8	8	0	.	0	0	0	0	0
TP53	7157	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	7579415	7579415	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	TP53-70225	NM_000546	exon4	c.G272A	p.W91X	AGGGGCCAGGAGG	.	143	23	128	0	.	60	58	2	0	0
MLLT6	4302	hgsc.bcm.edu	37	17	36881009	36881009	+	Missense_Mutation	SNP	C	C	A	rs150198262	byfrequency;alternate_allele	TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	MLLT6-659	NM_005937	exon19	c.C3020A	p.A1007E	TGTCTGCGGGTAC	.	29	2	32	0	C|0.999;T|0.001	49	49	0	0	0
KRT13	3860	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	39659037	39659037	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	KRT13-95	NM_002274	exon5	c.A925T	p.T309S	TGTTGGTAGACAC	.	447	195	456	0	.	39	15	24	0	0
DBF4B	80174	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	42828063	42828063	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	DBF4B-227	NM_145663	exon14	c.C1290T	p.L430L	AACCCTCCTGCCG	.	131	59	132	0	.	1	0	1	0	0
EPN3	55040	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	48615544	48615544	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	EPN3-91	NM_017957	exon3	c.G667A	p.E223K	AGCCGTGAGGAGG	.	43	29	63	0	.	7	3	4	0	0
EPN3	55040	hgsc.bcm.edu;ucsc.edu	37	17	48616322	48616322	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	EPN3-91	NM_017957	exon4	c.G759C	p.E253D	GCACGAGAAGGTA	.	24	11	48	0	.	2	2	0	0	0
SPATA20	64847	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	48628090	48628090	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	SPATA20-90	NM_022827	exon11	c.G1195A	p.E399K	AGCGCAGAAGATG	.	450	205	323	1	.	28	28	0	0	0
SPATA20	64847	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	48628385	48628385	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	SPATA20-90	NM_022827	exon12	c.G1410A	p.Q470Q	GGGCCAGAATGTG	.	145	67	100	0	.	27	27	0	0	0
TEX2	55852	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	62238165	62238165	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	TEX2-91	NM_018469	exon8	c.G2821C	p.E941Q	ACCCTTCTTTGCC	.	1011	701	408	0	.	0	0	0	0	0
CACNG4	27092	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	65026963	65026963	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CACNG4-90	NM_014405	exon4	c.T827C	p.M276T	TGTCCATGTACAC	.	163	33	102	1	.	2	2	0	0	0
SLC38A10	124565	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	17	79249777	79249777	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	SLC38A10-70	NM_001037984	exon8	c.G904A	p.E302K	GCTGCTCACACAG	.	361	77	249	0	.	0	0	0	0	0
DSC2	1824	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	18	28660162	28660162	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	DSC2-517	NM_024422	exon10	c.C1420G	p.P474A	GTATTGGAGGGTT	.	427	225	265	0	.	2	2	0	0	0
C19orf21	126353	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	757669	757669	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	C19orf21-91	NM_173481	exon2	c.C723T	p.N241N	GGCCAACGGGCAC	.	59	29	53	0	.	13	2	11	0	0
PIK3R2	5296	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	19	18279617	18279617	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	PIK3R2-1311	NM_005027	exon15	c.G1890A	p.T630T	CCGCACGCAGGCA	.	48	21	65	0	.	40	19	21	0	0
PRR12	57479	hgsc.bcm.edu;broad.mit.edu	37	19	50099849	50099849	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	PRR12-70	NM_020719	exon4	c.G2257A	p.A753T	GCAGGCGCCAAGG	.	18	6	42	0	.	10	8	2	0	0
ADCY3	109	broad.mit.edu	37	2	25057766	25057766	+	Missense_Mutation	SNP	G	G	A	rs142082596		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ADCY3-94	NM_004036	exon9	c.C1702T	p.R568C	GCAGGCGCAGCCT	.	55	3	66	0	G|1.000;A|0.000	21	21	0	0	0
ETAA1	54465	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	67631299	67631299	+	Silent	SNP	A	A	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ETAA1-156	NM_019002	exon5	c.A1485G	p.Q495Q	AATTCAAAATTGT	.	89	44	51	0	.	5	5	0	0	0
AFF3	3899	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	100623250	100623250	+	Silent	SNP	G	G	A	rs138844530		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	AFF3-230	NM_001025108	exon6	c.C792T	p.D264D	TTGGCCGTCCATT	.	102	43	100	1	G|1.000;A|0.000	0	0	0	0	0
SH3RF3	344558	broad.mit.edu	37	2	110065844	110065844	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	SH3RF3-24	NM_001099289	exon8	c.G2047A	p.A683T	AGTGCCGCAAACC	.	42	3	36	0	.	3	3	0	0	0
RGPD8	727851	broad.mit.edu	37	2	113127775	113127775	+	Missense_Mutation	SNP	G	G	C	rs15849		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	.	NM_001164463	exon23	c.C5278G	p.P1760A	GGGAAGGATTTTC	.	69	3	51	1	C|1.000;|0.000	10	0	10	0	0
POTEF	728378	hgsc.bcm.edu	37	2	130868165	130868165	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	POTEF-27	NM_001099771	exon7	c.C1006G	p.L336V	CAGATAGATCTTG	.	503	26	341	0	.	3	3	0	0	0
POTEE	445582	hgsc.bcm.edu	37	2	131985905	131985905	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	.	NM_001083538	exon5	c.C1006G	p.L336V	CAAGATCTATCTG	.	646	33	393	0	.	3	3	0	0	0
NEB	4703	broad.mit.edu	37	2	152397247	152397247	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	NEB-145	NM_001271208	exon137	c.G20751A	p.L6917L	ATGCTTCAAGGCT	.	186	10	139	1	.	1	1	0	0	0
CCDC108	255101	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	2	219886640	219886640	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CCDC108-94	NM_194302	exon18	c.G2992A	p.E998K	CCAGCTCCTTTTC	.	159	90	279	0	.	0	0	0	0	0
TUBA4A	7277	broad.mit.edu	37	2	220115274	220115274	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	TUBA4A-93	NM_006000	exon4	c.G1147A	p.A383T	CGATGGCGGTCGT	.	81	4	139	0	.	9	9	0	0	0
OBSL1	23363	hgsc.bcm.edu;broad.mit.edu	37	2	220420911	220420911	+	Silent	SNP	G	G	A	rs200341414		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	OBSL1-71	NM_001173431	exon14	c.C4440T	p.A1480A	GCGCACGGCCCCC	.	22	8	46	0	G|0.999;A|0.001	1	1	0	0	0
CPXM1	56265	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	20	2775058	2775058	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CPXM1-94	NM_019609	exon14	c.G1983T	p.W661C	CAGACGCCAATAA	.	106	24	128	0	.	12	10	2	0	0
CTCFL	140690	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	20	56090811	56090811	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CTCFL-292	NM_001269044	exon5	c.G1139C	p.R380T	GTATCTCTGCTGG	.	573	253	338	0	.	0	0	0	0	0
ZBTB46	140685	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	20	62407208	62407208	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ZBTB46-154	NM_025224	exon3	c.C1045T	p.L349L	GGCCCAGATAGCT	.	208	99	176	0	.	5	5	0	0	0
SLC25A1	6576	broad.mit.edu	37	22	19164390	19164390	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	SLC25A1-90	NM_001256534	exon5	c.C621T	p.F207F	CATGACGAAGAAG	.	154	6	147	0	.	123	123	0	0	0
PICK1	9463	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	22	38470965	38470965	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	PICK1-226	NM_012407	exon13	c.C1074G	p.F358L	CGTCTTCCCCATC	.	66	25	83	0	.	30	22	8	0	0
MKL1	57591	hgsc.bcm.edu;broad.mit.edu	37	22	40814967	40814967	+	Missense_Mutation	SNP	G	G	A	rs199908950		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	MKL1-948	NM_020831	exon12	c.C1475T	p.S492L	AGTGGCGAGGCCT	.	68	11	77	0	G|0.999;A|0.001	6	6	0	0	0
PARVB	29780	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	22	44564537	44564537	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	PARVB-226	NM_001003828	exon14	c.C1173T	p.T391T	GTTCACCAAGTAC	.	117	13	103	0	.	8	8	0	0	0
GTSE1	51512	broad.mit.edu	37	22	46712115	46712115	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	GTSE1-187	NM_016426	exon7	c.C1238T	p.P413L	CGGCACCCCCCTC	.	133	5	137	0	.	7	7	0	0	0
CELSR1	9620	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	22	46930992	46930992	+	Silent	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CELSR1-525	NM_014246	exon1	c.C2076T	p.Y692Y	AAGCTCGTAGGTG	.	48	13	52	0	.	3	1	2	0	0
LHFPL4	375323	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	9547649	9547649	+	Splice_Site	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	LHFPL4-71	NM_198560	exon4	c.643+2C>T	.	ACACTCGCCTTTG	.	390	176	372	2	.	0	0	0	0	0
EFHB	151651	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	19925989	19925989	+	Silent	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	EFHB-22	NM_144715	exon11	c.C2052G	p.L684L	TGTCCGGAGAGTC	.	190	85	129	0	.	0	0	0	0	0
RAD54L2	23132	broad.mit.edu	37	3	51667682	51667682	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	RAD54L2-93	NM_015106	exon7	c.C915T	p.H305H	GGCCCACAGCATG	.	219	6	182	0	.	5	5	0	0	0
PARP3	10039	broad.mit.edu	37	3	51979556	51979556	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	PARP3-660	NM_001003931	exon7	c.G928C	p.E310Q	GTCTCTGAGCAGG	.	107	3	104	0	.	14	14	0	0	0
FLNB	2317	broad.mit.edu	37	3	58089735	58089735	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	FLNB-593	NM_001457	exon10	c.C1533T	p.Y511Y	GGTCTACGCATTC	.	173	4	188	0	.	10	10	0	0	0
GOLGB1	2804	broad.mit.edu	37	3	121386444	121386444	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	GOLGB1-161	NM_001256486	exon20	c.C9448T	p.Q3150X	GCTGCTGAGCTTC	.	136	5	91	0	.	90	90	0	0	0
COL6A6	131873	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	3	130287049	130287049	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	COL6A6-76	NM_001102608	exon5	c.G2002A	p.D668N	TTCAGCGACATCA	.	330	152	239	0	.	0	0	0	0	0
DLG1	1739	broad.mit.edu	37	3	196771534	196771534	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	DLG1-118	NM_004087	exon26	c.C2741G	p.S914C	GAACCAGATTGTT	.	245	7	144	0	.	43	41	2	0	0
FGFR3	2261	hgsc.bcm.edu;broad.mit.edu	37	4	1803568	1803568	+	Missense_Mutation	SNP	C	C	G	rs121913483	bycluster	TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	FGFR3-9542	NM_001163213	exon7	c.C746G	p.S249C	AGCGCTCCCCGCA	.	32	14	44	1	.	9	3	6	0	0
FGFR3	2261	broad.mit.edu	37	4	1803584	1803584	+	Silent	SNP	C	C	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	FGFR3-9542	NM_001163213	exon7	c.C762A	p.I254I	GCCCATCCTGCAG	.	34	14	64	0	.	262	114	148	0	0
FGFR3	2261	ucsc.edu	37	4	1803749	1803749	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	FGFR3-9542	NM_001163213	exon7	c.C927T	p.L309L	CGTGCTCAAGGTG	.	20	6	28	0	.	60	22	38	0	0
UNC5C	8633	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	96127913	96127913	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	UNC5C-94	NM_003728	exon11	c.C1768A	p.P590T	CCACAGGGGTCAA	.	106	20	87	0	.	1	1	0	0	0
EXOSC9	5393	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	122722582	122722582	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	EXOSC9-90	NM_001034194	exon1	c.G3A	p.M1I	CACCATGAAGGAA	.	172	69	193	0	.	6	2	4	0	0
TRIML1	339976	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	4	189068521	189068521	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	TRIML1-156	NM_178556	exon6	c.G1402A	p.V468I	AGCCACGTCTGAG	.	133	67	127	1	.	0	0	0	0	0
PCDHGA3	56112	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	140725009	140725009	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	PCDHGA3-68	NM_032011	exon1	c.C1409T	p.S470F	GAGCCTCCATCTT	.	308	143	231	0	.	0	0	0	0	0
PCDHGA12	26025	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	140811015	140811015	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	PCDHGA12-27	NM_032094	exon1	c.T689C	p.V230A	TCCGCGTGATGGT	.	162	70	191	1	.	3	3	0	0	0
CLINT1	9685	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	157240138	157240138	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CLINT1-48	NM_014666	exon5	c.G450C	p.K150N	TGCTTTCTTTCGC	.	168	83	125	0	.	68	36	32	0	0
FLT4	2324	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	5	180048230	180048230	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	FLT4-1490	NM_182925	exon14	c.G2043A	p.T681T	GTTCTGCGTGAGC	.	64	30	91	1	.	6	5	1	0	0
OR14J1	442191	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	29274483	29274483	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	OR14J1-1	NM_030946	exon1	c.C17T	p.S6L	TGACTTCAATGAG	.	408	159	258	0	.	0	0	0	0	0
BRD2	6046	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	32945959	32945959	+	Silent	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	BRD2-398	NM_005104	exon10	c.C1635G	p.P545P	CAAGCCCAAGAGG	.	91	36	99	0	.	87	46	41	0	0
BRD2	6046	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	6	32947799	32947799	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	BRD2-398	NM_001199455	exon11	c.C2141G	p.S714X	GTGATTCAAACCC	.	105	44	72	0	.	116	77	39	0	0
HECW1	23072	broad.mit.edu	37	7	43519234	43519234	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	HECW1-669	NM_015052	exon17	c.G3125C	p.R1042P	ACAGTCGAGCTAC	.	283	8	234	0	.	0	0	0	0	0
CTTNBP2	83992	broad.mit.edu	37	7	117407188	117407188	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CTTNBP2-94	NM_033427	exon9	c.G2821C	p.E941Q	TCCTTTCTGGCTC	.	210	5	129	0	.	1	1	0	0	0
CHRM2	1129	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	136700056	136700056	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CHRM2-94	NM_001006632	exon3	c.G444T	p.W148C	TGCCTGGGTCCTC	.	145	26	120	0	.	0	0	0	0	0
PRKAG2	51422	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	151372582	151372582	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	PRKAG2-658	NM_016203	exon4	c.G608C	p.R203T	CAGAACCTCTGCC	.	118	49	113	1	.	0	0	0	0	0
MLL3	58508	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	7	151879016	151879016	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	MLL3-1398	NM_170606	exon36	c.C5929T	p.Q1977X	GAAATTGATCTGT	.	722	115	536	0	.	5	5	0	0	0
ERLIN2	11160	broad.mit.edu	37	8	37597912	37597912	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ERLIN2-90	NM_001003791	exon3	c.G137A	p.G46D	CCAGCGGCCCTGG	.	498	25	390	0	.	22	22	0	0	0
ST18	9705	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	8	53028901	53028901	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ST18-95	NM_014682	exon25	c.G2937A	p.L979L	CTCTTTCAGCAGA	.	175	69	139	0	.	0	0	0	0	0
ST18	9705	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	8	53028912	53028912	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ST18-95	NM_014682	exon25	c.G2926A	p.E976K	GACTTTCATTGTT	.	160	60	124	1	.	0	0	0	0	0
GRHL2	79977	broad.mit.edu	37	8	102631907	102631907	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	GRHL2-93	NM_024915	exon9	c.C1239G	p.I413M	CCAGATCAAGGTC	.	264	8	171	0	.	30	30	0	0	0
VLDLR	7436	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	9	2651933	2651933	+	Missense_Mutation	SNP	G	G	A	rs183359461	alternate_allele	TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	VLDLR-516	NM_003383	exon17	c.G2395A	p.A799T	TCTGCCGCATGGG	.	177	50	123	2	G|0.999;T|0.000	5	4	1	0	0
TYRP1	7306	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	9	12704628	12704628	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	TYRP1-226	NM_000550	exon6	c.C1184A	p.P395Q	TGTCTCCAAATGA	.	380	111	188	0	.	0	0	0	0	0
C9orf24	84688	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	9	34397497	34397497	+	Silent	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	C9orf24-91	NM_032596	exon1	c.G135A	p.P45P	ACTTACCGGAGTC	.	308	87	215	0	.	2	2	0	0	0
ALDH1B1	219	hgsc.bcm.edu;broad.mit.edu	37	9	38396007	38396007	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	ALDH1B1-227	NM_000692	exon2	c.C262T	p.R88C	GCCTTCCGCCTGG	.	313	22	221	0	.	5	5	0	0	0
CAMSAP1	157922	ucsc.edu	37	9	138713398	138713398	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CAMSAP1-92	NM_015447	exon11	c.G3109A	p.A1037T	GGATGGCCTGCTG	.	57	3	103	1	.	9	6	3	0	0
C9orf69	90120	hgsc.bcm.edu	37	9	139008746	139008746	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	.	NM_152833	exon2	c.A1G	p.M1V	CCGGCATTGGGCC	.	4	3	6	1	.	1	1	0	0	0
STAG2	10735	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	123176469	123176469	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	STAG2-134	NM_001042749	exon7	c.C436T	p.R146X	ATAATTCGAAAAA	.	98	85	63	0	.	8	1	7	0	0
IL9R	3581	hgsc.bcm.edu;broad.mit.edu;ucsc.edu	37	X	155232601	155232601	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	IL9R-40	NM_176786	exon3	c.G200A	p.R67Q	TGAGGCGAGACAT	.	236	84	282	1	.	0	0	0	0	0
CORO1B	57175	hgsc.bcm.edu;broad.mit.edu	37	11	67207603	67207603	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	CORO1B-108	NM_020441	exon8	c.993delG	p.K331fs	.	.	139	65	172	0	.	0	0	0	0	0
SMPD2	6610	hgsc.bcm.edu;broad.mit.edu	37	6	109763791	109763791	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	SMPD2-90	NM_003080	exon6	c.454delC	p.R152fs	.	.	259	117	205	0	.	0	0	0	0	0
GRM1	2911	broad.mit.edu	37	6	146350671	146350672	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-B3-4104-01A-01D-1458-08	TCGA-B3-4104-10A-01D-1458-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	368382d0-ad7f-4735-b04a-e806d2a2d9a4	23886794-9d4c-4511-82ee-830db88796d5	.	GRM1-1080	NM_000838	exon2	c.18_19insT	p.L6fs	CCTTTTGTTTTTT	.	339	6	339	0	.	0	0	0	0	0