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
CHD5	26038	hgsc.bcm.edu	hg19	1	6214807	6214807	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	CHD5	NM_015557	exon5	c.G658A	p.V220I	TGGTGACCGTCTC	.	118.0	34.0	134.0	0.0	.	267	.	.	Atlas-SNP
KDM1A	23028	hgsc.bcm.edu	hg19	1	23370953	23370953	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	KDM1A	NM_001009999	exon3	c.G551C	p.G184A	GTTCTGGAGGGTA	.	114.0	19.0	109.0	0.0	.	49	.	.	Atlas-SNP
COL8A2	1296	hgsc.bcm.edu	hg19	1	36565003	36565003	+	Silent	SNP	G	G	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	COL8A2	NM_005202	exon2	c.C279G	p.P93P	GCCAGGGGGGCCA	.	46.0	15.0	46.0	0.0	.	41	.	.	Atlas-SNP
HIVEP3	59269	hgsc.bcm.edu	hg19	1	42041241	42041241	+	Silent	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	HIVEP3	NM_024503	exon5	c.G5181A	p.P1727P	CCTCGCCGGCTCC	.	87.0	31.0	61.0	0.0	.	235	.	.	Atlas-SNP
CYP4A22	284541	hgsc.bcm.edu	hg19	1	47610597	47610597	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	CYP4A22	NM_001010969	exon9	c.C1177T	p.L393F	AGAGAGCTCAGCA	.	174.0	55.0	169.0	0.0	.	60	.	.	Atlas-SNP
L1TD1	54596	hgsc.bcm.edu	hg19	1	62672399	62672399	+	Silent	SNP	T	T	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	L1TD1	NM_001164835	exon4	c.T99A	p.T33T	AGAAACTGATAAG	.	371.0	27.0	324.0	0.0	.	114	.	.	Atlas-SNP
FOXD3	27022	hgsc.bcm.edu	hg19	1	63788897	63788897	+	Silent	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	FOXD3	NM_012183	exon1	c.C168T	p.D56D	CCTGGACGAGGCG	.	111.0	38.0	147.0	0.0	.	15	.	.	Atlas-SNP
PDE4DIP	9659	hgsc.bcm.edu	hg19	1	145075831	145075831	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	PDE4DIP	NM_022359	exon1	c.G32T	p.R11L	CGGCGGCGGCAGC	.	220.0	25.0	182.0	0.0	.	817	.	.	Atlas-SNP
CD5L	922	hgsc.bcm.edu	hg19	1	157803090	157803090	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	CD5L,right_upper_lobe,carcinoma,0,1	CD5L	NM_005894	exon5	c.G931T	p.D311Y	CATTATCCAGCCA	.	125.0	28.0	125.0	0.0	.	112	.	.	Atlas-SNP
PRG4	10216	hgsc.bcm.edu	hg19	1	186277296	186277296	+	Silent	SNP	T	T	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	PRG4,NS,carcinoma,0,1	PRG4	NM_005807	exon7	c.T2445C	p.S815S	CACCTCTGACAAG	.	163.0	67.0	130.0	1.0	.	259	.	.	Atlas-SNP
CNTN2	6900	hgsc.bcm.edu	hg19	1	205027106	205027106	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	CNTN2	NM_005076	exon3	c.C128T	p.P43L	ACCAGCCCCTCAG	.	181.0	54.0	213.0	0.0	.	116	.	.	Atlas-SNP
NUP133	55746	hgsc.bcm.edu	hg19	1	229631653	229631653	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	NUP133	NM_018230	exon7	c.A961G	p.T321A	CATCGGTAATGTT	.	28.0	9.0	33.0	0.0	.	111	.	.	Atlas-SNP
LGALS8	3964	hgsc.bcm.edu	hg19	1	236703931	236703931	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	LGALS8	NM_006499	exon6	c.T413C	p.L138P	ACACTCTGGGCAT	.	57.0	17.0	51.0	0.0	.	42	.	.	Atlas-SNP
FOXN2	3344	hgsc.bcm.edu	hg19	2	48602270	48602270	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	FOXN2	NM_002158	exon7	c.G984C	p.E328D	GGATGAGGTATAT	.	107.0	16.0	100.0	0.0	.	39	.	.	Atlas-SNP
VPS54	51542	hgsc.bcm.edu	hg19	2	64208898	64208898	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	VPS54	NM_016516	exon3	c.C260A	p.S87Y	AAGTCAGATTCTC	.	101.0	41.0	142.0	0.0	.	57	.	.	Atlas-SNP
MOGS	7841	hgsc.bcm.edu	hg19	2	74689306	74689306	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	MOGS	NM_006302	exon4	c.C1610T	p.A537V	GGCAAGGCCTTTC	.	119.0	32.0	137.0	0.0	.	58	.	.	Atlas-SNP
BIN1	274	hgsc.bcm.edu	hg19	2	127808484	127808484	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	BIN1	NM_139343	exon17	c.C1466A	p.S489Y	GGAAGAGAGCTCT	.	215.0	31.0	323.0	0.0	.	85	.	.	Atlas-SNP
TMEFF2	23671	hgsc.bcm.edu	hg19	2	192820997	192820997	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	TMEFF2	NM_016192	exon8	c.C853T	p.Q285X	GCTCCTGCATATT	.	84.0	11.0	72.0	0.0	.	54	.	.	Atlas-SNP
MTMR14	64419	hgsc.bcm.edu	hg19	3	9739394	9739394	+	Splice_Site	SNP	G	G	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	MTMR14,NS,carcinoma,0,1	MTMR14	NM_001077525	exon18	c.1614-1G>T	.	GCCCCAGATCAGT	.	57.0	29.0	50.0	0.0	.	43	.	.	Atlas-SNP
CLCN2	1181	hgsc.bcm.edu	hg19	3	184071474	184071474	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	CLCN2	NM_004366	exon16	c.A1831T	p.M611L	CCAGCATTCGGCC	.	82.0	22.0	68.0	0.0	.	74	.	.	Atlas-SNP
C3orf43	255798	hgsc.bcm.edu	hg19	3	196242031	196242031	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	C3orf43	NM_001077657	exon1	c.G50A	p.R17K	AGCAACCTTTTCA	.	65.0	24.0	62.0	0.0	.	25	.	.	Atlas-SNP
PIGZ	80235	hgsc.bcm.edu	hg19	3	196674641	196674641	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	PIGZ	NM_025163	exon3	c.T1127G	p.M376R	AGAGGCATGAAGT	.	246.0	77.0	269.0	0.0	.	34	.	.	Atlas-SNP
NFXL1	152518	hgsc.bcm.edu	hg19	4	47887522	47887522	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	NFXL1	NM_152995	exon14	c.C1817A	p.T606N	CTGCCAGTCTGCT	.	115.0	46.0	131.0	0.0	.	79	.	.	Atlas-SNP
PAICS	10606	hgsc.bcm.edu	hg19	4	57312864	57312864	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	PAICS	NM_001079525	exon4	c.T239G	p.I80S	TAGGTATTAAAAC	.	234.0	61.0	208.0	0.0	.	21	.	.	Atlas-SNP
SLC39A8	64116	hgsc.bcm.edu	hg19	4	103265762	103265762	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	SLC39A8	NM_022154	exon1	c.G58T	p.G20X	CCACTCCTCCGAG	.	128.0	40.0	115.0	0.0	.	24	.	.	Atlas-SNP
ANKRD50	57182	hgsc.bcm.edu	hg19	4	125592001	125592001	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	ANKRD50	NM_020337	exon4	c.G2431A	p.D811N	CACTATCAATACT	.	95.0	35.0	89.0	0.0	.	136	.	.	Atlas-SNP
INTU	27152	hgsc.bcm.edu	hg19	4	128625405	128625405	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	INTU	NM_015693	exon10	c.G1526C	p.R509T	ACATGAGGCGGCT	.	80.0	18.0	74.0	0.0	.	92	.	.	Atlas-SNP
ARHGAP10	79658	hgsc.bcm.edu	hg19	4	148787952	148787952	+	Silent	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	ARHGAP10	NM_024605	exon7	c.G687A	p.Q229Q	ACTACAGATCAAC	.	231.0	41.0	218.0	0.0	.	92	.	.	Atlas-SNP
TRIML1	339976	hgsc.bcm.edu	hg19	4	189061021	189061021	+	Silent	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	TRIML1	NM_178556	exon1	c.G309A	p.K103K	TGCCAAGGCGCTC	.	138.0	46.0	135.0	0.0	.	126	.	.	Atlas-SNP
PCDHA11	56138	hgsc.bcm.edu	hg19	5	140250310	140250310	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	PCDHA11	NM_018902	exon1	c.T1622G	p.V541G	CGGGCGTGCCGCC	.	88.0	28.0	75.0	0.0	.	209	.	.	Atlas-SNP
RBM27	54439	hgsc.bcm.edu	hg19	5	145664265	145664265	+	Silent	SNP	T	T	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	RBM27	NM_018989	exon20	c.T3069A	p.T1023T	ATCCACTGAGACT	.	393.0	169.0	277.0	0.0	.	119	.	.	Atlas-SNP
KIF13A	63971	hgsc.bcm.edu	hg19	6	17837188	17837188	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	KIF13A	NM_001105567	exon11	c.A1076T	p.N359I	TCCTCATTCACAA	.	117.0	50.0	108.0	0.0	.	276	.	.	Atlas-SNP
HLA-DQA1	3117	hgsc.bcm.edu	hg19	6	32610000	32610000	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	HLA-DQA1	NM_002122	exon3	c.G583A	p.G195S	CACTGGGGCCTGG	.	245.0	111.0	261.0	0.0	.	52	.	.	Atlas-SNP
FRS3	10817	hgsc.bcm.edu	hg19	6	41740590	41740590	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	FRS3,colon,carcinoma,0,4	FRS3	NM_006653	exon5	c.C361A	p.R121S	TATTGCGGGTGAT	.	76.0	4.0	76.0	0.0	.	53	.	.	Atlas-SNP
USP49	25862	hgsc.bcm.edu	hg19	6	41774615	41774615	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	USP49	NM_018561	exon4	c.G107A	p.W36X	CAGGCCCACACGG	.	97.0	34.0	113.0	0.0	.	58	.	.	Atlas-SNP
TTBK1	84630	hgsc.bcm.edu	hg19	6	43222834	43222834	+	Silent	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	TTBK1	NM_032538	exon7	c.C624T	p.V208V	CTCAGTCAATGCC	.	107.0	14.0	86.0	0.0	.	124	.	.	Atlas-SNP
AARS2	57505	hgsc.bcm.edu	hg19	6	44272421	44272421	+	Silent	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	AARS2	NM_020745	exon12	c.G1713A	p.Q571Q	TGAAGCCTGGCCC	.	185.0	67.0	149.0	0.0	.	77	.	.	Atlas-SNP
FAM46A	55603	hgsc.bcm.edu	hg19	6	82461742	82461742	+	Silent	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	FAM46A	NM_017633	exon2	c.C117T	p.G39G	GTCGCCGCCGCCG	.	70.0	9.0	53.0	0.0	.	37	.	.	Atlas-SNP
ZBTB2	57621	hgsc.bcm.edu	hg19	6	151687782	151687782	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	ZBTB2	NM_020861	exon3	c.A419G	p.H140R	AACTGATGATCTG	.	132.0	41.0	131.0	0.0	.	30	.	.	Atlas-SNP
THSD7A	221981	hgsc.bcm.edu	hg19	7	11416199	11416199	+	Silent	SNP	A	A	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	THSD7A	NM_015204	exon26	c.T4887A	p.A1629A	TCACCAAGCTAGA	.	71.0	24.0	35.0	0.0	.	219	.	.	Atlas-SNP
CCT6A	908	hgsc.bcm.edu	hg19	7	56127966	56127966	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	CCT6A	NM_001762	exon10	c.A1070G	p.E357G	AGGGAGAAGAGAA	.	139.0	58.0	149.0	0.0	.	44	.	.	Atlas-SNP
WBSCR22	114049	hgsc.bcm.edu	hg19	7	73097969	73097969	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	WBSCR22	NM_001202560	exon1	c.G14C	p.G5A	CCCGCGGCCGGCG	.	116.0	6.0	134.0	0.0	.	27	.	.	Atlas-SNP
TMEM130	222865	hgsc.bcm.edu	hg19	7	98445808	98445808	+	Silent	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	TMEM130	NM_001134450	exon8	c.C1179T	p.V393V	GCACCTGACCCCA	.	269.0	100.0	302.0	0.0	.	54	.	.	Atlas-SNP
MUC17	140453	hgsc.bcm.edu	hg19	7	100679095	100679095	+	Silent	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	MUC17	NM_001040105	exon3	c.G4398A	p.P1466P	CACGCCGGTGGCC	.	82.0	27.0	78.0	0.0	.	804	.	.	Atlas-SNP
ST18	9705	hgsc.bcm.edu	hg19	8	53074116	53074116	+	Silent	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	ST18	NM_014682	exon14	c.G1413A	p.V471V	TTGCTTCACCAAA	.	196.0	69.0	190.0	0.0	.	212	.	.	Atlas-SNP
KCNB2	9312	hgsc.bcm.edu	hg19	8	73848416	73848416	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	KCNB2	NM_004770	exon3	c.C826A	p.P276T	ATCTTGCCGTACT	.	171.0	69.0	140.0	0.0	.	228	.	.	Atlas-SNP
TRPS1	7227	hgsc.bcm.edu	hg19	8	116616728	116616728	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	TRPS1	NM_014112	exon4	c.A1468G	p.R490G	AGCCCCTGGAAAG	.	85.0	25.0	92.0	0.0	.	516	.	.	Atlas-SNP
PTPRD	5789	hgsc.bcm.edu	hg19	9	8500869	8500869	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	PTPRD	NM_002839	exon24	c.A2013C	p.K671N	AAGGTATTTGGTA	.	127.0	63.0	195.0	0.0	.	1348	.	.	Atlas-SNP
BNC2	54796	hgsc.bcm.edu	hg19	9	16436852	16436852	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	BNC2	NM_017637	exon6	c.G1340A	p.G447E	GTCTTCCCACATG	.	69.0	38.0	80.0	0.0	.	166	.	.	Atlas-SNP
MTAP	4507	hgsc.bcm.edu	hg19	9	21837985	21837985	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	MTAP,NS,carcinoma,0,1	MTAP	NM_002451	exon5	c.G426C	p.E142D	GGCTGAGCCGTTT	.	67.0	33.0	110.0	0.0	.	23	.	.	Atlas-SNP
SLC28A3	64078	hgsc.bcm.edu	hg19	9	86894924	86894924	+	Silent	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	SLC28A3	NM_001199633	exon16	c.G1794A	p.G598G	CACGGTCCCCGCA	.	40.0	18.0	39.0	0.0	.	72	.	.	Atlas-SNP
CUBN	8029	hgsc.bcm.edu	hg19	10	16979768	16979768	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	CUBN	NM_001081	exon39	c.A5749G	p.S1917G	GAATGCTAGGCCC	.	63.0	11.0	68.0	0.0	.	515	.	.	Atlas-SNP
MYO3A	53904	hgsc.bcm.edu	hg19	10	26432443	26432443	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	MYO3A,NS,carcinoma,0,1	MYO3A	NM_017433	exon21	c.G2329C	p.D777H	CTCTTAGATATGT	.	137.0	13.0	133.0	0.0	.	371	.	.	Atlas-SNP
TSPAN15	23555	hgsc.bcm.edu	hg19	10	71244958	71244958	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	TSPAN15	NM_012339	exon3	c.C344A	p.T115N	CCTTGACCTTCCG	.	189.0	8.0	142.0	0.0	.	22	.	.	Atlas-SNP
ENO4	387712	hgsc.bcm.edu	hg19	10	118609206	118609206	+	Silent	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	ENO4	NM_001242699	exon1	c.C129T	p.T43T	CTCCACCTTCTAC	.	197.0	68.0	203.0	0.0	.	1	.	.	Atlas-SNP
EBF3	253738	hgsc.bcm.edu	hg19	10	131761727	131761727	+	Silent	SNP	G	G	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	EBF3	NM_001005463	exon2	c.C195A	p.S65S	GAAATTGGATTTC	.	78.0	28.0	74.0	0.0	.	193	.	.	Atlas-SNP
TOLLIP	54472	hgsc.bcm.edu	hg19	11	1309926	1309926	+	Silent	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	TOLLIP	NM_019009	exon4	c.C447T	p.D149D	CCACTTGTCCTCC	.	72.0	26.0	89.0	0.0	.	25	.	.	Atlas-SNP
OR52E4	390081	hgsc.bcm.edu	hg19	11	5905748	5905748	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	OR52E4	NM_001005165	exon1	c.T226C	p.S76P	GGTCTGTCCACAT	.	63.0	13.0	73.0	0.0	.	65	.	.	Atlas-SNP
DKK3	27122	hgsc.bcm.edu	hg19	11	11990020	11990020	+	Silent	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	DKK3	NM_001018057	exon4	c.C450T	p.D150D	GTCCTCGTCGATG	.	66.0	19.0	71.0	0.0	.	35	.	.	Atlas-SNP
IGSF22	283284	hgsc.bcm.edu	hg19	11	18733863	18733863	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	IGSF22	NM_173588	exon15	c.T2164C	p.W722R	CCTTCCACTTCAT	.	180.0	54.0	188.0	0.0	.	211	.	.	Atlas-SNP
BTBD18	643376	hgsc.bcm.edu	hg19	11	57513122	57513122	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	BTBD18	NM_001145101	exon3	c.A623C	p.K208T	TTCCTCTTGAGCA	.	128.0	47.0	99.0	0.0	.	26	.	.	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	hg19	11	92087690	92087690	+	Silent	SNP	T	T	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	FAT3	NM_001008781	exon1	c.T2412C	p.Y804Y	CATCTATGACTTA	.	92.0	34.0	84.0	0.0	.	1822	.	.	Atlas-SNP
BCO2	83875	hgsc.bcm.edu	hg19	11	112064319	112064319	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	BCO2,NS,carcinoma,+1,2	BCO2	NM_001256398	exon3	c.G416A	p.R139Q	AAAACCGAATTGT	.	152.0	49.0	158.0	0.0	.	44	.	.	Atlas-SNP
NXPE4	54827	hgsc.bcm.edu	hg19	11	114453434	114453434	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	.	NM_001077639	exon3	c.G406C	p.D136H	GGAAATCCCCGCC	.	131.0	31.0	135.0	0.0	.	.	.	.	Atlas-SNP
OR8A1	390275	hgsc.bcm.edu	hg19	11	124440405	124440405	+	Silent	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	OR8A1	NM_001005194	exon1	c.G441A	p.L147L	CCCTTTGCTTTAC	.	65.0	20.0	57.0	0.0	.	61	.	.	Atlas-SNP
ZCRB1	85437	hgsc.bcm.edu	hg19	12	42717863	42717863	+	Silent	SNP	T	T	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	ZCRB1	NM_033114	exon2	c.A42T	p.V14V	GTTGGATACATAC	.	114.0	32.0	127.0	0.0	.	20	.	.	Atlas-SNP
LMBR1L	55716	hgsc.bcm.edu	hg19	12	49491852	49491852	+	Missense_Mutation	SNP	C	C	A	rs367631047	alternate_allele	TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	LMBR1L	NM_018113	exon16	c.G1277T	p.R426L	TTGAAGCGTCCAA	.	60.0	15.0	66.0	0.0	.	61	.	.	Atlas-SNP
DHX37	57647	hgsc.bcm.edu	hg19	12	125470692	125470692	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	DHX37	NM_032656	exon2	c.G226T	p.E76X	TCTTCTCCTTCTT	.	74.0	21.0	57.0	0.0	.	114	.	.	Atlas-SNP
LTB4R	1241	hgsc.bcm.edu	hg19	14	24785802	24785802	+	Silent	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	LTB4R	NM_181657	exon2	c.G945A	p.T315T	CAGCACGCGCCGC	.	31.0	10.0	25.0	0.0	.	18	.	.	Atlas-SNP
NKX2-1	7080	hgsc.bcm.edu	hg19	14	36986874	36986874	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	NKX2-1	NM_001079668	exon3	c.C815G	p.T272S	CACCCGGTGCCCC	.	217.0	28.0	228.0	0.0	.	21	.	.	Atlas-SNP
CDKL1	8814	hgsc.bcm.edu	hg19	14	50862544	50862544	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	CDKL1	NM_004196	exon1	c.T46C	p.Y16H	CTCCATAGGATCC	.	129.0	38.0	138.0	0.0	.	50	.	.	Atlas-SNP
KIAA0317	9870	hgsc.bcm.edu	hg19	14	75130767	75130767	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	KIAA0317	NM_001039479	exon19	c.G2204A	p.W735X	CAAAACCACCTCA	.	91.0	26.0	91.0	0.0	.	68	.	.	Atlas-SNP
C14orf80	283643	hgsc.bcm.edu	hg19	14	105958483	105958483	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	C14orf80	NM_001134876	exon3	c.A266T	p.Q89L	GCTCCCAGGGCTA	.	58.0	20.0	44.0	0.0	.	19	.	.	Atlas-SNP
AP4E1	23431	hgsc.bcm.edu	hg19	15	51289823	51289823	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	AP4E1	NM_007347	exon18	c.A2647G	p.M883V	AACAACATGGAAA	.	89.0	18.0	69.0	0.0	.	78	.	.	Atlas-SNP
EFTUD1	79631	hgsc.bcm.edu	hg19	15	82444220	82444220	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	EFTUD1	NM_024580	exon18	c.G2575A	p.A859T	TACTGGCTTCTTT	.	109.0	35.0	113.0	0.0	.	74	.	.	Atlas-SNP
NLRC3	197358	hgsc.bcm.edu	hg19	16	3613191	3613191	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	NLRC3	NM_178844	exon5	c.G1747A	p.V583M	CCTCCACGCTGCG	.	118.0	43.0	103.0	0.0	.	103	.	.	Atlas-SNP
SPN	6693	hgsc.bcm.edu	hg19	16	29675716	29675716	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	SPN	NM_001030288	exon2	c.G667A	p.V223I	CCCCAGGTCTCTA	.	85.0	18.0	99.0	0.0	.	44	.	.	Atlas-SNP
SETD1A	9739	hgsc.bcm.edu	hg19	16	30982811	30982811	+	Silent	SNP	C	C	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	SETD1A	NM_014712	exon13	c.C3129A	p.S1043S	CTCATCCTCCTCC	.	96.0	4.0	89.0	0.0	.	143	.	.	Atlas-SNP
KATNB1	10300	hgsc.bcm.edu	hg19	16	57788908	57788908	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	KATNB1	NM_005886	exon14	c.A1295C	p.N432T	TGCCAAATGTATG	.	75.0	23.0	86.0	0.0	.	35	.	.	Atlas-SNP
FHOD1	29109	hgsc.bcm.edu	hg19	16	67263800	67263800	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	FHOD1	NM_013241	exon21	c.C3308T	p.T1103I	TCTGATGTATCAC	.	94.0	27.0	86.0	0.0	.	86	.	.	Atlas-SNP
CYBA	1535	hgsc.bcm.edu	hg19	16	88713210	88713210	+	Missense_Mutation	SNP	G	G	T	rs373948664	alternate_allele	TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	CYBA	NM_000101	exon4	c.C240A	p.F80L	GGGCCCGAACAGC	.	71.0	23.0	66.0	0.0	.	12	.	.	Atlas-SNP
MYBBP1A	10514	hgsc.bcm.edu	hg19	17	4451500	4451500	+	Silent	SNP	A	A	G	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	MYBBP1A	NM_014520	exon12	c.T1662C	p.N554N	GCTGTGATTCAAC	.	59.0	14.0	67.0	0.0	.	69	.	.	Atlas-SNP
SBNO2	22904	hgsc.bcm.edu	hg19	19	1119995	1119995	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	SBNO2	NM_014963	exon12	c.A1177G	p.K393E	CATTCTTGGCTTT	.	68.0	11.0	74.0	0.0	.	112	.	.	Atlas-SNP
DPP9	91039	hgsc.bcm.edu	hg19	19	4683489	4683489	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	DPP9	NM_139159	exon19	c.G2331T	p.K777N	ACCCACCTTGAAC	.	110.0	31.0	121.0	0.0	.	59	.	.	Atlas-SNP
MCOLN1	57192	hgsc.bcm.edu	hg19	19	7593583	7593583	+	Silent	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	MCOLN1	NM_020533	exon8	c.G978A	p.L326L	CCTGCTGCAGAAC	.	102.0	37.0	82.0	0.0	.	54	.	.	Atlas-SNP
ZNF442	79973	hgsc.bcm.edu	hg19	19	12461659	12461659	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	ZNF442,NS,carcinoma,0,2	ZNF442	NM_030824	exon6	c.C740G	p.P247R	TAAATAGGGAAGG	.	103.0	20.0	106.0	0.0	.	102	.	.	Atlas-SNP
SLC25A42	284439	hgsc.bcm.edu	hg19	19	19217109	19217109	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	SLC25A42	NM_178526	exon6	c.G412A	p.G138S	TTCGCCGGCGCAC	.	58.0	6.0	44.0	0.0	.	18	.	.	Atlas-SNP
ZNF565	147929	hgsc.bcm.edu	hg19	19	36686037	36686037	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	ZNF565	NM_001042474	exon3	c.G31A	p.V11M	TGGCCACGTCCCT	.	178.0	64.0	187.0	0.0	.	46	.	.	Atlas-SNP
CEACAM8	1088	hgsc.bcm.edu	hg19	19	43093887	43093887	+	Missense_Mutation	SNP	G	G	T	rs142428970	bycluster;byfrequency;alternate_allele	TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	CEACAM8,NS,carcinoma,0,1	CEACAM8	NM_001816	exon3	c.C425A	p.P142Q	GTCTCCGCTGTGC	.	51.0	13.0	54.0	0.0	.	44	.	G|1.000;A|0.000	Atlas-SNP
MYPOP	339344	hgsc.bcm.edu	hg19	19	46394252	46394252	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	MYPOP	NM_001012643	exon3	c.G829A	p.A277T	TGCCGGCCAGCTC	.	101.0	44.0	88.0	0.0	.	23	.	.	Atlas-SNP
KLK9	284366	hgsc.bcm.edu	hg19	19	51507011	51507011	+	Silent	SNP	C	C	T	rs147491832		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	KLK9	NM_012315	exon4	c.G552A	p.S184S	GCTGTCCGAGATG	.	111.0	37.0	99.0	0.0	.	27	.	C|1.000;T|0.000	Atlas-SNP
VN1R2	317701	hgsc.bcm.edu	hg19	19	53761895	53761895	+	Silent	SNP	G	G	T	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	VN1R2	NM_173856	exon1	c.G267T	p.G89G	TGTGGGGCTGGAC	.	150.0	49.0	133.0	0.0	.	71	.	.	Atlas-SNP
OLIG2	10215	hgsc.bcm.edu	hg19	21	34399755	34399755	+	Silent	SNP	C	C	A	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	OLIG2	NM_005806	exon2	c.C585A	p.S195S	GCACTCCGCGCCC	.	46.0	15.0	34.0	0.0	.	22	.	.	Atlas-SNP
SRCAP	10847	hgsc.bcm.edu	hg19	16	30748580	30748584	+	Frame_Shift_Del	DEL	CAAGG	CAAGG	-	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	CAAGG	CAAGG	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	SRCAP	NM_006662	exon34	c.7218_7222del	p.2406_2408del	.	.	102.0	33.0	92.0	0.0	.	298	.	.	Atlas-INDEL
RASGRF2	5924	hgsc.bcm.edu	hg19	5	80388721	80388721	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	RASGRF2	NM_006909	exon10	c.1491delA	p.L497fs	.	.	135.0	36.0	129.0	0.0	.	165	.	.	Atlas-INDEL
TP73	7161	hgsc.bcm.edu	hg19	1	3599744	3599744	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-GJ-A9DB-01A-11D-A36X-10	TCGA-GJ-A9DB-10A-01D-A370-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	84dd6525-b3f4-4225-854b-d8ea04ae087d	1feb671e-5b85-48f9-b96b-19e5a877a13e	.	TP73	NM_005427	exon3	c.185delT	p.M62fs	.	.	84.0	25.0	110.0	0.0	.	54	.	.	Atlas-INDEL
