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
PITHD1	57095	hgsc.bcm.edu	hg19	1	24105128	24105128	+	Silent	SNP	A	A	G	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	PITHD1	NM_020362	exon1	c.A123G	p.Q41Q	GCTGCAATGCCTT	.	17.0	7.0	4.0	0.0	.	20	.	.	.	none	.	.	PASS	Atlas-SNP
HFM1	164045	hgsc.bcm.edu	hg19	1	91742587	91742587	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	HFM1	NM_001017975	exon31	c.G3424C	p.E1142Q	TGCATTCTCGGTT	.	88.0	30.0	109.0	0.0	.	188	.	.	.	none	.	.	PASS	Atlas-SNP
SLC44A3	126969	hgsc.bcm.edu	hg19	1	95330398	95330398	+	Silent	SNP	T	T	A	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	SLC44A3	NM_001114106	exon11	c.T1338A	p.S446S	AATCTCTGTGGTG	.	68.0	22.0	87.0	0.0	.	109	.	.	.	none	.	.	PASS	Atlas-SNP
DNAH14	127602	hgsc.bcm.edu	hg19	1	225546329	225546329	+	Silent	SNP	T	T	C	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	DNAH14	NM_001373	exon72	c.T11472C	p.T3824T	CAGAACTCCGCTG	.	70.0	32.0	95.0	0.0	.	300	.	.	.	none	.	.	PASS	Atlas-SNP
DHX57	90957	hgsc.bcm.edu	hg19	2	39088916	39088916	+	Silent	SNP	T	T	C	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	DHX57	NM_198963	exon5	c.A636G	p.A212A	TAGTGATGCTCCC	.	120.0	66.0	107.0	0.0	.	127	.	.	.	none	.	.	PASS	Atlas-SNP
STK11IP	114790	hgsc.bcm.edu	hg19	2	220473931	220473931	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	STK11IP	NM_052902	exon16	c.T1955C	p.V652A	CAGCTGTCCAGGT	.	89.0	35.0	82.0	0.0	.	152	.	.	.	none	.	.	PASS	Atlas-SNP
ATXN7	6314	hgsc.bcm.edu	hg19	3	63983337	63983337	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	ATXN7	NM_001177387	exon12	c.C2702T	p.T901I	CAGCAACATCACC	.	66.0	27.0	64.0	0.0	.	126	.	.	.	none	.	.	PASS	Atlas-SNP
TOPBP1	11073	hgsc.bcm.edu	hg19	3	133331389	133331389	+	Silent	SNP	C	C	T	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	TOPBP1	NM_007027	exon24	c.G3879A	p.L1293L	TATCACCAATCCA	.	52.0	20.0	69.0	0.0	.	218	.	.	.	none	.	.	PASS	Atlas-SNP
CLDN16	10686	hgsc.bcm.edu	hg19	3	190126252	190126252	+	Missense_Mutation	SNP	T	T	G	rs143316426	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	CLDN16	NM_006580	exon4	c.T742G	p.L248V	TGCTTTTTGGCTG	.	78.0	40.0	69.0	0.0	.	59	.	.	.	alt	T|0.999;C|0.001	.	PASS	Atlas-SNP
PLK4	10733	hgsc.bcm.edu	hg19	4	128813596	128813596	+	Silent	SNP	T	T	C	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	PLK4	NM_014264	exon10	c.T2115C	p.Y705Y	CACTTATTTTACA	.	115.0	31.0	72.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
CPE	1363	hgsc.bcm.edu	hg19	4	166300624	166300624	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	CPE	NM_001873	exon1	c.A251C	p.E84A	GCTTCGAGGGCCG	.	156.0	91.0	111.0	0.0	.	65	.	.	.	none	.	.	PASS	Atlas-SNP
HIGD2A	192286	hgsc.bcm.edu	hg19	5	175816407	175816407	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	HIGD2A	NM_138820	exon2	c.T230A	p.L77H	CTCAGCTCATGAT	.	141.0	35.0	135.0	0.0	.	7	.	.	.	none	.	.	PASS	Atlas-SNP
UNC5A	90249	hgsc.bcm.edu	hg19	5	176300996	176300996	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	UNC5A	NM_133369	exon7	c.T914G	p.L305R	TGGCCCTCTATGT	.	113.0	68.0	102.0	0.0	.	76	.	.	.	none	.	.	PASS	Atlas-SNP
TNFRSF21	27242	hgsc.bcm.edu	hg19	6	47254097	47254097	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	TNFRSF21	NM_014452	exon2	c.C331T	p.Q111X	ATGGCTGACTACA	.	136.0	61.0	137.0	0.0	.	61	.	.	.	none	.	.	PASS	Atlas-SNP
CEP85L	387119	hgsc.bcm.edu	hg19	6	118790282	118790282	+	Missense_Mutation	SNP	C	C	T	rs371610026		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	CEP85L	NM_001178035	exon13	c.G2216A	p.R739H	TGAGCACGCTGAT	.	105.0	22.0	121.0	0.0	.	26	.	.	.	weak	.	.	PASS	Atlas-SNP
KIAA1244	57221	hgsc.bcm.edu	hg19	6	138656258	138656258	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	KIAA1244	NM_020340	exon33	c.G6275A	p.R2092K	ACAAGAGGCCCCG	.	19.0	8.0	28.0	0.0	.	236	.	.	.	none	.	.	PASS	Atlas-SNP
ANLN	54443	hgsc.bcm.edu	hg19	7	36446013	36446013	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	ANLN	NM_018685	exon4	c.A711C	p.K237N	ATCCAAATTTTCC	.	89.0	49.0	104.0	0.0	.	101	.	.	.	none	.	.	PASS	Atlas-SNP
C8orf82	414919	hgsc.bcm.edu	hg19	8	145753110	145753110	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	C8orf82	NM_001001795	exon3	c.G267T	p.E89D	AGCGGCCTCGTAG	.	30.0	16.0	8.0	0.0	.	7	.	.	.	none	.	.	PASS	Atlas-SNP
HK1	3098	hgsc.bcm.edu	hg19	10	71128300	71128300	+	Silent	SNP	G	G	A	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	HK1	NM_033498	exon8	c.G516A	p.L172L	CATCCTGATCACC	.	171.0	68.0	180.0	0.0	.	170	.	.	.	none	.	.	PASS	Atlas-SNP
HOGA1	112817	hgsc.bcm.edu	hg19	10	99358955	99358955	+	Silent	SNP	C	C	T	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	HOGA1	NM_138413	exon3	c.C450T	p.L150L	GGCCCTCATTCAC	.	88.0	35.0	124.0	0.0	.	25	.	.	.	none	.	.	PASS	Atlas-SNP
SLC18A2	6571	hgsc.bcm.edu	hg19	10	119003520	119003520	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	SLC18A2,right_lower_lobe,carcinoma,0,1	SLC18A2	NM_003054	exon3	c.G160T	p.E54X	AAGCATGAGAAGA	.	64.0	29.0	88.0	0.0	.	58	.	.	.	none	.	.	PASS	Atlas-SNP
ARL14EP	120534	hgsc.bcm.edu	hg19	11	30352522	30352522	+	Silent	SNP	C	C	T	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	.	NM_152316	exon2	c.C27T	p.V9V	TGGAGTCCAGCTT	.	328.0	142.0	360.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
CCDC85B	11007	hgsc.bcm.edu	hg19	11	65658488	65658488	+	Silent	SNP	C	C	T	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	CCDC85B	NM_006848	exon1	c.C234T	p.R78R	GCTGCGCGACCTC	.	19.0	9.0	0.0	0.0	.	1	.	.	.	none	.	.	PASS	Atlas-SNP
SDHD	6392	hgsc.bcm.edu	hg19	11	111958619	111958619	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	SDHD	NM_003002	exon2	c.A91G	p.T31A	GCTCATATCTCAG	.	60.0	26.0	67.0	0.0	.	19	.	.	.	none	.	.	PASS	Atlas-SNP
GXYLT1	283464	hgsc.bcm.edu	hg19	12	42481671	42481671	+	Missense_Mutation	SNP	A	A	G	rs202200134	bycluster	TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	Q8IXV1_HUMAN,NS,carcinoma,0,2	GXYLT1	NM_173601	exon8	c.T1240C	p.C414R	TTCCACAGTATGT	.	67.0	5.0	50.0	0.0	.	47	.	.	.	weak	.	.	PASS	Atlas-SNP
MLL2	8085	hgsc.bcm.edu	hg19	12	49432161	49432161	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	MLL2	NM_003482	exon34	c.T8978G	p.L2993R	TCATCCAGCTCGG	.	173.0	49.0	153.0	0.0	.	1173	.	.	.	none	.	.	PASS	Atlas-SNP
RAB5B	5869	hgsc.bcm.edu	hg19	12	56384574	56384574	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	RAB5B	NM_002868	exon4	c.A424G	p.M142V	AAACGTATGGTGG	.	151.0	87.0	102.0	0.0	.	22	.	.	.	none	.	.	PASS	Atlas-SNP
SLC17A8	246213	hgsc.bcm.edu	hg19	12	100811853	100811853	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	SLC17A8	NM_139319	exon11	c.T1344G	p.I448M	CAGCATTCTCATG	.	103.0	73.0	86.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
PEBP1	5037	hgsc.bcm.edu	hg19	12	118575948	118575948	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	PEBP1	NM_002567	exon2	c.A240C	p.K80N	TCCCAAATACAGG	.	73.0	24.0	35.0	0.0	.	13	.	.	.	none	.	.	PASS	Atlas-SNP
KDM2B	84678	hgsc.bcm.edu	hg19	12	121881832	121881832	+	Silent	SNP	G	G	A	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	KDM2B	NM_032590	exon16	c.C2434T	p.L812L	CACTCAGCTCCTG	.	52.0	12.0	54.0	0.0	.	218	.	.	.	none	.	.	PASS	Atlas-SNP
KDM2B	84678	hgsc.bcm.edu	hg19	12	121881833	121881833	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	KDM2B	NM_032590	exon16	c.G2433T	p.E811D	ACTCAGCTCCTGG	.	53.0	12.0	55.0	0.0	.	218	.	.	.	none	.	.	PASS	Atlas-SNP
MYCBP2	23077	hgsc.bcm.edu	hg19	13	77714983	77714983	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	MYCBP2	NM_015057	exon50	c.A7399G	p.K2467E	TAACCTTATTAGG	.	107.0	6.0	124.0	0.0	.	1029	.	.	.	none	.	.	PASS	Atlas-SNP
SPTB	6710	hgsc.bcm.edu	hg19	14	65253201	65253201	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	SPTB	NM_001024858	exon15	c.G3482A	p.S1161N	GTGTGGCTGCGGC	.	80.0	30.0	98.0	0.0	.	378	.	.	.	none	.	.	PASS	Atlas-SNP
SPTBN5	51332	hgsc.bcm.edu	hg19	15	42166194	42166194	+	Missense_Mutation	SNP	A	A	C	rs199969875	bycluster;alternate_allele	TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	SPTBN5	NM_016642	exon25	c.T4634G	p.L1545R	GAACTCAGCACCC	.	26.0	10.0	29.0	0.0	.	171	.	.	.	alt	.	.	PASS	Atlas-SNP
GPR97	222487	hgsc.bcm.edu	hg19	16	57713092	57713092	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	GPR97	NM_170776	exon5	c.C496T	p.P166S	CAGGGCCCCCGGC	.	90.0	25.0	68.0	0.0	.	74	.	.	.	none	.	.	PASS	Atlas-SNP
ZFHX3	463	hgsc.bcm.edu	hg19	16	72821093	72821093	+	Silent	SNP	G	G	T	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	ZFHX3	NM_006885	exon10	c.C11082A	p.T3694T	TACACTGGTCAGA	.	127.0	37.0	112.0	0.0	.	404	.	.	.	none	.	.	PASS	Atlas-SNP
GALNS	2588	hgsc.bcm.edu	hg19	16	88889080	88889080	+	Silent	SNP	G	G	A	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	GALNS	NM_000512	exon12	c.C1281T	p.V427V	AGTTGTGACCCCT	.	251.0	75.0	205.0	0.0	.	37	.	.	.	none	.	.	PASS	Atlas-SNP
MYO15A	51168	hgsc.bcm.edu	hg19	17	18058522	18058522	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	MYO15A	NM_016239	exon45	c.C8323T	p.R2775C	TTCTCCCGCATCT	.	108.0	12.0	65.0	0.0	.	268	.	.	.	none	.	.	PASS	Atlas-SNP
AATF	26574	hgsc.bcm.edu	hg19	17	35345926	35345926	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	AATF	NM_012138	exon6	c.G1056A	p.M352I	CTTCATGGCAAAG	.	157.0	84.0	82.0	0.0	.	36	.	.	.	none	.	.	PASS	Atlas-SNP
SCPEP1	59342	hgsc.bcm.edu	hg19	17	55058480	55058480	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	SCPEP1	NM_021626	exon2	c.A114C	p.E38D	CAAGGAAGTATGG	.	338.0	161.0	235.0	1.0	.	35	.	.	.	none	.	.	PASS	Atlas-SNP
GREB1L	80000	hgsc.bcm.edu	hg19	18	19020247	19020247	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	GREB1L	NM_001142966	exon9	c.G967C	p.G323R	ATTTCTGGGCCAC	.	67.0	26.0	66.0	0.0	.	69	.	.	.	none	.	.	PASS	Atlas-SNP
PODNL1	79883	hgsc.bcm.edu	hg19	19	14044012	14044012	+	Silent	SNP	G	G	A	rs79400921	bycluster	TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	PODNL1	NM_024825	exon8	c.C1045T	p.L349L	GGTCCAGCCCATT	.	24.0	9.0	0.0	0.0	.	27	.	.	.	weak	.	.	PASS	Atlas-SNP
CYP4F3	4051	hgsc.bcm.edu	hg19	19	15760902	15760902	+	Missense_Mutation	SNP	G	G	A	rs113330239	bycluster	TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	CYP4F3,colon,NS,0,1	CYP4F3	NM_001199209	exon7	c.G827A	p.R276H	GGCGCCGCACCCT	.	202.0	91.0	254.0	2.0	.	69	.	.	.	weak	G|0.500;A|0.500	0.500	PASS	Atlas-SNP
LRRC25	126364	hgsc.bcm.edu	hg19	19	18507658	18507658	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	LRRC25	NM_145256	exon1	c.G116C	p.S39T	GTGGCACTGAACT	.	195.0	85.0	256.0	1.0	.	16	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF14	7561	hgsc.bcm.edu	hg19	19	19822257	19822257	+	Silent	SNP	T	T	G	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	ZNF14	NM_021030	exon4	c.A1833C	p.G611G	TTTCTCTCCAGTG	.	84.0	38.0	64.0	0.0	.	89	.	.	.	none	.	.	PASS	Atlas-SNP
ZNF835	90485	hgsc.bcm.edu	hg19	19	57175950	57175950	+	Missense_Mutation	SNP	A	A	G	rs369897881		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	ZNF835	NM_001005850	exon2	c.T617C	p.V206A	TGCGTGACGCGCG	.	46.0	19.0	0.0	0.0	.	106	.	.	.	weak	.	.	PASS	Atlas-SNP
BPIFB4	149954	hgsc.bcm.edu	hg19	20	31685559	31685559	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	.	NM_182519	exon11	c.A1535T	p.K512I	AGCCCAAAGACCT	.	169.0	79.0	137.0	0.0	.	.	.	.	.	none	.	.	PASS	Atlas-SNP
KIAA1210	57481	hgsc.bcm.edu	hg19	X	118219440	118219440	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	KIAA1210	NM_020721	exon12	c.A4754C	p.K1585T	TTCTGCTTCTGCT	.	46.0	6.0	29.0	0.0	.	171	.	.	.	none	.	.	PASS	Atlas-SNP
NBEAL1	65065	hgsc.bcm.edu	hg19	2	204009565	204009566	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	NBEAL1	NM_001114132	exon31	c.5004_5005insT	p.S1668fs	.	.	45.0	16.0	52.0	0.0	.	266	.	0.355556	0	none	.	.	PASS	Atlas-Indel,Pindel
KANSL2	54934	hgsc.bcm.edu	hg19	12	49073468	49073468	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	.	NM_017822	exon3	c.401delG	p.S134fs	.	.	122.0	64.0	81.0	0.0	.	.	.	0.52459	0	none	.	.	PASS	Atlas-INDEL
NCOR2	9612	hgsc.bcm.edu	hg19	12	124824739	124824740	+	Frame_Shift_Ins	INS	-	-	GCCG	rs61519723	bycluster;alternate_allele	TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.,14	NCOR2	NM_006312	exon39	c.5500_5501insCGGC	p.S1834fs	.	.	61.0	11.0	10.0	0.0	.	475	.	0.180328	0	alt	GCCGCTGCT|1.000;|0.000	.	PASS	Atlas-INDEL
TM9SF1	10548	hgsc.bcm.edu	hg19	14	24661497	24661519	+	Frame_Shift_Del	DEL	CTGCTGAGTTAATGGCCCCATGA	CTGCTGAGTTAATGGCCCCATGA	-	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	CTGCTGAGTTAATGGCCCCATGA	CTGCTGAGTTAATGGCCCCATGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	TM9SF1	NM_001014842	exon4	c.1012_1034del	p.338_345del	.	.	209.0	48.0	253.0	0.0	.	58	.	0.229665	0	none	.	.	PASS	Atlas-Indel,Pindel
LIN37	55957	hgsc.bcm.edu	hg19	19	36243734	36243734	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	LIN37	NM_019104	exon4	c.190delA	p.R64fs	.	.	73.0	28.0	83.0	0.0	.	17	.	0.383562	0	none	.	.	PASS	Atlas-Indel,Pindel
DOCK3	1795	hgsc.bcm.edu	hg19	3	51393580	51393580	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	DOCK3	NM_004947	exon42	c.4309delA	p.R1437fs	.	.	199.0	65.0	232.0	0.0	.	397	.	0.326633	0	none	.	.	PASS	Atlas-Indel,Pindel
KANSL2	54934	hgsc.bcm.edu	hg19	12	49073468	49073469	+	Frame_Shift_Del	DEL	TT	TT	-	novel		TCGA-B9-A5W9-01A-11D-A28G-10	TCGA-B9-A5W9-10A-01D-A28G-10	TT	TT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	ad4535df-a616-4440-8204-9a498d22beb5	869fc941-e464-4427-8385-d302bb618ea9	.	.	NM_017822	exon3	c.400_401del	p.134_134del	.	.	122.0	41.0	82.0	0.0	.	.	.	0.336	.	none	.	.	PASS	Pindel
