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	dbSNP_AF	Algorithm
CELF3	11189	hgsc.bcm.edu	hg19	1	151679702	151679702	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	CELF3	NM_007185	exon8	c.G841A	p.G281S	TGTAGCCGTTGAC	.	125.0	17.0	103.0	0.0	.	49	.	.	Atlas-SNP
PBX1	5087	hgsc.bcm.edu	hg19	1	164768969	164768969	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	PBX1	NM_001204963	exon4	c.C544T	p.L182F	ATGAATCTCCTGC	.	83.0	16.0	58.0	0.0	.	60	.	.	Atlas-SNP
DHX9	1660	hgsc.bcm.edu	hg19	1	182852382	182852382	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	DHX9	NM_001357	exon25	c.A3023T	p.E1008V	ATAAGGAAAAGAG	.	156.0	83.0	129.0	0.0	.	114	.	.	Atlas-SNP
YOD1	55432	hgsc.bcm.edu	hg19	1	207224106	207224106	+	Silent	SNP	G	G	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	YOD1	NM_018566	exon1	c.C270T	p.L90L	TCCGACGAGGATT	.	123.0	11.0	68.0	0.0	.	24	.	.	Atlas-SNP
CR2	1380	hgsc.bcm.edu	hg19	1	207641906	207641906	+	Silent	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	CR2	NM_001006658	exon3	c.C480T	p.I160I	TATGATCCACAAT	.	293.0	160.0	239.0	0.0	.	164	.	.	Atlas-SNP
PCNXL2	80003	hgsc.bcm.edu	hg19	1	233397906	233397906	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	PCNXL2	NM_014801	exon3	c.A365G	p.N122S	TGCCTATTATTGC	.	144.0	19.0	108.0	0.0	.	204	.	.	Atlas-SNP
PLD5	200150	hgsc.bcm.edu	hg19	1	242451667	242451667	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	PLD5	NM_152666	exon4	c.T492A	p.C164X	TACCTGACATGCT	.	559.0	59.0	424.0	0.0	.	216	.	.	Atlas-SNP
ADSS	159	hgsc.bcm.edu	hg19	1	244595870	244595870	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	ADSS	NM_001126	exon4	c.T383A	p.I128N	GATATAATAAGCC	.	783.0	32.0	572.0	0.0	.	49	.	.	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	hg19	1	248524908	248524908	+	Missense_Mutation	SNP	G	G	A	rs140989725		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	OR2T4,NS,carcinoma,0,1	OR2T4	NM_001004696	exon1	c.G26A	p.S9N	TGGCCAGCCACAC	.	388.0	16.0	321.0	1.0	.	126	.	.	Atlas-SNP
SEMA4F	10505	hgsc.bcm.edu	hg19	2	74901762	74901762	+	Silent	SNP	G	G	C	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	SEMA4F	NM_004263	exon8	c.G960C	p.G320G	GCTTGGGGCAGGG	.	93.0	27.0	140.0	0.0	.	89	.	.	Atlas-SNP
REG1B	5968	hgsc.bcm.edu	hg19	2	79314699	79314699	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	REG1B,right_lower_lobe,carcinoma,0,1	REG1B	NM_006507	exon2	c.C40A	p.L14M	ACATCAGGGAGGA	.	106.0	30.0	148.0	0.0	.	83	.	.	Atlas-SNP
DNAH6	1768	hgsc.bcm.edu	hg19	2	84852030	84852030	+	Missense_Mutation	SNP	G	G	T	rs368034415	alternate_allele	TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	DNAH6	NM_001370	exon29	c.G4358T	p.R1453L	AGGATCGCTGCTA	.	86.0	34.0	129.0	0.0	.	194	.	.	Atlas-SNP
XIRP2	129446	hgsc.bcm.edu	hg19	2	168097234	168097234	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	XIRP2	NM_001199143	exon8	c.G1129T	p.V377F	CAATATGTTCAAG	.	164.0	71.0	184.0	0.0	.	914	.	.	Atlas-SNP
CHL1	10752	hgsc.bcm.edu	hg19	3	423911	423911	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	CHL1	NM_001253388	exon15	c.G1926T	p.R642S	GAACAGGAGTGTT	.	78.0	27.0	95.0	0.0	.	242	.	.	Atlas-SNP
BSN	8927	hgsc.bcm.edu	hg19	3	49694892	49694892	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	BSN	NM_003458	exon5	c.C7903T	p.R2635C	CTTCCCCGCCACT	.	34.0	7.0	54.0	0.0	.	272	.	.	Atlas-SNP
TMPRSS7	344805	hgsc.bcm.edu	hg19	3	111764780	111764780	+	Silent	SNP	G	G	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	TMPRSS7	NM_001042575	exon4	c.G342A	p.V114V	CTCTGTGGTACTA	.	322.0	117.0	372.0	0.0	.	126	.	.	Atlas-SNP
CCDC14	64770	hgsc.bcm.edu	hg19	3	123665744	123665744	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	CCDC14	NM_022757	exon7	c.T1128A	p.D376E	CTGTACATCCTTC	.	63.0	9.0	74.0	0.0	.	97	.	.	Atlas-SNP
MBD4	8930	hgsc.bcm.edu	hg19	3	129155490	129155490	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	MBD4	NM_003925	exon3	c.A997T	p.I333L	TGTTTATGATGCC	.	143.0	23.0	179.0	0.0	.	53	.	.	Atlas-SNP
COL6A6	131873	hgsc.bcm.edu	hg19	3	130289820	130289820	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	COL6A6	NM_001102608	exon6	c.G2560A	p.A854T	AAGTATGCTGATG	.	88.0	16.0	93.0	0.0	.	497	.	.	Atlas-SNP
NLGN1	22871	hgsc.bcm.edu	hg19	3	173322666	173322666	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	NLGN1,caecum,adenoma,0,3	NLGN1	NM_014932	exon3	c.G278T	p.R93L	GGGAACGTCGTTT	.	94.0	39.0	102.0	0.0	.	209	.	.	Atlas-SNP
NLGN1	22871	hgsc.bcm.edu	hg19	3	173525610	173525610	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	NLGN1	NM_014932	exon4	c.C634A	p.L212I	TATCGACTTGGAG	.	97.0	52.0	137.0	0.0	.	209	.	.	Atlas-SNP
CD38	952	hgsc.bcm.edu	hg19	4	15839760	15839760	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	CD38	NM_001775	exon5	c.T631C	p.S211P	AATGGATCCCGCA	.	53.0	33.0	59.0	0.0	.	36	.	.	Atlas-SNP
ZNF827	152485	hgsc.bcm.edu	hg19	4	146859553	146859553	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	ZNF827	NM_178835	exon1	c.A7T	p.R3W	TCCTCCTGGGCAT	.	96.0	68.0	160.0	0.0	.	102	.	.	Atlas-SNP
ZNF131	7690	hgsc.bcm.edu	hg19	5	43161948	43161948	+	Silent	SNP	T	T	C	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	ZNF131	NM_003432	exon6	c.T867C	p.T289T	AAGAACTGGGAAA	.	145.0	78.0	169.0	0.0	.	51	.	.	Atlas-SNP
ELL2	22936	hgsc.bcm.edu	hg19	5	95226823	95226823	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	ELL2	NM_012081	exon10	c.G1745T	p.G582V	TTTGAGCCTGGAG	.	145.0	86.0	119.0	0.0	.	63	.	.	Atlas-SNP
DMXL1	1657	hgsc.bcm.edu	hg19	5	118485268	118485268	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	DMXL1	NM_005509	exon18	c.C3746T	p.P1249L	AAGAACCTGTTAT	.	56.0	35.0	56.0	0.0	.	268	.	.	Atlas-SNP
PRR16	51334	hgsc.bcm.edu	hg19	5	120022233	120022233	+	Silent	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	PRR16	NM_016644	exon3	c.C675T	p.G225G	CCAAGGCCCTCCC	.	118.0	28.0	100.0	0.0	.	71	.	.	Atlas-SNP
FSTL4	23105	hgsc.bcm.edu	hg19	5	132585166	132585166	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	FSTL4	NM_015082	exon7	c.G830A	p.R277K	GGTGGCCTCAGGT	.	91.0	13.0	74.0	0.0	.	74	.	.	Atlas-SNP
DNAJC18	202052	hgsc.bcm.edu	hg19	5	138764241	138764241	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	DNAJC18	NM_152686	exon3	c.C359A	p.T120K	GCATCTGTTGCTC	.	81.0	26.0	60.0	0.0	.	30	.	.	Atlas-SNP
MYLK4	340156	hgsc.bcm.edu	hg19	6	2685624	2685624	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	MYLK4	NM_001012418	exon6	c.G451A	p.E151K	TGATCTCGTTCTT	.	92.0	25.0	75.0	0.0	.	74	.	.	Atlas-SNP
PRL	5617	hgsc.bcm.edu	hg19	6	22294684	22294684	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	PRL	NM_000948	exon2	c.T158A	p.L53Q	TGGGACAGGACGA	.	270.0	56.0	142.0	0.0	.	41	.	.	Atlas-SNP
CDKN1A	1026	hgsc.bcm.edu	hg19	6	36651881	36651881	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	CDKN1A	NM_001220778	exon2	c.G3T	p.M1I	CGCCATGTCAGAA	.	50.0	45.0	56.0	0.0	.	27	.	.	Atlas-SNP
CRIP3	401262	hgsc.bcm.edu	hg19	6	43274043	43274043	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	CRIP3	NM_206922	exon6	c.G409A	p.V137M	ACATCACCTTCTC	.	53.0	50.0	43.0	0.0	.	30	.	.	Atlas-SNP
CRIP3	401262	hgsc.bcm.edu	hg19	6	43274045	43274045	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	CRIP3	NM_206922	exon6	c.A407T	p.K136M	ATCACCTTCTCAG	.	50.0	47.0	43.0	0.0	.	30	.	.	Atlas-SNP
CRIP3	401262	hgsc.bcm.edu	hg19	6	43274046	43274046	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	CRIP3	NM_206922	exon6	c.A406G	p.K136E	TCACCTTCTCAGC	.	50.0	48.0	43.0	0.0	.	30	.	.	Atlas-SNP
GPR115	221393	hgsc.bcm.edu	hg19	6	47681793	47681793	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	GPR115	NM_153838	exon6	c.G812A	p.G271E	TCTTAGGAATGGT	.	93.0	24.0	61.0	0.0	.	140	.	.	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	hg19	6	51824795	51824795	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	PKHD1	NM_170724	exon36	c.A5781T	p.R1927S	GGACCATCTCCGG	.	122.0	13.0	60.0	0.0	.	927	.	.	Atlas-SNP
HTR1B	3351	hgsc.bcm.edu	hg19	6	78172410	78172410	+	Silent	SNP	G	G	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	HTR1B	NM_000863	exon1	c.C711T	p.S237S	AATCCGGGAGCGG	.	23.0	19.0	37.0	0.0	.	55	.	.	Atlas-SNP
GPR63	81491	hgsc.bcm.edu	hg19	6	97246970	97246970	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	GPR63	NM_030784	exon2	c.T638C	p.L213S	ACGGCTAAAGGAA	.	25.0	15.0	58.0	0.0	.	60	.	.	Atlas-SNP
RADIL	55698	hgsc.bcm.edu	hg19	7	4874647	4874647	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	RADIL	NM_018059	exon4	c.C1007T	p.T336I	ACCACGGTCCTGT	.	35.0	20.0	41.0	0.0	.	110	.	.	Atlas-SNP
FIGNL1	63979	hgsc.bcm.edu	hg19	7	50514900	50514900	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	FIGNL1	NM_001042762	exon4	c.C86T	p.P29L	GCCTTCGGTCCGG	.	70.0	20.0	82.0	0.0	.	73	.	.	Atlas-SNP
SEMA3A	10371	hgsc.bcm.edu	hg19	7	83590805	83590805	+	Missense_Mutation	SNP	C	C	A	rs318240753	bycluster;alternate_allele	TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	SEMA3A	NM_006080	exon17	c.G2198T	p.R733L	TGCCGACGTTGTT	.	182.0	76.0	234.0	0.0	.	121	.	.	Atlas-SNP
OR2AE1	81392	hgsc.bcm.edu	hg19	7	99474046	99474046	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	OR2AE1	NM_001005276	exon1	c.T611C	p.I204T	AGGAGAATGCTGC	.	51.0	16.0	59.0	0.0	.	32	.	.	Atlas-SNP
INSIG1	3638	hgsc.bcm.edu	hg19	7	155094019	155094019	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	INSIG1	NM_005542	exon4	c.G596A	p.G199D	CTTTGGGCCTTTG	.	209.0	41.0	246.0	0.0	.	20	.	.	Atlas-SNP
ZBTB6	10773	hgsc.bcm.edu	hg19	9	125674263	125674263	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	ZBTB6	NM_006626	exon2	c.A89G	p.N30S	AATAAATTCTGCT	.	65.0	56.0	112.0	0.0	.	32	.	.	Atlas-SNP
CDK9	1025	hgsc.bcm.edu	hg19	9	130550943	130550943	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	CDK9	NM_001261	exon6	c.G725T	p.S242I	TCATCAGTCAGCT	.	59.0	44.0	144.0	1.0	.	22	.	.	Atlas-SNP
TACR2	6865	hgsc.bcm.edu	hg19	10	71175879	71175879	+	Silent	SNP	G	G	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	TACR2	NM_001057	exon1	c.C201T	p.V67V	GTTGGTGACTGTG	.	82.0	27.0	50.0	0.0	.	37	.	.	Atlas-SNP
CPN1	1369	hgsc.bcm.edu	hg19	10	101802222	101802222	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	CPN1	NM_001308	exon9	c.G1339A	p.E447K	CCATTTCTTTCTT	.	83.0	35.0	80.0	0.0	.	62	.	.	Atlas-SNP
TUBGCP2	10844	hgsc.bcm.edu	hg19	10	135099037	135099037	+	Silent	SNP	C	C	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	TUBGCP2	NM_001256617	exon13	c.G1902T	p.T634T	CAGCTCCGTGGGG	.	39.0	16.0	49.0	0.0	.	79	.	.	Atlas-SNP
MUC6	4588	hgsc.bcm.edu	hg19	11	1026952	1026952	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	MUC6	NM_005961	exon19	c.G2383A	p.G795S	CAACACCGGTGGC	.	84.0	30.0	60.0	0.0	.	408	.	.	Atlas-SNP
CHRM4	1132	hgsc.bcm.edu	hg19	11	46406927	46406927	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	CHRM4	NM_000741	exon1	c.G1181A	p.R394Q	CGCTCCCGGGCCG	.	89.0	23.0	73.0	0.0	.	47	.	.	Atlas-SNP
TNKS1BP1	85456	hgsc.bcm.edu	hg19	11	57080609	57080609	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	TNKS1BP1	NM_033396	exon5	c.C1553T	p.S518F	CTGCTGGAAACGG	.	85.0	21.0	28.0	0.0	.	148	.	.	Atlas-SNP
CNIH2	254263	hgsc.bcm.edu	hg19	11	66050758	66050758	+	Nonsense_Mutation	SNP	T	T	G	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	CNIH2	NM_182553	exon5	c.T351G	p.Y117X	CATGTATGATGCG	.	33.0	19.0	62.0	0.0	.	15	.	.	Atlas-SNP
CASP4	837	hgsc.bcm.edu	hg19	11	104820474	104820474	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	CASP4	NM_001225	exon5	c.A577G	p.T193A	GTCTGGTAGCAAA	.	50.0	10.0	101.0	0.0	.	57	.	.	Atlas-SNP
KBTBD3	143879	hgsc.bcm.edu	hg19	11	105925003	105925003	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	KBTBD3	NM_152433	exon3	c.C413G	p.S138C	GCTTTGGATAGGA	.	72.0	26.0	138.0	0.0	.	59	.	.	Atlas-SNP
OR8B8	26493	hgsc.bcm.edu	hg19	11	124310110	124310110	+	Missense_Mutation	SNP	C	C	T	rs147220624	bycluster;by1000genomes;alternate_allele	TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	OR8B8	NM_012378	exon1	c.G872A	p.S291N	CTCAGGCTATAAA	.	35.0	16.0	66.0	0.0	.	76	.	C|0.999;A|0.001	Atlas-SNP
OR8B8	26493	hgsc.bcm.edu	hg19	11	124310343	124310343	+	Silent	SNP	G	G	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	OR8B8	NM_012378	exon1	c.C639A	p.T213T	GAAGATGGTGACT	.	40.0	18.0	86.0	0.0	.	76	.	.	Atlas-SNP
NRIP2	83714	hgsc.bcm.edu	hg19	12	2944113	2944113	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	NRIP2	NM_031474	exon1	c.C37T	p.P13S	AGGAGGGTCTCCA	.	64.0	14.0	88.0	0.0	.	21	.	.	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	hg19	12	124257438	124257438	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	DNAH10	NM_207437	exon4	c.C271T	p.P91S	CCTCTTCCCGAGG	.	59.0	32.0	53.0	0.0	.	888	.	.	Atlas-SNP
DNAH10	196385	hgsc.bcm.edu	hg19	12	124257449	124257449	+	Silent	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	DNAH10	NM_207437	exon4	c.C282T	p.F94F	GGAGTTCCTGGAC	.	58.0	33.0	58.0	0.0	.	888	.	.	Atlas-SNP
FREM2	341640	hgsc.bcm.edu	hg19	13	39265055	39265055	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	FREM2	NM_207361	exon1	c.G3574T	p.E1192X	CAGCCAGAGATGT	.	55.0	44.0	136.0	0.0	.	385	.	.	Atlas-SNP
COL4A2	1284	hgsc.bcm.edu	hg19	13	111082761	111082761	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	COL4A2	NM_001846	exon9	c.A563G	p.E188G	CTGGAGAGCCTGG	.	76.0	27.0	114.0	0.0	.	178	.	.	Atlas-SNP
NFATC4	4776	hgsc.bcm.edu	hg19	14	24844908	24844908	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	NFATC4	NM_001198967	exon8	c.T2105A	p.L702Q	ACCGACTGCAGAG	.	53.0	17.0	96.0	0.0	.	115	.	.	Atlas-SNP
RHCG	51458	hgsc.bcm.edu	hg19	15	90023512	90023512	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	RHCG	NM_016321	exon4	c.C650A	p.S217X	AGGTCCGACTGGT	.	44.0	19.0	44.0	0.0	.	49	.	.	Atlas-SNP
IQGAP1	8826	hgsc.bcm.edu	hg19	15	91020941	91020941	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	IQGAP1	NM_003870	exon26	c.C3149T	p.T1050M	ATCCTACGGTTAT	.	66.0	15.0	63.0	0.0	.	140	.	.	Atlas-SNP
TMC7	79905	hgsc.bcm.edu	hg19	16	19049310	19049310	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	TMC7	NM_024847	exon8	c.G1120T	p.G374W	GTTTTAGGGGCAT	.	161.0	85.0	177.0	0.0	.	75	.	.	Atlas-SNP
WBP2	23558	hgsc.bcm.edu	hg19	17	73851333	73851333	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	WBP2	NM_012478	exon1	c.A46G	p.N16D	TGTTATTGACGAT	.	105.0	98.0	85.0	0.0	.	17	.	.	Atlas-SNP
YES1	7525	hgsc.bcm.edu	hg19	18	742994	742994	+	Silent	SNP	T	T	C	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	YES1	NM_005433	exon8	c.A984G	p.R328R	ATCATGTCTTAAT	.	132.0	69.0	184.0	0.0	.	50	.	.	Atlas-SNP
LAMA1	284217	hgsc.bcm.edu	hg19	18	6975955	6975955	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	LAMA1	NM_005559	exon45	c.A6470T	p.Y2157F	CCGAGGTAGAAGA	.	89.0	24.0	109.0	0.0	.	458	.	.	Atlas-SNP
MALT1	10892	hgsc.bcm.edu	hg19	18	56415027	56415027	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	MALT1	NM_006785	exon17	c.G2428A	p.E810K	ACTGATGAAATAC	.	81.0	35.0	100.0	0.0	.	55	.	.	Atlas-SNP
PLCB1	23236	hgsc.bcm.edu	hg19	20	8626827	8626827	+	Silent	SNP	G	G	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	PLCB1	NM_015192	exon5	c.A463A	p.S155S	GAAAAAGCGTAAG	.	121.0	16.0	137.0	0.0	.	394	.	.	Atlas-SNP
GDF5	8200	hgsc.bcm.edu	hg19	20	34022378	34022378	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	GDF5	NM_000557	exon2	c.G835A	p.D279N	GCACATCCAGCAA	.	51.0	12.0	50.0	0.0	.	66	.	.	Atlas-SNP
ZNF831	128611	hgsc.bcm.edu	hg19	20	57767023	57767023	+	Silent	SNP	C	C	A	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	ZNF831	NM_178457	exon1	c.C949A	p.R317R	CTGCAGCGGCAGC	.	16.0	10.0	19.0	0.0	.	287	.	.	Atlas-SNP
USP25	29761	hgsc.bcm.edu	hg19	21	17197365	17197365	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	USP25	NM_013396	exon12	c.A1289G	p.Q430R	TATTACAACAAAG	.	156.0	36.0	275.0	0.0	.	156	.	.	Atlas-SNP
TTC3	7267	hgsc.bcm.edu	hg19	21	38538901	38538901	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	TTC3	NM_001001894	exon33	c.A4385G	p.Q1462R	ACGTGCAGATGGT	.	67.0	21.0	108.0	0.0	.	182	.	.	Atlas-SNP
REPS2	9185	hgsc.bcm.edu	hg19	X	17095520	17095520	+	Silent	SNP	C	C	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	REPS2	NM_004726	exon13	c.C1506T	p.P502P	CCAGCCCAGTGTG	.	33.0	15.0	26.0	0.0	.	76	.	.	Atlas-SNP
ND5	0	hgsc.bcm.edu	hg19	MT	12610	12610	+	Missense_Mutation	SNP	G	G	A	rs367601393	alternate_allele	TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	.	ENST00000361567	exon1	c.G274A	p.V92M	ATCCCTGTAGCAT	.	456.0	184.0	252.0	0.0	.	.	.	C|0.009;T|0.991	Atlas-SNP
KIF3B	9371	hgsc.bcm.edu	hg19	20	30897746	30897746	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	KIF3B	NM_004798	exon2	c.165delG	p.K55fs	.	.	68.0	19.0	95.0	0.0	.	75	.	.	Atlas-Indel,Pindel
SIN3B	23309	hgsc.bcm.edu	hg19	19	16989085	16989085	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	SIN3B	NM_015260	exon19	c.3141delC	p.G1047fs	.	.	16.0	16.0	20.0	0.0	.	90	.	.	Atlas-INDEL
ALB	213	hgsc.bcm.edu	hg19	4	74283386	74283387	+	Frame_Shift_Del	DEL	TG	TG	-	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	TG	TG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	ALB	NM_000477	exon11	c.1427_1428del	p.476_476del	.	.	23.0	20.0	59.0	0.0	.	132	.	.	Atlas-Indel,Pindel
L3MBTL1	26013	hgsc.bcm.edu	hg19	20	42143656	42143656	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	L3MBTL1	NM_032107	exon5	c.443delA	p.H148fs	.	.	65.0	22.0	42.0	0.0	.	105	.	.	Atlas-Indel,Pindel
TTLL3	26140	hgsc.bcm.edu	hg19	3	9870684	9870685	+	Frame_Shift_Del	DEL	GA	GA	-	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	GA	GA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	TTLL3	NM_001025930	exon10	c.1587_1588del	p.529_530del	.	.	36.0	15.0	50.0	0.0	.	51	.	.	Atlas-Indel,Pindel
NBEA	26960	hgsc.bcm.edu	hg19	13	36229035	36229036	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	NBEA	NM_015678	exon53	c.8016_8017insC	p.V2672fs	.	.	45.0	30.0	73.0	0.0	.	340	.	.	Atlas-INDEL
TRNT1	51095	hgsc.bcm.edu	hg19	3	3186326	3186329	+	Frame_Shift_Del	DEL	AGTT	AGTT	-	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	AGTT	AGTT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	TRNT1	NM_182916	exon5	c.539_542del	p.180_181del	.	.	151.0	23.0	204.0	0.0	.	34	.	.	Atlas-Indel,Pindel
ALB	213	hgsc.bcm.edu	hg19	4	74283297	74283298	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-G3-A25S-01A-11D-A16V-10	TCGA-G3-A25S-10A-01D-A16V-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	c05adc19-2e01-4712-a35a-69eee4d40998	084d16c3-f0e8-4cc5-b2a9-cb055fd6ebe5	.	ALB	NM_000477	exon11	c.1339_1340insT	p.L447fs	.	.	51.0	42.0	112.0	0.0	.	132	.	.	Atlas-INDEL
