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
S100PBP	64766	hgsc.bcm.edu	hg19	1	33292095	33292095	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	S100PBP	NM_001256121	exon3	c.C395T	p.P132L	CTAAACCATTAAA	.	191.0	32.0	169.0	0.0	.	31	.	.	.	none	.	.	PASS	Atlas-SNP
CDC20	991	hgsc.bcm.edu	hg19	1	43825898	43825898	+	Silent	SNP	A	A	G	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	CDC20	NM_001255	exon6	c.A591G	p.V197V	GAATGTACTGGCC	.	100.0	50.0	80.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
PTGER3	5733	hgsc.bcm.edu	hg19	1	71512615	71512615	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	PTGER3	NM_001126044	exon1	c.G646A	p.G216S	CGTTGCCCCCTCG	.	137.0	42.0	90.0	0.0	.	246	.	.	.	none	.	.	PASS	Atlas-SNP
FUBP1	8880	hgsc.bcm.edu	hg19	1	78432739	78432739	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	FUBP1	NM_003902	exon5	c.G337T	p.G113X	TGAATCCAACCAT	.	175.0	81.0	179.0	0.0	.	112	.	.	.	none	.	.	PASS	Atlas-SNP
CDC42BPA	8476	hgsc.bcm.edu	hg19	1	227268711	227268711	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	CDC42BPA	NM_003607	exon17	c.C2363G	p.T788S	TACAAAGTAGTAA	.	82.0	40.0	78.0	0.0	.	528	.	.	.	none	.	.	PASS	Atlas-SNP
TRAPPC12	51112	hgsc.bcm.edu	hg19	2	3392180	3392180	+	Silent	SNP	C	C	G	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	.	NM_016030	exon2	c.C786G	p.P262P	CGAACCCGTGGCC	.	127.0	55.0	111.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
EGR4	1961	hgsc.bcm.edu	hg19	2	73519561	73519561	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	EGR4	NM_001965	exon2	c.C794G	p.S265W	CAAGGCGAGGCCT	.	106.0	50.0	105.0	0.0	.	52	.	.	.	none	.	.	PASS	Atlas-SNP
SPEG	10290	hgsc.bcm.edu	hg19	2	220299815	220299815	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	SPEG,brain,glioma,0,1	SPEG	NM_005876	exon1	c.T116C	p.V39A	TGGCCGTGGCCGG	.	9.0	4.0	4.0	2.0	.	272	.	.	.	none	.	.	PASS	Atlas-SNP
PET112	5188	hgsc.bcm.edu	hg19	4	152622569	152622569	+	Missense_Mutation	SNP	C	C	A	rs199827552	alternate_allele	TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	PET112	NM_004564	exon9	c.G1109T	p.R370L	GTCTCCCGAATCT	.	122.0	58.0	86.0	0.0	.	43	.	.	.	alt	C|0.999;T|0.001	.	PASS	Atlas-SNP
ZNF622	90441	hgsc.bcm.edu	hg19	5	16465654	16465654	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	ZNF622	NM_033414	exon1	c.C121T	p.P41S	TCACTGGGGCCAT	.	128.0	54.0	137.0	0.0	.	49	.	.	.	none	.	.	PASS	Atlas-SNP
PPAP2A	8611	hgsc.bcm.edu	hg19	5	54771139	54771139	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	PPAP2A	NM_003711	exon2	c.C198T	p.F66F	AATACTGAATGGA	.	113.0	50.0	134.0	0.0	.	42	.	.	.	none	.	.	PASS	Atlas-SNP
CMYA5	202333	hgsc.bcm.edu	hg19	5	79033639	79033639	+	Silent	SNP	A	A	G	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	CMYA5	NM_153610	exon2	c.A9051G	p.K3017K	ATTGAAAGAAAAT	.	396.0	189.0	318.0	0.0	.	643	.	.	.	none	.	.	PASS	Atlas-SNP
PCDHGC4	56098	hgsc.bcm.edu	hg19	5	140865299	140865299	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	PCDHGC4	NM_018928	exon1	c.G559A	p.D187N	CGCAGCGACGGCA	.	76.0	44.0	67.0	0.0	.	91	.	.	.	none	.	.	PASS	Atlas-SNP
JAKMIP2	9832	hgsc.bcm.edu	hg19	5	147028036	147028036	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	JAKMIP2	NM_001270941	exon5	c.A839T	p.D280V	CGCAAATCCTACA	.	71.0	30.0	89.0	0.0	.	154	.	.	.	none	.	.	PASS	Atlas-SNP
PEX6	5190	hgsc.bcm.edu	hg19	6	42946507	42946507	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	PEX6	NM_000287	exon1	c.G382A	p.G128R	TCTCTCCGCGCCT	.	25.0	14.0	16.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
MICAL1	64780	hgsc.bcm.edu	hg19	6	109771667	109771667	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	MICAL1	NM_022765	exon8	c.C1027A	p.H343N	TGCCATGGGTGGC	.	114.0	5.0	130.0	0.0	.	79	.	.	.	none	.	.	PASS	Atlas-SNP
ITGB8	3696	hgsc.bcm.edu	hg19	7	20403321	20403321	+	Silent	SNP	A	A	G	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	ITGB8	NM_002214	exon2	c.A189G	p.P63P	GGGTCCAGAATGT	.	136.0	36.0	64.0	0.0	.	159	.	.	.	none	.	.	PASS	Atlas-SNP
KLHL7	55975	hgsc.bcm.edu	hg19	7	23145688	23145688	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	KLHL7	NM_001172428	exon1	c.G43A	p.E15K	AAGACCGAGAAGA	.	160.0	41.0	82.0	0.0	.	102	.	.	.	none	.	.	PASS	Atlas-SNP
GRM3	2913	hgsc.bcm.edu	hg19	7	86469144	86469144	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	GRM3	NM_000840	exon4	c.G2314A	p.G772S	TTCATAGGTTTTA	.	183.0	35.0	74.0	0.0	.	237	.	.	.	none	.	.	PASS	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	hg19	7	100681533	100681533	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	MUC17	NM_001040105	exon3	c.C6836A	p.T2279N	GAACGACTCCATT	.	217.0	10.0	94.0	0.0	.	804	.	.	.	none	.	.	PASS	Atlas-SNP
CUL1	8454	hgsc.bcm.edu	hg19	7	148484199	148484199	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	CUL1	NM_003592	exon13	c.T1466G	p.I489S	GCATGATCTCCAA	.	155.0	53.0	58.0	0.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
OPLAH	26873	hgsc.bcm.edu	hg19	8	145112996	145112996	+	Silent	SNP	G	G	A	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	OPLAH	NM_017570	exon8	c.C1005T	p.A335A	TGTGCTGGCCTCG	.	169.0	80.0	156.0	0.0	.	78	.	.	.	none	.	.	PASS	Atlas-SNP
PTPRD	5789	hgsc.bcm.edu	hg19	9	8486309	8486309	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	PTPRD,leg,malignant_melanoma,0,1	PTPRD	NM_002839	exon28	c.G2508A	p.M836I	AGTATTCATCTGA	.	75.0	36.0	98.0	1.0	.	1348	.	.	.	none	.	.	PASS	Atlas-SNP
CACNA1B	774	hgsc.bcm.edu	hg19	9	140904505	140904505	+	Silent	SNP	G	G	C	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	CACNA1B	NM_001243812	exon17	c.G2136C	p.L712L	CAACCTGGCCAAC	.	100.0	43.0	108.0	0.0	.	266	.	.	.	none	.	.	PASS	Atlas-SNP
CACNA1B	774	hgsc.bcm.edu	hg19	9	140918184	140918184	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	CACNA1B	NM_001243812	exon19	c.A2989G	p.T997A	GAGACCACGGAGA	.	191.0	24.0	0.0	0.0	.	266	.	.	.	none	.	.	PASS	Atlas-SNP
CACNA1B	774	hgsc.bcm.edu	hg19	9	140918185	140918185	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	CACNA1B	NM_001243812	exon19	c.C2990T	p.T997M	AGACCACGGAGAA	.	189.0	30.0	0.0	0.0	.	266	.	.	.	none	.	.	PASS	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	hg19	10	16967343	16967343	+	Silent	SNP	T	T	C	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	CUBN	NM_001081	exon43	c.A6543G	p.S2181S	AGTTGATGAAGCA	.	350.0	165.0	319.0	1.0	.	515	.	.	.	none	.	.	PASS	Atlas-SNP
PDZD7	79955	hgsc.bcm.edu	hg19	10	102770293	102770293	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	PDZD7	NM_001195263	exon15	c.A2353C	p.S785R	CCCGGCTGCTGCG	.	386.0	21.0	365.0	0.0	.	101	.	.	.	none	.	.	PASS	Atlas-SNP
ADD3	120	hgsc.bcm.edu	hg19	10	111884029	111884029	+	Silent	SNP	C	C	T	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	ADD3	NM_001121	exon10	c.C1398T	p.I466I	CAAAATCACGGTA	.	193.0	96.0	155.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
SAA2-SAA4	100528017	hgsc.bcm.edu	hg19	11	18254055	18254055	+	Silent	SNP	A	A	G	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	.	NM_001199744	exon5	c.T351C	p.Y117Y	GTCCCAATAGGCT	.	108.0	48.0	101.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
BRCA2	675	hgsc.bcm.edu	hg19	13	32910939	32910939	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	BRCA2	NM_000059	exon11	c.A2447G	p.E816G	CCATGGAAAAGAA	.	306.0	146.0	271.0	0.0	.	812	.	.	.	none	.	.	PASS	Atlas-SNP
HOMEZ	57594	hgsc.bcm.edu	hg19	14	23744832	23744832	+	Silent	SNP	C	C	T	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	HOMEZ	NM_020834	exon2	c.G1605A	p.E535E	TTCCTCCTCCTCC	.	68.0	9.0	29.0	0.0	.	80	.	.	.	none	.	.	PASS	Atlas-SNP
MFAP1	4236	hgsc.bcm.edu	hg19	15	44106734	44106734	+	Silent	SNP	C	C	T	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	MFAP1	NM_005926	exon4	c.G582A	p.E194E	CTCCATCTCATCT	.	81.0	33.0	80.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
LCTL	197021	hgsc.bcm.edu	hg19	15	66856303	66856303	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	LCTL	NM_207338	exon3	c.A316T	p.N106Y	AGTGGTTGACGTG	.	78.0	40.0	89.0	0.0	.	73	.	.	.	none	.	.	PASS	Atlas-SNP
CDH13	1012	hgsc.bcm.edu	hg19	16	83378492	83378492	+	Missense_Mutation	SNP	A	A	G	rs374048975	bycluster	TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	CDH13	NM_001220488	exon7	c.A803G	p.N268S	ATGTCAATGGCAA	.	81.0	33.0	71.0	0.0	.	97	.	.	.	weak	.	.	PASS	Atlas-SNP
ACSF3	197322	hgsc.bcm.edu	hg19	16	89167635	89167635	+	Silent	SNP	G	G	T	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	ACSF3	NM_174917	exon3	c.G546T	p.P182P	GGAACCGGCAGAG	.	76.0	40.0	102.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
MPRIP	23164	hgsc.bcm.edu	hg19	17	17039564	17039564	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	MPRIP	NM_015134	exon6	c.G536C	p.S179T	TTACCAGCAGCAG	.	102.0	9.0	64.0	0.0	.	87	.	.	.	none	.	.	PASS	Atlas-SNP
ATP5G1	516	hgsc.bcm.edu	hg19	17	46973049	46973049	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	ATP5G1	NM_005175	exon5	c.A329C	p.Y110S	TCTCCTATGCCAT	.	76.0	22.0	37.0	0.0	.	7	.	.	.	none	.	.	PASS	Atlas-SNP
CLTC	1213	hgsc.bcm.edu	hg19	17	57742269	57742269	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	CLTC	NM_004859	exon10	c.A1643G	p.Q548R	TCACACAGGTAAT	.	98.0	26.0	66.0	0.0	.	124	.	.	.	none	.	.	PASS	Atlas-SNP
USP36	57602	hgsc.bcm.edu	hg19	17	76803450	76803450	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	USP36	NM_025090	exon14	c.C1676T	p.S559L	CTATTCGAGTTGC	.	186.0	54.0	99.0	0.0	.	243	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF180	7733	hgsc.bcm.edu	hg19	19	44988631	44988631	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	ZNF180,NS,carcinoma,0,1	ZNF180	NM_013256	exon3	c.C148G	p.Q50E	TCTCTTGAGGAAG	.	68.0	27.0	75.0	0.0	.	103	.	.	.	none	.	.	PASS	Atlas-SNP
UQCR10	29796	hgsc.bcm.edu	hg19	22	30163499	30163499	+	Nonsense_Mutation	SNP	C	C	T	rs377432442	alternate_allele	TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	UQCR10,NS,carcinoma,0,1	UQCR10	NM_001003684	exon1	c.C112T	p.Q38X	TTCGATCAAGGCG	.	75.0	35.0	63.0	0.0	.	10	.	.	.	alt	.	.	PASS	Atlas-SNP
PLCXD1	55344	hgsc.bcm.edu	hg19	X	205414	205414	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	PLCXD1	NM_018390	exon3	c.A142C	p.M48L	GACACGATGACGT	.	176.0	163.0	281.0	0.0	.	18	.	.	.	none	.	.	PASS	Atlas-SNP
NRK	203447	hgsc.bcm.edu	hg19	X	105179166	105179166	+	Nonsense_Mutation	SNP	C	C	A	rs56273831	alternate_allele	TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	NRK	NM_198465	exon21	c.C3504A	p.Y1168X	AGTATACGCTGGA	.	58.0	56.0	64.0	0.0	.	321	.	.	.	alt	.	.	PASS	Atlas-SNP
PLK3	1263	hgsc.bcm.edu	hg19	1	45266511	45266511	+	Splice_Site	DEL	G	G	-	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	PLK3	NM_004073	exon2	c.211-2G>-	.	.	.	69.0	34.0	90.0	0.0	.	41	.	0.492754	0	none	.	.	PASS	Atlas-Indel,Pindel
CFDP1	10428	hgsc.bcm.edu	hg19	16	75327931	75327951	+	Frame_Shift_Del	DEL	TTCAATGTACCTAGAAGATGA	TTCAATGTACCTAGAAGATGA	-	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	TTCAATGTACCTAGAAGATGA	TTCAATGTACCTAGAAGATGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	CFDP1	NM_006324	exon7	c.810_820del	p.270_274del	.	.	52.0	11.0	66.0	0.0	.	17	.	0.211538	0	none	.	.	PASS	Atlas-Indel,Pindel
KRTAP5-9	3846	hgsc.bcm.edu	hg19	11	71259971	71260114	+	In_Frame_Del	DEL	TCAGGCTGTGGGTCATCCTGCTGCCAGTGCAGCTGCTGCAAGCCCTACTGCTCCCAGTGCAGCTGCTGTAAGCCCTGTTGCTCCTCCTCGGGTCGTGGGTCATCCTGCTGCCAATCCAGCTGCTGCAAGCCCTGCTGCTCATCC	TCAGGCTGTGGGTCATCCTGCTGCCAGTGCAGCTGCTGCAAGCCCTACTGCTCCCAGTGCAGCTGCTGTAAGCCCTGTTGCTCCTCCTCGGGTCGTGGGTCATCCTGCTGCCAATCCAGCTGCTGCAAGCCCTGCTGCTCATCC	-	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	TCAGGCTGTGGGTCATCCTGCTGCCAGTGCAGCTGCTGCAAGCCCTACTGCTCCCAGTGCAGCTGCTGTAAGCCCTGTTGCTCCTCCTCGGGTCGTGGGTCATCCTGCTGCCAATCCAGCTGCTGCAAGCCCTGCTGCTCATCC	TCAGGCTGTGGGTCATCCTGCTGCCAGTGCAGCTGCTGCAAGCCCTACTGCTCCCAGTGCAGCTGCTGTAAGCCCTGTTGCTCCTCCTCGGGTCGTGGGTCATCCTGCTGCCAATCCAGCTGCTGCAAGCCCTGCTGCTCATCC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	KRTAP5-9	NM_005553	exon1	c.267_410del	p.89_137del	.	.	85.0	16.0	91.0	0.0	.	19	.	0.188	.	none	.	.	PASS	Pindel
LILRB1	10859	hgsc.bcm.edu	hg19	19	55148104	55148105	+	Frame_Shift_Del	DEL	GT	GT	-	novel		TCGA-2Z-A9J7-01A-11D-A382-10	TCGA-2Z-A9J7-10A-01D-A385-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	f706942e-5a4c-4299-bbb2-7da02d8f774d	29721c4c-1077-4ae3-9583-4d7cd96257fe	.	LILRB1	NM_001081637	exon14	c.1812_1812del	p.604_604del	.	.	103.0	12.0	104.0	0.0	.	140	.	0.117	.	none	.	.	PASS	Pindel
