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
PAFAH2	5051	hgsc.bcm.edu	37	1	26301009	26301009	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	PAFAH2-70	NM_000437	exon9	c.A891G	p.I297M	GGCACATATCTTC	.	59	3	125	0	.	3	3	0	0	0
UBXN11	91544	hgsc.bcm.edu	37	1	26608825	26608825	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	UBXN11-91	NM_183008	exon16	c.A1528G	p.S510G	AGGGACTGGGGCC	.	61	4	63	2	.	0	0	0	0	0
BAI2	576	hgsc.bcm.edu	37	1	32210251	32210251	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	BAI2-526	NM_001703	exon5	c.C920G	p.T307R	TTACCTGTCTGCG	.	40	3	53	0	.	0	0	0	0	0
KIAA0754	643314	hgsc.bcm.edu	37	1	39879289	39879289	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	.	NM_015038	exon1	c.G3352A	p.A1118T	GAGCCCGCCTCCC	.	59	11	19	2	.	0	0	0	0	0
ZMPSTE24	10269	broad.mit.edu	37	1	40733505	40733505	+	Silent	SNP	A	A	G	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	ZMPSTE24-226	NM_005857	exon3	c.A318G	p.G106G	TTCTGGACGGTTC	.	569	5	419	0	.	2	2	0	0	0
LRP8	7804	ucsc.edu	37	1	53723084	53723084	+	Silent	SNP	T	T	G	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	LRP8-90	NM_004631	exon15	c.A2262C	p.V754V	GGCAGGTACTGTC	.	188	32	109	12	.	26	19	7	0	0
SASS6	163786	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	1	100572938	100572938	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	SASS6-70	NM_194292	exon11	c.G1318C	p.E440Q	CTTGCTCTTTAAT	.	88	13	143	0	.	0	0	0	0	0
TARS2	80222	broad.mit.edu	37	1	150471422	150471422	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	TARS2-91	NM_025150	exon12	c.C1451T	p.A484V	TCTATGCCGTTCT	.	699	7	348	1	.	31	31	0	0	0
RPTN	126638	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	152127802	152127802	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	RPTN-68	NM_001122965	exon3	c.A1773G	p.I591M	CCCTTGTATTTCC	.	769	224	594	0	.	0	0	0	0	0
NUP210L	91181	broad.mit.edu	37	1	153991451	153991451	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	NUP210L-77	NM_001159484	exon33	c.G4611T	p.M1537I	AAAAATCATTGCA	.	183	6	136	0	.	0	0	0	0	0
GBA	2629	ucsc.edu	37	1	155206133	155206133	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	GBA-92	NM_001005742	exon9	c.T1127G	p.F376C	GAGGCAAAGAGCA	.	203	1	101	0	.	37	29	8	0	0
FAM129A	116496	hgsc.bcm.edu;broad.mit.edu	37	1	184767228	184767228	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	FAM129A-94	NM_052966	exon13	c.G1651T	p.D551Y	TTTCATCAAGCAG	.	87	8	69	0	.	0	0	0	0	0
PTPN14	5784	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	214557259	214557259	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	PTPN14-290	NM_005401	exon13	c.A1939G	p.N647D	TGCTGTTCATCAC	.	169	55	71	0	.	0	0	0	0	0
MARC1	64757	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	220971317	220971317	+	Silent	SNP	G	G	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	.	NM_022746	exon4	c.G714A	p.R238R	CTTCAGGCCCAAT	.	498	119	376	0	.	17	9	8	0	0
SLC35F3	148641	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	1	234458910	234458910	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	SLC35F3-92	NM_173508	exon8	c.A1394T	p.E465V	AGGAGGAGCCTGC	.	281	36	160	0	.	0	0	0	0	0
GTPBP4	23560	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	10	1043230	1043230	+	Silent	SNP	G	G	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	GTPBP4-92	NM_012341	exon5	c.G543A	p.K181K	TGGGAAGTCCAGC	.	456	204	390	1	.	20	11	9	0	0
PFKP	5214	ucsc.edu	37	10	3172124	3172124	+	Silent	SNP	A	A	G	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	PFKP-253	NM_002627	exon17	c.A1797G	p.G599G	GGCCGGAGCTGAT	.	125	4	98	4	.	0	0	0	0	0
R3HCC1L	27291	hgsc.bcm.edu	37	10	99967975	99967975	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	.	NM_001256620	exon4	c.A104G	p.D35G	CAGGTGATGAAGA	.	29	2	142	0	.	5	5	0	0	0
MUC5B	727897	broad.mit.edu	37	11	1258389	1258389	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	.	NM_002458	exon25	c.T3292G	p.S1098A	TGCCGCTCCCAGG	.	30	3	36	1	.	0	0	0	0	0
PIK3C2A	5286	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	17190402	17190402	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	PIK3C2A-1310	NM_002645	exon1	c.C887T	p.S296L	AAACTTGAAACAT	.	278	59	276	0	.	9	9	0	0	0
MS4A12	54860	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	60268545	60268545	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	MS4A12-90	NM_017716	exon3	c.C304T	p.H102Y	TTGATGCACATTG	.	298	44	591	0	.	0	0	0	0	0
VWCE	220001	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	11	61026692	61026692	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	VWCE-91	NM_152718	exon20	c.G2323T	p.E775X	GGGCCTCAGTGTC	.	112	22	117	0	.	0	0	0	0	0
AHNAK	79026	ucsc.edu	37	11	62295728	62295728	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	AHNAK-109	NM_001620	exon5	c.C6161T	p.P2054L	AACTTGGGCATTT	.	802	2	615	1	.	46	39	7	0	0
NXPE4	54827	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	11	114465481	114465481	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	.	NM_001077639	exon2	c.A1C	p.M1L	TTTTCATGATTAG	.	45	8	155	0	.	0	0	0	0	0
PCSK7	9159	hgsc.bcm.edu	37	11	117079626	117079626	+	Missense_Mutation	SNP	G	G	C	rs36047333	bycluster	TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	PCSK7-658	NM_004716	exon13	c.C1678G	p.R560G	TGCTGCGGGGGGC	.	45	11	46	2	G|0.875;C|0.125	4	4	0	0	0
ESAM	90952	broad.mit.edu	37	11	124624584	124624584	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	ESAM-90	NM_138961	exon5	c.A683G	p.N228S	ACCTCATTGTGGG	.	304	4	244	0	.	0	0	0	0	0
M6PR	4074	hgsc.bcm.edu;broad.mit.edu	37	12	9096395	9096395	+	Splice_Site	SNP	A	A	G	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	M6PR-90	NM_002355	exon5	c.453+2T>C	.	TGCCTCACCGCTA	.	100	18	150	0	.	0	0	0	0	0
HEATR5A	25938	ucsc.edu	37	14	31782236	31782236	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	HEATR5A-23	NM_015473	exon28	c.C4379T	p.A1460V	TGAAGTGCAGCAA	.	116	1	176	0	.	0	0	0	0	0
AHNAK2	113146	broad.mit.edu	37	14	105412623	105412623	+	Silent	SNP	A	A	G	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	AHNAK2-47	NM_138420	exon7	c.T9165C	p.A3055A	GAGGCCAGCTCCC	.	319	5	316	0	.	11	0	11	0	0
MEIS2	4212	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	15	37184626	37184626	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	MEIS2-92	NM_170675	exon12	c.G1182T	p.Q394H	ACCACCCTGAGAA	.	214	59	591	1	.	0	0	0	0	0
RHBDL1	9028	hgsc.bcm.edu	37	16	726121	726121	+	Missense_Mutation	SNP	G	G	C	rs200482219		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	RHBDL1-90	NM_003961	exon1	c.G20C	p.G7A	AAGACGGGGGAAC	.	11	6	6	2	G|0.998;C|0.002	3	0	3	0	0
TNP2	7142	broad.mit.edu	37	16	11362955	11362955	+	Silent	SNP	G	G	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	.	NM_005425	exon1	c.C165T	p.S55S	GCGGTGGCTGGCC	.	612	7	309	0	.	0	0	0	0	0
B3GNT9	84752	hgsc.bcm.edu	37	16	67183948	67183948	+	Silent	SNP	C	C	T	rs146483793		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	.	NM_033309	exon2	c.G441A	p.G147G	CAGCGCCCCCTGC	.	7	4	4	1	C|0.998;T|0.002	0	0	0	0	0
CRISPLD2	83716	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	16	84940197	84940197	+	Silent	SNP	G	G	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	CRISPLD2-90	NM_031476	exon15	c.G1443A	p.L481L	CAGCCTGGGGACT	.	282	59	256	0	.	0	0	0	0	0
ACACA	31	ucsc.edu	37	17	35487095	35487095	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	ACACA-154	NM_198834	exon46	c.A5729G	p.Q1910R	ATAATCTGGATGC	.	511	2	296	0	.	0	0	0	0	0
KRTAP4-9	100132386	broad.mit.edu	37	17	39262039	39262039	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	.	NM_001146041	exon1	c.C399G	p.S133R	GTCCAGCTGCTGC	.	193	21	50	2	.	0	0	0	0	0
KRTAP4-5	85289	hgsc.bcm.edu	37	17	39305625	39305625	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	KRTAP4-5-90	NM_033188	exon1	c.A395G	p.H132R	GAGGGGTGGCAGC	.	181	10	47	1	.	0	0	0	0	0
PLEKHM1	9842	broad.mit.edu	37	17	43531102	43531102	+	Missense_Mutation	SNP	A	A	G	rs2684498		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	PLEKHM1-90	NM_014798	exon7	c.T2116C	p.S706P	CCAAGGACAGAGA	.	209	4	122	1	.	10	0	10	0	0
NGFR	4804	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	17	47588006	47588006	+	Silent	SNP	G	G	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	NGFR-947	NM_002507	exon4	c.G801T	p.V267V	CCTTGTGGCCTAC	.	333	56	205	0	.	0	0	0	0	0
CA10	56934	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	17	49710848	49710848	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	CA10-516	NM_001082534	exon9	c.T953G	p.L318R	TACTGAAGCTTCT	.	156	23	197	1	.	0	0	0	0	0
OR4D1	26689	broad.mit.edu	37	17	56232804	56232804	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	OR4D1-91	NM_012374	exon1	c.G290A	p.C97Y	AGGGCTGCATGGC	.	583	7	227	1	.	0	0	0	0	0
COG1	9382	broad.mit.edu	37	17	71204538	71204538	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	COG1-91	NM_018714	exon14	c.C2891T	p.T964M	ACAACACGTCTGC	.	776	7	275	0	.	96	96	0	0	0
OLFM2	93145	ucsc.edu	37	19	9968019	9968019	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	OLFM2-132	NM_058164	exon4	c.T500C	p.M167T	GCACCCATCTCCT	.	187	1	145	0	.	15	5	10	0	0
ZNF681	148213	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	23926850	23926850	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	.	NM_138286	exon4	c.C1502T	p.T501I	TCTCCAGTATGAA	.	56	13	186	1	.	0	0	0	0	0
RYR1	6261	hgsc.bcm.edu	37	19	38943527	38943527	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	RYR1-100	NM_001042723	exon13	c.A1313G	p.E438G	CCATCGAGGGCGT	.	34	2	25	0	.	3	3	0	0	0
ADCK4	79934	broad.mit.edu	37	19	41198098	41198098	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	ADCK4-319	NM_024876	exon15	c.G1477A	p.A493T	CCCCTGCCAGCTT	.	22	3	16	0	.	9	9	0	0	0
GRIN2D	2906	hgsc.bcm.edu	37	19	48945880	48945880	+	Silent	SNP	T	T	C	rs62130268		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	GRIN2D-156	NM_000836	exon13	c.T2697C	p.A899A	CAGCGCTGAGGCC	.	5	5	1	1	T|0.245;C|0.755	0	0	0	0	0
HRC	3270	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	19	49657602	49657602	+	Missense_Mutation	SNP	C	C	T	rs146437807		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	HRC-91	NM_002152	exon1	c.G893A	p.R298Q	TGGCTTCGGTGCC	.	164	88	95	0	C|1.000;T|0.000	0	0	0	0	0
MYT1L	23040	broad.mit.edu	37	2	1921002	1921002	+	Silent	SNP	C	C	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	MYT1L-95	NM_015025	exon11	c.G1587A	p.P529P	TTTGTGCGGGCAT	.	807	8	448	1	.	0	0	0	0	0
RAB11FIP5	26056	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	73315269	73315269	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	RAB11FIP5-90	NM_015470	exon3	c.G1477A	p.A493T	GGGAGGCCCCCAG	.	484	55	249	0	.	0	0	0	0	0
RETSAT	54884	broad.mit.edu	37	2	85571180	85571180	+	Missense_Mutation	SNP	G	G	A	rs149307146		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	RETSAT-70	NM_017750	exon9	c.C1475T	p.S492F	ACAAAGGAGTTTT	.	344	6	181	0	G|1.000;A|0.000	7	0	7	0	0
LCT	3938	broad.mit.edu	37	2	136575259	136575259	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	LCT-101	NM_002299	exon6	c.C1359G	p.F453L	GATGGAGAACTTG	.	275	4	157	0	.	0	0	0	0	0
SCN3A	6328	broad.mit.edu	37	2	166010994	166010994	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	SCN3A-141	NM_001081676	exon11	c.G1348A	p.E450K	GCTGTTCGAGCAT	.	90	7	202	1	.	0	0	0	0	0
TTC30B	150737	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	178416990	178416990	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	.	NM_152517	exon1	c.G502A	p.G168R	ACTGTCCCTCCTT	.	828	103	459	1	.	0	0	0	0	0
TTN	7273	broad.mit.edu	37	2	179415765	179415765	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	TTN-636	NM_001267550	exon336	c.C91493T	p.A30498V	TTTCTTGCAATTA	.	36	3	83	0	.	0	0	0	0	0
TTLL4	9654	broad.mit.edu	37	2	219612347	219612347	+	Silent	SNP	C	C	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	TTLL4-93	NM_014640	exon11	c.C2277T	p.S759S	CATCAGCGGCAGC	.	383	7	225	0	.	6	6	0	0	0
FAM124B	79843	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	2	225266233	225266233	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	FAM124B-92	NM_024785	exon1	c.G253A	p.V85I	CCAGGACGCGAAA	.	145	20	105	0	.	0	0	0	0	0
COL6A3	1293	bcgsc.ca	37	2	238244962	238244962	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	-	-	-	-	Unknown	Untested	Somatic	Phase_1	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	COL6A3-526	NM_004369	exon40	c.G8781C	p.M2927I	AGTGGCCATCTTT	.	376	17	190	0	.	0	0	0	0	0
GFRA4	64096	hgsc.bcm.edu	37	20	3641542	3641542	+	Silent	SNP	G	G	A	rs58634535		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	GFRA4-90	NM_145762	exon2	c.C441T	p.L147L	CGGAGAGAGGCCC	.	4	4	3	1	G|0.788;A|0.212	0	0	0	0	0
LTN1	26046	hgsc.bcm.edu	37	21	30339122	30339122	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	LTN1-530	NM_015565	exon10	c.A1829G	p.E610G	CAGCCTTCAATCT	.	36	2	122	0	.	0	0	0	0	0
SCAF4	57466	ucsc.edu	37	21	33044135	33044135	+	Silent	SNP	A	A	G	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	SCAF4-90	NM_020706	exon20	c.T3021C	p.N1007N	CACCCTATTTCCA	.	372	1	296	0	.	10	10	0	0	0
THOC5	8563	ucsc.edu	37	22	29924124	29924124	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	THOC5-585	NM_001002878	exon12	c.C1009T	p.R337C	CCTTGCGTTTGTC	.	204	1	205	0	.	7	2	5	0	0
EXOSC7	23016	ucsc.edu	37	3	45049021	45049021	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	EXOSC7-90	NM_015004	exon7	c.T725G	p.V242G	GGAAAGTGGGGAA	.	71	2	61	0	.	0	0	0	0	0
PFKFB4	5210	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	48577177	48577177	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	PFKFB4-153	NM_004567	exon5	c.G406T	p.E136X	TCCGTTCTCGGGT	.	124	49	143	0	.	0	0	0	0	0
NPRL2	10641	ucsc.edu	37	3	50385070	50385070	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic		WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	NPRL2-278	NM_006545	exon11	c.A1110T	p.E370D	GTCATTTTCAAGC	.	113	1	106	0	.	21	10	11	0	0
TKT	7086	hgsc.bcm.edu;broad.mit.edu	37	3	53264627	53264627	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	TKT-92	NM_001258028	exon9	c.G977A	p.R326H	GCCTTGCGGGTGG	.	98	6	72	0	.	1	1	0	0	0
PPP4R2	151987	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	73110176	73110176	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	PPP4R2-227	NM_174907	exon5	c.T384A	p.N128K	GCAGAATGTGATG	.	34	8	68	0	.	0	0	0	0	0
MED12L	116931	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	3	151072983	151072983	+	Missense_Mutation	SNP	C	C	T	rs200848773	alternate_allele	TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	MED12L-576	NM_053002	exon16	c.C2368T	p.L790F	ACTAAACTCCAGC	.	61	17	151	0	C|0.999;G|0.001	0	0	0	0	0
SLC6A18	348932	broad.mit.edu	37	5	1244416	1244416	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	SLC6A18-91	NM_182632	exon10	c.C1424T	p.A475V	ATTTTGCCGCTTC	.	246	5	214	1	.	1	1	0	0	0
HIST1H2BL	8340	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	27775403	27775403	+	Silent	SNP	C	C	T	rs141648774	alternate_allele	TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	HIST1H2BL-90	NM_003519	exon1	c.G282A	p.E94E	CTGGATCTCCCTG	.	197	143	176	0	C|1.000;A|0.000	6	0	6	0	0
HLA-C	3107	hgsc.bcm.edu	37	6	31239420	31239420	+	Missense_Mutation	SNP	A	A	T	rs41550619		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	HLA-C-90	NM_002117	exon2	c.T299A	p.V100E	AGGCTCACTCGGT	.	149	10	80	1	.	140	140	0	0	0
LY6G6F	259215	broad.mit.edu	37	6	31675742	31675742	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	LY6G6F-567	NM_001003693	exon3	c.G477A	p.W159X	GACCTGGCAGGAA	.	228	6	173	1	.	0	0	0	0	0
HLA-DRB5	3127	hgsc.bcm.edu	37	6	32489853	32489853	+	Silent	SNP	A	A	G	rs78961241	byfrequency;alternate_allele	TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	HLA-DRB5-90	NM_002125	exon2	c.T199C	p.L67L	AGCGCAAGTCCTC	.	8	8	5	2	A|0.266;C|0.734	0	0	0	0	0
DEFB112	245915	hgsc.bcm.edu	37	6	50011485	50011485	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	DEFB112-90	NM_001037498	exon2	c.A145G	p.S49G	ACCTACTAAAGGT	.	34	2	265	1	.	0	0	0	0	0
MLIP	90523	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	6	53989447	53989447	+	Silent	SNP	T	T	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	MLIP-99	NM_138569	exon3	c.T396C	p.I132I	CCTTATTGTGGAC	.	166	127	250	0	.	0	0	0	0	0
TRRAP	8295	broad.mit.edu	37	7	98563408	98563408	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	TRRAP-923	NM_001244580	exon48	c.G7045T	p.A2349S	ATCCAGGCCATCC	.	135	9	105	1	.	0	0	0	0	0
NOS3	4846	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	7	150698913	150698913	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	NOS3-1011	NM_001160111	exon12	c.G1507A	p.V503M	AGCGCCGTGAAGA	.	174	53	148	0	.	0	0	0	0	0
OXR1	55074	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	8	107752622	107752622	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	OXR1-68	NM_001198532	exon13	c.T2218A	p.Y740N	CTTGTTTATGGTA	.	75	11	234	0	.	32	32	0	0	0
AAED1	195827	hgsc.bcm.edu	37	9	99413724	99413724	+	Silent	SNP	T	T	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	.	NM_153698	exon4	c.A369G	p.R123R	AATTTCTCTCTCA	.	57	3	106	0	.	9	9	0	0	0
AKNA	80709	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	9	117139726	117139726	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	AKNA-94	NM_030767	exon3	c.A361G	p.T121A	CTTCAGTCATGTC	.	163	84	129	0	.	0	0	0	0	0
DBC1	1620	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	9	121930244	121930244	+	Silent	SNP	C	C	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	DBC1-582	NM_014618	exon8	c.G1404A	p.S468S	CCGCTCCGAGTCC	.	107	26	92	0	.	0	0	0	0	0
NLGN3	54413	broad.mit.edu	37	X	70387072	70387072	+	Silent	SNP	C	C	T	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	NLGN3-131	NM_181303	exon7	c.C1125T	p.G375G	CTTTGGCCCTGTG	.	145	4	73	0	.	0	0	0	0	0
HDAC8	55869	hgsc.bcm.edu;broad.mit.edu;ucsc.edu;bcgsc.ca	37	X	71681922	71681922	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	HDAC8-226	NM_018486	exon9	c.C937G	p.R313G	AGCATCGAGCCGT	.	35	10	77	1	.	8	8	0	0	0
TMCO2	127391	broad.mit.edu	37	1	40713708	40713709	+	Frame_Shift_Del	DEL	TC	TC	-	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	TC	TC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	TMCO2-91	NM_001008740	exon1	c.43_44del	p.15_15del	TTAGAGTCTCTCT	.	596	9	412	0	.	0	0	0	0	0
NES	10763	broad.mit.edu	37	1	156642804	156642804	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	NES-520	NM_006617	exon4	c.1176delC	p.P392fs	AGGTGTGGGGGGG	.	806	7	385	0	.	0	0	0	0	0
TPR	7175	broad.mit.edu	37	1	186327733	186327735	+	In_Frame_Del	DEL	GAT	GAT	-	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	GAT	GAT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	TPR-228	NM_003292	exon13	c.1437_1439del	p.479_480del	AGTACAGATGATT	.	63	7	205	0	.	0	0	0	0	0
TMC8	147138	broad.mit.edu	37	17	76134728	76134757	+	In_Frame_Del	DEL	GCCCTTGGGCTCCCGCCCATTGGCCAGCGT	GCCCTTGGGCTCCCGCCCATTGGCCAGCGT	-	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	GCCCTTGGGCTCCCGCCCATTGGCCAGCGT	GCCCTTGGGCTCCCGCCCATTGGCCAGCGT	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	TMC8-90	NM_152468	exon14	c.1738_1767del	p.580_589del	CTGGTGGCCCTTG	.	470	9	172	0	.	0	0	0	0	0
HAVCR1	26762	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	5	156482352	156482362	+	Frame_Shift_Del	DEL	AATAGCTTATA	AATAGCTTATA	-	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	AATAGCTTATA	AATAGCTTATA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	HAVCR1-92	NM_001099414	exon3	c.229_239del	p.77_80del	.	.	271	52	128	0	.	0	0	0	0	0
NSD1	64324	broad.mit.edu	37	5	176710903	176710903	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	NSD1-188	NM_022455	exon20	c.6125delT	p.L2042fs	TAGGCCTTTTTGC	.	1028	7	371	0	.	0	0	0	0	0
RGS9	8787	broad.mit.edu	37	17	63156389	63156390	+	Nonsense_Mutation	INS	-	-	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none			Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	RGS9-94	NM_001081955	exon4	c.244_245insA	p.Y82_I83delinsX	TATGGCTACATTT	.	618	13	168	0	.	0	0	0	0	0
EPG5	57724	hgsc.bcm.edu;broad.mit.edu;bcgsc.ca	37	18	43514887	43514888	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-AL-3466-01A-01D-1252-08	TCGA-AL-3466-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	75de0b05-e8e7-4591-99ef-c50d0772ca3b	656d840f-c095-487f-9c3a-712f21c7cdc8	.	EPG5-580	NM_020964	exon11	c.2145_2146insT	p.L715fs	.	.	151	34	123	0	.	0	0	0	0	0