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	COSMIC_Gene_Freq	COSMIC_Site_Freq	TVarRat	NVarRat	dbSNP_Strength	dbSNP_AF	dbSNP_PopFreq	Confidence	Algorithm
VCAM1	7412	hgsc.bcm.edu	hg19	1	101198018	101198018	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	VCAM1	NM_001078	exon7	c.C1570G	p.L524V	TCCATCCTGGAGG	.	27.0	9.0	63.0	0.0	.	111	.	.	.	none	.	.	PASS	Atlas-SNP
TTC24	164118	hgsc.bcm.edu	hg19	1	156552861	156552861	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	TTC24	NM_001105669	exon4	c.G938C	p.G313A	AGCAGGGCCGGAG	.	183.0	38.0	190.0	0.0	.	46	.	.	.	none	.	.	PASS	Atlas-SNP
SPTA1	6708	hgsc.bcm.edu	hg19	1	158596772	158596772	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	SPTA1	NM_003126	exon41	c.A5690G	p.K1897R	ATCTCTTTGTTCT	.	127.0	19.0	97.0	0.0	.	720	.	.	.	none	.	.	PASS	Atlas-SNP
OLFML2B	25903	hgsc.bcm.edu	hg19	1	161989778	161989778	+	Silent	SNP	C	C	G	rs138821383	bycluster;by1000genomes;alternate_allele	TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	OLFML2B	NM_015441	exon2	c.G369C	p.S123S	GAGGGCCGATGGG	.	190.0	8.0	149.0	0.0	.	114	.	.	.	alt	C|1.000;T|0.000	.	PASS	Atlas-SNP
HHIPL2	79802	hgsc.bcm.edu	hg19	1	222715413	222715413	+	Silent	SNP	G	G	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	HHIPL2,NS,carcinoma,0,1	HHIPL2	NM_024746	exon3	c.C1059T	p.F353F	CCCAGTGAATATG	.	207.0	10.0	165.0	0.0	.	122	.	.	.	none	.	.	PASS	Atlas-SNP
RYR2	6262	hgsc.bcm.edu	hg19	1	237993878	237993878	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	RYR2,NS,carcinoma,0,1	RYR2	NM_001035	exon103	c.C14704T	p.P4902S	ACAGTGCCACATG	.	212.0	74.0	132.0	0.0	.	1273	.	.	.	none	.	.	PASS	Atlas-SNP
CHRM3	1131	hgsc.bcm.edu	hg19	1	240072456	240072456	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	CHRM3	NM_000740	exon5	c.C1705T	p.R569C	AAGAGGCGCAAGC	.	210.0	18.0	161.0	0.0	.	118	.	.	.	none	.	.	PASS	Atlas-SNP
RAD51AP2	729475	hgsc.bcm.edu	hg19	2	17699184	17699184	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	RAD51AP2	NM_001099218	exon1	c.A499C	p.I167L	CATGTATATCGTG	.	125.0	27.0	72.0	0.0	.	134	.	.	.	none	.	.	PASS	Atlas-SNP
DNMT3A	1788	hgsc.bcm.edu	hg19	2	25458669	25458669	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	DNMT3A,rectum,carcinoma,+1,1	DNMT3A	NM_175629	exon22	c.C2504T	p.T835M	GACCTCGTAGTAA	.	271.0	88.0	146.0	1.0	.	1807	.	.	.	none	.	.	PASS	Atlas-SNP
CEBPZ	10153	hgsc.bcm.edu	hg19	2	37430124	37430124	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	CEBPZ	NM_005760	exon14	c.A2912T	p.N971I	GAATCATTTAAGT	.	216.0	75.0	150.0	0.0	.	68	.	.	.	none	.	.	PASS	Atlas-SNP
PREPL	9581	hgsc.bcm.edu	hg19	2	44566372	44566372	+	Nonsense_Mutation	SNP	G	G	A	rs145356495		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	PREPL	NM_001171603	exon7	c.C883T	p.R295X	GTATTCGCTTCTG	.	182.0	14.0	161.0	0.0	.	69	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
PREPL	9581	hgsc.bcm.edu	hg19	2	44566451	44566451	+	Silent	SNP	A	A	G	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	PREPL	NM_001171603	exon7	c.T804C	p.N268N	CATAATATTTATG	.	142.0	16.0	143.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC88A	55704	hgsc.bcm.edu	hg19	2	55561724	55561724	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	CCDC88A	NM_018084	exon15	c.A2233C	p.K745Q	ATGCTTTCAGGAG	.	74.0	14.0	36.0	0.0	.	336	.	.	.	none	.	.	PASS	Atlas-SNP
MBD5	55777	hgsc.bcm.edu	hg19	2	149247732	149247732	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	MBD5	NM_018328	exon12	c.G3832A	p.E1278K	TTTAAGGAGAGAC	.	64.0	6.0	73.0	0.0	.	164	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC173	129881	hgsc.bcm.edu	hg19	2	170506849	170506849	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	.	NM_001085447	exon7	c.G1142A	p.R381Q	ATGGCTCGATATT	.	64.0	4.0	51.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
SF3B1	23451	hgsc.bcm.edu	hg19	2	198265617	198265617	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	SF3B1	NM_012433	exon18	c.C2540T	p.A847V	ATTTCTGCTGCAC	.	78.0	11.0	91.0	0.0	.	1038	.	.	.	none	.	.	PASS	Atlas-SNP
PLEKHM3	389072	hgsc.bcm.edu	hg19	2	208725904	208725904	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	PLEKHM3	NM_001080475	exon7	c.G2033C	p.S678T	TTCTGGCTACAAA	.	133.0	7.0	119.0	0.0	.	101	.	.	.	none	.	.	PASS	Atlas-SNP
DGKD	8527	hgsc.bcm.edu	hg19	2	234368474	234368474	+	Silent	SNP	C	C	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	DGKD	NM_152879	exon23	c.C2766T	p.V922V	CTGGGTCCAGCCG	.	134.0	8.0	131.0	0.0	.	106	.	.	.	none	.	.	PASS	Atlas-SNP
FANCD2	2177	hgsc.bcm.edu	hg19	3	10089633	10089633	+	Silent	SNP	G	G	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	FANCD2	NM_001018115	exon16	c.G1311A	p.S437S	TCTGTCGCTGGCT	.	107.0	8.0	137.0	0.0	.	253	.	.	.	none	.	.	PASS	Atlas-SNP
SCN11A	11280	hgsc.bcm.edu	hg19	3	38962716	38962716	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	SCN11A	NM_014139	exon6	c.G743A	p.R248H	ACAGAGCGTAGCA	.	138.0	106.0	149.0	1.0	.	296	.	.	.	none	.	.	PASS	Atlas-SNP
AADACL2	344752	hgsc.bcm.edu	hg19	3	151475280	151475280	+	Silent	SNP	T	T	C	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	AADACL2	NM_207365	exon5	c.T1104C	p.D368D	TGAGGATGGAATT	.	191.0	15.0	137.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
SI	6476	hgsc.bcm.edu	hg19	3	164767590	164767590	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	SI	NM_001041	exon14	c.C1586T	p.P529L	GTAAACGGTGGAT	.	131.0	9.0	95.0	0.0	.	500	.	.	.	none	.	.	PASS	Atlas-SNP
KLB	152831	hgsc.bcm.edu	hg19	4	39439409	39439409	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	KLB	NM_175737	exon3	c.G1399C	p.E467Q	GGCTTTGAATGGC	.	112.0	15.0	178.0	0.0	.	95	.	.	.	none	.	.	PASS	Atlas-SNP
POLR2B	5431	hgsc.bcm.edu	hg19	4	57889646	57889646	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	POLR2B	NM_000938	exon19	c.A2666T	p.K889M	ATACCAAGAGAGA	.	92.0	7.0	167.0	0.0	.	108	.	.	.	none	.	.	PASS	Atlas-SNP
GUCY1B3	2983	hgsc.bcm.edu	hg19	4	156724870	156724870	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	GUCY1B3	NM_000857	exon11	c.T1508G	p.M503R	TGGACATGATGGA	.	39.0	4.0	82.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH5	1767	hgsc.bcm.edu	hg19	5	13771076	13771076	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	DNAH5	NM_001369	exon56	c.C9387A	p.F3129L	AGTGAGGAAGTGT	.	104.0	7.0	70.0	0.0	.	868	.	.	.	none	.	.	PASS	Atlas-SNP
DDX4	54514	hgsc.bcm.edu	hg19	5	55110902	55110902	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	DDX4	NM_024415	exon20	c.G1889A	p.R630H	TTGGGCGTACTGG	.	287.0	16.0	244.0	0.0	.	194	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHGA1	56114	hgsc.bcm.edu	hg19	5	140711698	140711698	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	PCDHGA1_ENST00000517417,bladder,carcinoma,0,2	PCDHGA1	NM_018912	exon1	c.G1447A	p.E483K	AGCAATGAGAATG	.	75.0	15.0	74.0	0.0	.	397	.	.	.	none	.	.	PASS	Atlas-SNP
FLT4	2324	hgsc.bcm.edu	hg19	5	180050943	180050943	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	FLT4	NM_182925	exon11	c.A1540T	p.K514X	TATTCTTTCCCTC	.	197.0	21.0	203.0	0.0	.	356	.	.	.	none	.	.	PASS	Atlas-SNP
HIST1H2AE	3012	hgsc.bcm.edu	hg19	6	26217223	26217223	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	HIST1H2AE	NM_021052	exon1	c.A21T	p.Q7H	AAAGCAAGGCGGC	.	131.0	68.0	193.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	hg19	6	51889790	51889790	+	Silent	SNP	G	G	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	PKHD1_ENST00000340994,lower_third,carcinoma,0,2	PKHD1	NM_170724	exon32	c.C4818T	p.V1606V	AATATAGACTGAC	.	209.0	9.0	209.0	0.0	.	927	.	.	.	none	.	.	PASS	Atlas-SNP
PM20D2	135293	hgsc.bcm.edu	hg19	6	89859124	89859124	+	Silent	SNP	T	T	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	PM20D2	NM_001010853	exon2	c.T606A	p.A202A	TATGGCTGAACAT	.	79.0	6.0	98.0	0.0	.	30	.	.	.	none	.	.	PASS	Atlas-SNP
HDDC2	51020	hgsc.bcm.edu	hg19	6	125619919	125619919	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	HDDC2	NM_016063	exon3	c.G250A	p.V84I	CCCCAACGATGCA	.	185.0	85.0	179.0	0.0	.	21	.	.	.	none	.	.	PASS	Atlas-SNP
SNX10	29887	hgsc.bcm.edu	hg19	7	26404687	26404687	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	SNX10	NM_001199835	exon5	c.C233G	p.S78C	TTCCATCTAAAAA	.	109.0	6.0	81.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC129	223075	hgsc.bcm.edu	hg19	7	31609394	31609394	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	CCDC129	NM_001257968	exon5	c.G357T	p.M119I	AGGGATGGTTCAA	.	147.0	24.0	140.0	0.0	.	127	.	.	.	none	.	.	PASS	Atlas-SNP
CFTR	1080	hgsc.bcm.edu	hg19	7	117267708	117267708	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	CFTR	NM_000492	exon22	c.G3601T	p.D1201Y	AAGAAAGATGACA	.	103.0	24.0	91.0	0.0	.	171	.	.	.	none	.	.	PASS	Atlas-SNP
CCNE2	9134	hgsc.bcm.edu	hg19	8	95906316	95906316	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	CCNE2	NM_057749	exon3	c.C46T	p.P16S	GGCTGGGCTGGGG	.	89.0	19.0	71.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
ALAD	210	hgsc.bcm.edu	hg19	9	116153879	116153879	+	Silent	SNP	C	C	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	ALAD	NM_000031	exon4	c.G189A	p.E63E	CAGCATCTCTTCC	.	116.0	5.0	189.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
PHF19	26147	hgsc.bcm.edu	hg19	9	123620475	123620475	+	Missense_Mutation	SNP	C	C	T	rs144405933		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	PHF19	NM_015651	exon15	c.G1490A	p.R497H	GGGCAGCGTCCAT	.	45.0	21.0	80.0	0.0	.	47	.	.	.	weak	C|1.000;T|0.000	0.000	PASS	Atlas-SNP
FUBP3	8939	hgsc.bcm.edu	hg19	9	133501892	133501892	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	FUBP3	NM_003934	exon12	c.G1117A	p.G373R	GGCAAAGGTAAGA	.	83.0	4.0	132.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	hg19	10	16955917	16955917	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	CUBN,NS,carcinoma,0,1	CUBN	NM_001081	exon48	c.C7426T	p.R2476W	AGATCCGGCCATG	.	42.0	14.0	68.0	0.0	.	515	.	.	.	none	.	.	PASS	Atlas-SNP
COMMD3-BMI1	0	hgsc.bcm.edu	hg19	10	22618246	22618246	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	.	NM_001204062	exon14	c.C1185G	p.D395E	AAGTGACTCTGGG	.	65.0	22.0	74.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
ABCC2	1244	hgsc.bcm.edu	hg19	10	101578919	101578919	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	ABCC2	NM_000392	exon19	c.C2513A	p.T838K	ATGGAACAATTGT	.	105.0	21.0	88.0	0.0	.	160	.	.	.	none	.	.	PASS	Atlas-SNP
OR6A2	8590	hgsc.bcm.edu	hg19	11	6816105	6816105	+	Missense_Mutation	SNP	C	C	A	rs369095527		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	OR6A2	NM_003696	exon1	c.G835T	p.V279F	CAGAGACCAACTT	.	152.0	18.0	192.0	0.0	.	68	.	.	.	weak	.	.	PASS	Atlas-SNP
IGSF22	283284	hgsc.bcm.edu	hg19	11	18738381	18738381	+	Silent	SNP	A	A	G	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	IGSF22	NM_173588	exon10	c.T1140C	p.D380D	CAGACCATCTTCG	.	370.0	109.0	443.0	0.0	.	211	.	.	.	none	.	.	PASS	Atlas-SNP
OR4S1	256148	hgsc.bcm.edu	hg19	11	48328626	48328626	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	OR4S1,colon,carcinoma,0,1	OR4S1	NM_001004725	exon1	c.C852G	p.I284M	TTTGATCTATACA	.	170.0	8.0	254.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
OR4D9	390199	hgsc.bcm.edu	hg19	11	59282746	59282746	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	OR4D9	NM_001004711	exon1	c.G361C	p.D121H	GCGTTTGACCGCT	.	72.0	6.0	115.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
SLCO2B1	11309	hgsc.bcm.edu	hg19	11	74875111	74875111	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	SLCO2B1	NM_007256	exon3	c.G251T	p.S84I	TCTCCAGCCAGAC	.	99.0	9.0	150.0	0.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
TENM4	26011	hgsc.bcm.edu	hg19	11	78413254	78413254	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	.	NM_001098816	exon28	c.G4404T	p.E1468D	GGCTGACTCCAGG	.	58.0	30.0	102.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
A2M	2	hgsc.bcm.edu	hg19	12	9251341	9251341	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	A2M	NM_000014	exon15	c.C1713G	p.S571R	GCTGAAGCTCAAA	.	88.0	15.0	73.0	0.0	.	180	.	.	.	none	.	.	PASS	Atlas-SNP
ABCD2	225	hgsc.bcm.edu	hg19	12	39973352	39973352	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	ABCD2,NS,malignant_melanoma,-1,1	ABCD2	NM_005164	exon8	c.G1862A	p.R621H	AACATACGAGCCA	.	72.0	13.0	60.0	0.0	.	127	.	.	.	none	.	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	hg19	12	49431988	49431988	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	MLL2	NM_003482	exon34	c.G9151C	p.A3051P	TATATGCCAGCAG	.	256.0	59.0	235.0	0.0	.	1173	.	.	.	none	.	.	PASS	Atlas-SNP
SHMT2	6472	hgsc.bcm.edu	hg19	12	57625677	57625677	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	SHMT2	NM_005412	exon4	c.G493C	p.D165H	GGGCTGGACCTGC	.	75.0	15.0	64.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
CYP27B1	1594	hgsc.bcm.edu	hg19	12	58160674	58160674	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	CYP27B1	NM_000785	exon1	c.G151C	p.E51Q	AAAGTTCGGCCAG	.	203.0	9.0	164.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
TCP11L2	255394	hgsc.bcm.edu	hg19	12	106717360	106717360	+	Missense_Mutation	SNP	C	C	G	rs138241328	alternate_allele	TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	TCP11L2	NM_152772	exon6	c.C708G	p.H236Q	ACCGCACCTTCAA	.	153.0	22.0	130.0	0.0	.	59	.	.	.	alt	C|1.000;T|0.000	.	PASS	Atlas-SNP
FAM222A	84915	hgsc.bcm.edu	hg19	12	110207030	110207030	+	Silent	SNP	G	G	A	rs138993259		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	.	NM_032829	exon3	c.G1296A	p.T432T	TGAGACGGTGGCC	.	209.0	18.0	154.0	0.0	.	.	.	.	.	weak	G|1.000;A|0.000	0.000	PASS	Atlas-SNP
TRPV4	59341	hgsc.bcm.edu	hg19	12	110234478	110234478	+	Missense_Mutation	SNP	G	G	A	rs374197231		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	TRPV4	NM_021625	exon7	c.C1184T	p.T395M	TCATCCGTCACCT	.	113.0	18.0	95.0	0.0	.	88	.	.	.	weak	.	.	PASS	Atlas-SNP
RCBTB1	55213	hgsc.bcm.edu	hg19	13	50134123	50134123	+	Silent	SNP	G	G	C	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	RCBTB1	NM_018191	exon5	c.C375G	p.L125L	GATCAAGAGATTG	.	217.0	47.0	224.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
NALCN	259232	hgsc.bcm.edu	hg19	13	101881861	101881861	+	Silent	SNP	T	T	C	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	NALCN	NM_052867	exon13	c.A1509G	p.G503G	CTTTTTTCCAGGA	.	18.0	7.0	51.0	0.0	.	431	.	.	.	none	.	.	PASS	Atlas-SNP
HECTD1	25831	hgsc.bcm.edu	hg19	14	31582629	31582629	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	HECTD1	NM_015382	exon33	c.G5918A	p.S1973N	TCACTACTTTGAA	.	52.0	10.0	53.0	0.0	.	159	.	.	.	none	.	.	PASS	Atlas-SNP
HEATR5A	25938	hgsc.bcm.edu	hg19	14	31763220	31763220	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	HEATR5A	NM_015473	exon35	c.T5710C	p.C1904R	TGATACAGGATGC	.	101.0	5.0	186.0	0.0	.	181	.	.	.	none	.	.	PASS	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	hg19	14	64519117	64519117	+	Nonsense_Mutation	SNP	T	T	G	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	SYNE2	NM_182914	exon48	c.T8486G	p.L2829X	AGCAATTAGAATT	.	45.0	6.0	50.0	0.0	.	577	.	.	.	none	.	.	PASS	Atlas-SNP
SIPA1L1	26037	hgsc.bcm.edu	hg19	14	72171977	72171977	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	SIPA1L1	NM_015556	exon14	c.C3748T	p.P1250S	GTACTGCCAGCTT	.	98.0	4.0	115.0	0.0	.	219	.	.	.	none	.	.	PASS	Atlas-SNP
CKB	1152	hgsc.bcm.edu	hg19	14	103988811	103988811	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	CKB	NM_001823	exon2	c.A20C	p.H7P	GCGTTGTGGCTGT	.	22.0	9.0	46.0	0.0	.	9	.	.	.	none	.	.	PASS	Atlas-SNP
SOLH	6650	hgsc.bcm.edu	hg19	16	598994	598994	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	SOLH	NM_005632	exon5	c.A1451G	p.N484S	TGCAGAACAATGT	.	65.0	4.0	85.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
MYH8	4626	hgsc.bcm.edu	hg19	17	10300168	10300168	+	Silent	SNP	A	A	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	MYH8	NM_002472	exon31	c.T4314A	p.S1438S	TGCATTAGACCTT	.	230.0	19.0	177.0	0.0	.	346	.	.	.	none	.	.	PASS	Atlas-SNP
CLTC	1213	hgsc.bcm.edu	hg19	17	57728648	57728648	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	CLTC	NM_004859	exon5	c.G766T	p.A256S	CCAGAAGCACAAA	.	195.0	8.0	148.0	0.0	.	124	.	.	.	none	.	.	PASS	Atlas-SNP
BPTF	2186	hgsc.bcm.edu	hg19	17	65960510	65960510	+	Missense_Mutation	SNP	G	G	T	rs368469411	alternate_allele	TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	BPTF	NM_182641	exon25	c.G8444T	p.R2815L	TGCTCCGTTCCTT	.	153.0	14.0	106.0	0.0	.	415	.	.	.	alt	.	.	PASS	Atlas-SNP
CBX4	8535	hgsc.bcm.edu	hg19	17	77807886	77807886	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	CBX4	NM_003655	exon5	c.C1555G	p.P519A	CGGCTGGAGGCTT	.	77.0	7.0	80.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
AZI1	22994	hgsc.bcm.edu	hg19	17	79165083	79165083	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	AZI1	NM_014984	exon22	c.G2675T	p.G892V	TCCCGGCCTTTCC	.	169.0	32.0	138.0	0.0	.	145	.	.	.	none	.	.	PASS	Atlas-SNP
PGLYRP2	114770	hgsc.bcm.edu	hg19	19	15587343	15587343	+	Silent	SNP	G	G	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	PGLYRP2	NM_052890	exon2	c.C138A	p.T46T	GTGTCTGGTCTTG	.	123.0	19.0	131.0	0.0	.	116	.	.	.	none	.	.	PASS	Atlas-SNP
GRAMD1A	57655	hgsc.bcm.edu	hg19	19	35512474	35512474	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	GRAMD1A	NM_020895	exon14	c.C1544T	p.S515L	AGAACTCGTGGAG	.	95.0	24.0	86.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF585B	92285	hgsc.bcm.edu	hg19	19	37680577	37680577	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	ZNF585B	NM_152279	exon4	c.G278A	p.R93H	CTGTGACGTGGCC	.	186.0	8.0	270.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
AHCY	191	hgsc.bcm.edu	hg19	20	32873337	32873337	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	AHCY	NM_000687	exon9	c.G1076A	p.S359N	GAGTTACTCATCA	.	140.0	27.0	103.0	0.0	.	43	.	.	.	none	.	.	PASS	Atlas-SNP
SMTN	6525	hgsc.bcm.edu	hg19	22	31484747	31484747	+	Silent	SNP	G	G	C	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	SMTN	NM_001207018	exon4	c.G525C	p.R175R	TGTACGGGCTCAG	.	94.0	26.0	141.0	0.0	.	219	.	.	.	none	.	.	PASS	Atlas-SNP
RAC2	5880	hgsc.bcm.edu	hg19	22	37627391	37627391	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	RAC2	NM_002872	exon5	c.A328T	p.I110F	GGATGATGGGTGT	.	225.0	83.0	273.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
SEPT6	23157	hgsc.bcm.edu	hg19	X	118797595	118797595	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	SEPT6	NM_145802	exon3	c.A191T	p.N64I	TTGGTGTTGAACA	.	87.0	9.0	147.0	0.0	.	53	.	.	.	none	.	.	PASS	Atlas-SNP
IFT74	80173	hgsc.bcm.edu	hg19	9	26962063	26962075	+	Frame_Shift_Del	DEL	GAAATATTCGAGT	GAAATATTCGAGT	-	novel		TCGA-IA-A40Y-01A-11D-A25F-10	TCGA-IA-A40Y-10A-01D-A25F-10	GAAATATTCGAGT	GAAATATTCGAGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad9455e9-7147-489e-9b1f-3540c457c260	aab4115c-fdfe-45ae-9a51-91ee50250623	.	IFT74	NM_001099222	exon2	c.97_109del	p.33_37del	.	.	27.0	10.0	84.0	0.0	.	46	.	0.370	.	none	.	.	PASS	Pindel