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
ECE1	1889	hgsc.bcm.edu	hg19	1	21585300	21585300	+	Silent	SNP	G	G	T	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	ECE1	NM_001397	exon6	c.C648A	p.A216A	GTCCTTGGCCCAG	.	106.0	35.0	106.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
KCNC4	3749	hgsc.bcm.edu	hg19	1	110768796	110768796	+	Silent	SNP	G	G	A	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	KCNC4	NM_001039574	exon3	c.G1815A	p.R605R	TGTCCGGAAAGGT	.	96.0	37.0	70.0	0.0	.	113	.	.	.	none	.	.	PASS	Atlas-SNP
ITLN2	142683	hgsc.bcm.edu	hg19	1	160924190	160924190	+	Missense_Mutation	SNP	A	A	T	rs145856391	alternate_allele	TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	ITLN2	NM_080878	exon2	c.T66A	p.S22R	GCACCCACTGGTG	.	10.0	6.0	16.0	0.0	.	35	.	.	.	alt	A|1.000;G|0.000	.	PASS	Atlas-SNP
NIT1	4817	hgsc.bcm.edu	hg19	1	161090544	161090544	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	NIT1	NM_005600	exon7	c.C973A	p.P325T	GGTCACCCACTGT	.	85.0	33.0	110.0	0.0	.	41	.	.	.	none	.	.	PASS	Atlas-SNP
LTBP1	4052	hgsc.bcm.edu	hg19	2	33622241	33622241	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	LTBP1,NS,carcinoma,0,1	LTBP1	NM_206943	exon33	c.G4876T	p.G1626C	GAATGCGGCATCC	.	69.0	3.0	80.0	0.0	.	317	.	.	.	none	.	.	PASS	Atlas-SNP
C2orf78	388960	hgsc.bcm.edu	hg19	2	74043217	74043217	+	Silent	SNP	C	C	A	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	C2orf78	NM_001080474	exon3	c.C1867A	p.R623R	AAGCCCCGAAGCT	.	97.0	4.0	109.0	0.0	.	150	.	.	.	none	.	.	PASS	Atlas-SNP
DARS	1615	hgsc.bcm.edu	hg19	2	136680361	136680361	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	DARS	NM_001349	exon9	c.T804G	p.I268M	TGGTCCAATAGAG	.	170.0	78.0	159.0	0.0	.	44	.	.	.	none	.	.	PASS	Atlas-SNP
PPIG	9360	hgsc.bcm.edu	hg19	2	170460568	170460568	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	PPIG	NM_004792	exon3	c.A17G	p.Q6R	AGGTTCAACGTCC	.	127.0	46.0	113.0	0.0	.	100	.	.	.	none	.	.	PASS	Atlas-SNP
ZAK	0	hgsc.bcm.edu	hg19	2	174097114	174097114	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	ZAK	NM_016653	exon14	c.G1130T	p.R377L	GGAAGCGGCTGCT	.	330.0	160.0	348.0	0.0	.	62	.	.	.	none	.	.	PASS	Atlas-SNP
GLS	2744	hgsc.bcm.edu	hg19	2	191827660	191827660	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	GLS	NM_014905	exon18	c.A1958G	p.D653G	ATTCTGACAACGG	.	119.0	50.0	117.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
CYP20A1	57404	hgsc.bcm.edu	hg19	2	204154489	204154489	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	CYP20A1	NM_177538	exon10	c.T973C	p.Y325H	AACAGATATTGTC	.	132.0	60.0	153.0	0.0	.	40	.	.	.	none	.	.	PASS	Atlas-SNP
HDLBP	3069	hgsc.bcm.edu	hg19	2	242170343	242170343	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	HDLBP	NM_005336	exon25	c.C3305G	p.T1102S	GTGATGGTAATTT	.	99.0	42.0	109.0	0.0	.	118	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF501	115560	hgsc.bcm.edu	hg19	3	44776081	44776081	+	Silent	SNP	A	A	G	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	ZNF501,NS,neuroblastoma,0,1	ZNF501	NM_001258280	exon3	c.A168G	p.G56G	ATGTGGAAGTTGT	.	200.0	62.0	128.0	0.0	.	27	.	.	.	none	.	.	PASS	Atlas-SNP
RUVBL1	8607	hgsc.bcm.edu	hg19	3	127831784	127831784	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	RUVBL1	NM_003707	exon3	c.C308T	p.S103L	TCAGTTGAGTAAA	.	255.0	91.0	193.0	0.0	.	38	.	.	.	none	.	.	PASS	Atlas-SNP
PCDH1	5097	hgsc.bcm.edu	hg19	5	141233645	141233645	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	PCDH1,NS,carcinoma,0,1	PCDH1	NM_032420	exon5	c.G3676C	p.A1226P	CAGATGCCGGTGT	.	39.0	21.0	46.0	0.0	.	119	.	.	.	none	.	.	PASS	Atlas-SNP
SNRNP48	154007	hgsc.bcm.edu	hg19	6	7601644	7601644	+	Missense_Mutation	SNP	G	G	C	rs143226311	bycluster;by1000genomes;alternate_allele	TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	SNRNP48	NM_152551	exon5	c.G482C	p.R161P	CTGATCGTCTTGC	.	174.0	63.0	228.0	0.0	.	32	.	.	.	alt	G|1.000;A|0.000	.	PASS	Atlas-SNP
OR2B3	442184	hgsc.bcm.edu	hg19	6	29054989	29054989	+	Missense_Mutation	SNP	T	T	G	rs139090624	alternate_allele	TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	OR2B3	NM_001005226	exon1	c.A37C	p.I13L	GTAGTATAAACTC	.	107.0	45.0	102.0	0.0	.	44	.	.	.	alt	T|1.000;C|0.000	.	PASS	Atlas-SNP
CDK13	8621	hgsc.bcm.edu	hg19	7	40127807	40127807	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	CDK13	NM_003718	exon12	c.T3112C	p.S1038P	GATGTTTCCACAA	.	208.0	97.0	105.0	0.0	.	114	.	.	.	none	.	.	PASS	Atlas-SNP
CUX1	1523	hgsc.bcm.edu	hg19	7	101837159	101837159	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	CUX1	NM_001202543	exon13	c.G1147A	p.A383T	GAGGGCGCTGGGA	.	100.0	58.0	84.0	0.0	.	253	.	.	.	none	.	.	PASS	Atlas-SNP
SLC13A1	6561	hgsc.bcm.edu	hg19	7	122774491	122774491	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	SLC13A1	NM_022444	exon8	c.G905C	p.W302S	TGAAGCCAGATCC	.	156.0	72.0	88.0	0.0	.	110	.	.	.	none	.	.	PASS	Atlas-SNP
KAT6B	23522	hgsc.bcm.edu	hg19	10	76602897	76602897	+	Silent	SNP	G	G	T	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	.	NM_001256469	exon3	c.G282T	p.G94G	CAAGGGGTCTAGA	.	467.0	142.0	347.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
LRP4	4038	hgsc.bcm.edu	hg19	11	46897384	46897384	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	LRP4	NM_002334	exon26	c.C3670T	p.Q1224X	GCAGTTGGGAGCT	.	101.0	40.0	108.0	0.0	.	160	.	.	.	none	.	.	PASS	Atlas-SNP
OR5I1	10798	hgsc.bcm.edu	hg19	11	55703836	55703836	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	OR5I1	NM_006637	exon1	c.T41A	p.F14Y	AGAATAAACTCAG	.	85.0	34.0	88.0	0.0	.	110	.	.	.	none	.	.	PASS	Atlas-SNP
RBM4	5936	hgsc.bcm.edu	hg19	11	66411450	66411450	+	Silent	SNP	T	T	A	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	RBM4	NM_002896	exon3	c.T942A	p.A314A	TCGCGCTACAGCC	.	161.0	59.0	136.0	0.0	.	34	.	.	.	none	.	.	PASS	Atlas-SNP
PCF11	51585	hgsc.bcm.edu	hg19	11	82877725	82877725	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	PCF11_ENST00000298281,bladder,carcinoma,0,2	PCF11	NM_015885	exon5	c.A1786G	p.R596G	GCCAAAAGATGGA	.	154.0	72.0	166.0	0.0	.	220	.	.	.	none	.	.	PASS	Atlas-SNP
C11orf65	160140	hgsc.bcm.edu	hg19	11	108276173	108276173	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	C11orf65	NM_152587	exon6	c.A543G	p.I181M	CCACTCTATTTTT	.	107.0	49.0	98.0	0.0	.	29	.	.	.	none	.	.	PASS	Atlas-SNP
PRH1	5554	hgsc.bcm.edu	hg19	12	11035282	11035282	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	PRH1	NM_006250	exon3	c.A116T	p.E39V	AACTGCTCAGAGT	.	311.0	80.0	244.0	0.0	.	17	.	.	.	none	.	.	PASS	Atlas-SNP
LRP6	4040	hgsc.bcm.edu	hg19	12	12317326	12317326	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	LRP6	NM_002336	exon9	c.A1933C	p.I645L	GAGAAATTCGTCT	.	238.0	82.0	172.0	0.0	.	170	.	.	.	none	.	.	PASS	Atlas-SNP
KRT85	3891	hgsc.bcm.edu	hg19	12	52756665	52756665	+	Silent	SNP	C	C	G	rs1621938	bycluster;byfrequency;byhapmap;by1000genomes;alternate_allele	TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	KRT85,caecum,carcinoma,0,1	KRT85	NM_002283	exon6	c.G1050C	p.T350T	CTCGGCCGTCAGC	.	199.0	67.0	144.0	1.0	.	78	.	.	.	alt	C|0.975;T|0.025	.	PASS	Atlas-SNP
DDX55	57696	hgsc.bcm.edu	hg19	12	124093348	124093348	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	DDX55	NM_020936	exon6	c.A523T	p.R175X	GCAGACAGACTTC	.	136.0	85.0	81.0	0.0	.	51	.	.	.	none	.	.	PASS	Atlas-SNP
ARHGEF40	55701	hgsc.bcm.edu	hg19	14	21546590	21546590	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	ARHGEF40	NM_018071	exon10	c.C2189G	p.A730G	TGACGGCACTGCA	.	168.0	44.0	238.0	0.0	.	84	.	.	.	none	.	.	PASS	Atlas-SNP
ACIN1	22985	hgsc.bcm.edu	hg19	14	23564436	23564436	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	ACIN1	NM_001164814	exon1	c.T60G	p.N20K	CCCTCGATTACCA	.	196.0	90.0	240.0	0.0	.	147	.	.	.	none	.	.	PASS	Atlas-SNP
REC8	9985	hgsc.bcm.edu	hg19	14	24648037	24648037	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	REC8	NM_001048205	exon14	c.C1115T	p.P372L	AGCCACCCCCAAA	.	448.0	185.0	450.0	0.0	.	47	.	.	.	none	.	.	PASS	Atlas-SNP
AKAP6	9472	hgsc.bcm.edu	hg19	14	33291241	33291241	+	Missense_Mutation	SNP	G	G	A	rs376840822	alternate_allele	TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	AKAP6	NM_004274	exon13	c.G4222A	p.V1408M	GTTAACGTGTTAA	.	121.0	50.0	127.0	0.0	.	308	.	.	.	alt	.	.	PASS	Atlas-SNP
ZC3H7A	29066	hgsc.bcm.edu	hg19	16	11859408	11859408	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	ZC3H7A	NM_014153	exon14	c.G1656T	p.K552N	GTTAATCTTTCCA	.	246.0	72.0	186.0	0.0	.	72	.	.	.	none	.	.	PASS	Atlas-SNP
ABCC12	94160	hgsc.bcm.edu	hg19	16	48173154	48173154	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	ABCC12	NM_033226	exon5	c.T751C	p.C251R	CCGCACAAAAGAC	.	238.0	67.0	174.0	0.0	.	190	.	.	.	none	.	.	PASS	Atlas-SNP
DNAAF1	123872	hgsc.bcm.edu	hg19	16	84203896	84203896	+	Missense_Mutation	SNP	C	C	G	rs375641621	alternate_allele	TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	DNAAF1	NM_178452	exon8	c.C1462G	p.R488G	GGAGATCGAGAGC	.	139.0	6.0	85.0	0.0	.	81	.	.	.	alt	.	.	PASS	Atlas-SNP
RNMTL1	55178	hgsc.bcm.edu	hg19	17	694912	694912	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	RNMTL1	NM_018146	exon4	c.A866T	p.N289I	CTGACAACTGTGG	.	365.0	202.0	349.0	1.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
NEURL4	84461	hgsc.bcm.edu	hg19	17	7230249	7230249	+	Silent	SNP	G	G	A	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	NEURL4	NM_001005408	exon4	c.C873T	p.N291N	GCTCAGGTTCACA	.	210.0	116.0	154.0	0.0	.	192	.	.	.	none	.	.	PASS	Atlas-SNP
CDC27	996	hgsc.bcm.edu	hg19	17	45214623	45214623	+	Missense_Mutation	SNP	G	G	A	rs75637741	bycluster	TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	CDC27_ENST00000531206,rectum,carcinoma,0,2	CDC27	NM_001114091	exon14	c.C1826T	p.A609V	GTATAGGCATAAG	.	166.0	12.0	144.0	1.0	.	337	.	.	.	weak	.	.	PASS	Atlas-SNP
HLF	3131	hgsc.bcm.edu	hg19	17	53398135	53398135	+	Silent	SNP	G	G	A	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	HLF	NM_002126	exon4	c.G783A	p.E261E	CCTGGAGAAGGAG	.	82.0	26.0	61.0	0.0	.	39	.	.	.	none	.	.	PASS	Atlas-SNP
GNA13	10672	hgsc.bcm.edu	hg19	17	63049838	63049838	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	GNA13	NM_006572	exon2	c.G292T	p.V98L	CCAGCACCCTCAT	.	361.0	195.0	301.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
SOGA2	23255	hgsc.bcm.edu	hg19	18	8825493	8825493	+	Silent	SNP	T	T	C	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	CCDC165,NS,carcinoma,0,1	.	NM_015210	exon15	c.T3985C	p.L1329L	GTGGGCTTGCAGA	.	66.0	3.0	75.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
CSNK2A1	1457	hgsc.bcm.edu	hg19	20	467041	467041	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	CSNK2A1	NM_001895	exon12	c.A1039G	p.S347G	CGCTGCTGACGGG	.	143.0	34.0	165.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
MAGEB4	4115	hgsc.bcm.edu	hg19	X	30261219	30261219	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	MAGEB4	NM_002367	exon1	c.G967T	p.A323S	GTTGCAGCCAGGC	.	26.0	23.0	57.0	0.0	.	75	.	.	.	none	.	.	PASS	Atlas-SNP
DMD	1756	hgsc.bcm.edu	hg19	X	32867885	32867885	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	DMD	NM_004006	exon3	c.G146A	p.R49H	AGGAGGCGCCTCC	.	98.0	8.0	118.0	0.0	.	2127	.	.	.	none	.	.	PASS	Atlas-SNP
WDFY3	23001	hgsc.bcm.edu	hg19	4	85630153	85630153	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	WDFY3	NM_014991	exon53	c.8127delG	p.L2709fs	.	.	210.0	92.0	233.0	0.0	.	314	.	0.438095	0	none	.	.	PASS	Atlas-INDEL
XPNPEP2	7512	hgsc.bcm.edu	hg19	X	128885748	128885749	+	Frame_Shift_Del	DEL	TC	TC	-	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	TC	TC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	XPNPEP2	NM_003399	exon9	c.766_767del	p.256_256del	.	.	282.0	234.0	377.0	0.0	.	84	.	0.829787	0	none	.	.	PASS	Atlas-INDEL
ALDOB	229	hgsc.bcm.edu	hg19	9	104190767	104190770	+	Frame_Shift_Del	DEL	TTTG	TTTG	-	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	TTTG	TTTG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	ALDOB	NM_000035	exon4	c.361_364del	p.121_122del	.	.	283.0	104.0	335.0	0.0	.	69	.	0.367491	0	none	.	.	PASS	Atlas-INDEL
MCCC2	64087	hgsc.bcm.edu	hg19	5	70931074	70931075	+	Splice_Site	INS	-	-	TA	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	MCCC2	NM_022132	exon10	c.999+1->TA	.	.	.	115.0	48.0	175.0	0.0	.	47	.	0.417391	0	none	.	.	PASS	Atlas-INDEL
SLIT3	6586	hgsc.bcm.edu	hg19	5	168135045	168135045	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-B9-4617-01A-01D-1252-08	TCGA-B9-4617-10A-01D-1252-08	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	aed3977e-c899-4a95-b26a-957bdbd865a6	513c77a4-6151-4d55-9b91-4b9923b7d895	.	SLIT3	NM_001271946	exon26	c.2802delT	p.N934fs	.	.	100.0	48.0	117.0	0.0	.	224	.	0.48	0	none	.	.	PASS	Atlas-INDEL
