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
LSM10	84967	hgsc.bcm.edu	hg19	1	36859597	36859597	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	LSM10	NM_032881	exon2	c.A134T	p.N45I	TCGACATTGTCTA	.	105.0	40.0	74.0	0.0	.	9	.	.	Atlas-SNP
ZC3H12A	80149	hgsc.bcm.edu	hg19	1	37945929	37945929	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	ZC3H12A	NM_025079	exon3	c.T482A	p.L161Q	GCATCCTGCTGGC	.	76.0	28.0	62.0	0.0	.	58	.	.	Atlas-SNP
FAAH	2166	hgsc.bcm.edu	hg19	1	46876499	46876499	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	FAAH	NM_001441	exon11	c.C1289T	p.S430L	GGCTGTCAGCTTT	.	53.0	10.0	55.0	0.0	.	36	.	.	Atlas-SNP
GSTM3	2947	hgsc.bcm.edu	hg19	1	110280323	110280323	+	Silent	SNP	T	T	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	GSTM3	NM_000849	exon7	c.A423G	p.Q141Q	GGAGAATTGTTTC	.	267.0	110.0	191.0	0.0	.	21	.	.	Atlas-SNP
CHD1L	9557	hgsc.bcm.edu	hg19	1	146765405	146765405	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	CHD1L	NM_004284	exon21	c.A2505C	p.K835N	GAAGAAAGGTAAG	.	82.0	5.0	46.0	0.0	.	72	.	.	Atlas-SNP
FLG2	388698	hgsc.bcm.edu	hg19	1	152328015	152328015	+	Silent	SNP	C	C	G	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	FLG2	NM_001014342	exon3	c.G2247C	p.G749G	GCCAGACCCATGT	.	210.0	107.0	125.0	0.0	.	431	.	.	Atlas-SNP
SSR2	6746	hgsc.bcm.edu	hg19	1	155984782	155984782	+	Silent	SNP	A	A	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	SSR2	NM_003145	exon4	c.T333G	p.T111T	CAGGTAAGTAATT	.	261.0	51.0	96.0	0.0	.	20	.	.	Atlas-SNP
CEP350	9857	hgsc.bcm.edu	hg19	1	180000501	180000501	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	CEP350	NM_014810	exon15	c.G3597C	p.E1199D	TGATGAGGAAAAA	.	564.0	310.0	280.0	0.0	.	418	.	.	Atlas-SNP
TPR	7175	hgsc.bcm.edu	hg19	1	186322973	186322973	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	TPR	NM_003292	exon18	c.G2181T	p.M727I	TTGCAGCATTTCA	.	81.0	14.0	31.0	0.0	.	441	.	.	Atlas-SNP
KIAA1804	0	hgsc.bcm.edu	hg19	1	233514789	233514789	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	KIAA1804	NM_032435	exon9	c.G2037T	p.Q679H	TGCTCAGAGAGAG	.	259.0	20.0	211.0	0.0	.	129	.	.	Atlas-SNP
EHD3	30845	hgsc.bcm.edu	hg19	2	31472315	31472315	+	Silent	SNP	G	G	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	EHD3	NM_014600	exon3	c.G483A	p.E161E	TGGGGAGAAGCAG	.	69.0	37.0	61.0	0.0	.	90	.	.	Atlas-SNP
BIRC6	57448	hgsc.bcm.edu	hg19	2	32689764	32689764	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	BIRC6	NM_016252	exon25	c.C5129G	p.T1710S	CACTCACTCCACC	.	112.0	46.0	119.0	0.0	.	838	.	.	Atlas-SNP
PCBP1	5093	hgsc.bcm.edu	hg19	2	70315913	70315913	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	PCBP1	NM_006196	exon1	c.G1038T	p.R346S	TGCCAGGCTTTCC	.	64.0	34.0	60.0	0.0	.	28	.	.	Atlas-SNP
C2orf81	388963	hgsc.bcm.edu	hg19	2	74642705	74642705	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	C2orf81	NM_001145054	exon4	c.G518A	p.W173X	CCCATCCACGACC	.	65.0	27.0	40.0	0.0	.	23	.	.	Atlas-SNP
REG3G	130120	hgsc.bcm.edu	hg19	2	79254181	79254181	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	REG3G	NM_198448	exon4	c.T217C	p.S73P	CGGCCCTCTGGAA	.	90.0	4.0	74.0	0.0	.	67	.	.	Atlas-SNP
IL18RAP	8807	hgsc.bcm.edu	hg19	2	103057777	103057777	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	IL18RAP	NM_003853	exon7	c.G736A	p.D246N	GTGGGAGACACTA	.	68.0	32.0	48.0	0.0	.	102	.	.	Atlas-SNP
HOXD12	3238	hgsc.bcm.edu	hg19	2	176964607	176964607	+	Silent	SNP	C	C	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	HOXD12	NM_021193	exon1	c.C78T	p.F26F	CTACTTCTCCAAC	.	99.0	35.0	80.0	0.0	.	25	.	.	Atlas-SNP
FSIP2	401024	hgsc.bcm.edu	hg19	2	186673007	186673007	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	FSIP2_ENST00000343098,colon,carcinoma,0,2	FSIP2	NM_173651	exon17	c.T19241G	p.I6414S	TCAAAATTATTGA	.	253.0	45.0	182.0	0.0	.	251	.	.	Atlas-SNP
FSIP2	401024	hgsc.bcm.edu	hg19	2	186673014	186673014	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	FSIP2	NM_173651	exon17	c.T19248A	p.D6416E	TATTGATGAACTT	.	255.0	45.0	183.0	0.0	.	251	.	.	Atlas-SNP
LAMB2	3913	hgsc.bcm.edu	hg19	3	49169137	49169137	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	LAMB2	NM_002292	exon5	c.T479G	p.M160R	ACCAGCATGGCAG	.	83.0	6.0	50.0	0.0	.	156	.	.	Atlas-SNP
LAMB2	3913	hgsc.bcm.edu	hg19	3	49169138	49169138	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	LAMB2	NM_002292	exon5	c.A478T	p.M160L	CCAGCATGGCAGC	.	82.0	6.0	50.0	0.0	.	156	.	.	Atlas-SNP
PEX5L	51555	hgsc.bcm.edu	hg19	3	179689381	179689381	+	Splice_Site	SNP	C	C	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	PEX5L	NM_001256752	exon3	c.93+1G>A	.	CACTTACCTGCTT	.	78.0	31.0	56.0	0.0	.	104	.	.	Atlas-SNP
ADD1	118	hgsc.bcm.edu	hg19	4	2909499	2909499	+	Silent	SNP	C	C	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	ADD1	NM_176801	exon11	c.C1536A	p.S512S	AACTTCCACCTCT	.	159.0	17.0	102.0	0.0	.	56	.	.	Atlas-SNP
SLAIN2	57606	hgsc.bcm.edu	hg19	4	48385695	48385695	+	Silent	SNP	C	C	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	SLAIN2	NM_020846	exon6	c.C1254A	p.S418S	CCTGTCCCGAACA	.	485.0	21.0	240.0	0.0	.	31	.	.	Atlas-SNP
YTHDC1	91746	hgsc.bcm.edu	hg19	4	69179869	69179869	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	YTHDC1,NS,carcinoma,0,1	YTHDC1	NM_001031732	exon17	c.G2132T	p.R711L	CATAATCGCTCTC	.	123.0	28.0	82.0	0.0	.	81	.	.	Atlas-SNP
ANK2	287	hgsc.bcm.edu	hg19	4	114274408	114274408	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	ANK2	NM_001148	exon38	c.C4634G	p.P1545R	AAGAGCCAGGAGA	.	107.0	84.0	138.0	0.0	.	576	.	.	Atlas-SNP
LARP1B	55132	hgsc.bcm.edu	hg19	4	129019441	129019441	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	LARP1B	NM_032239	exon8	c.C769T	p.Q257X	GGTTTTCAGCGTG	.	72.0	14.0	40.0	0.0	.	120	.	.	Atlas-SNP
ZNF827	152485	hgsc.bcm.edu	hg19	4	146823924	146823924	+	Missense_Mutation	SNP	C	C	A	rs139372039	alternate_allele	TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	ZNF827	NM_178835	exon2	c.G487T	p.A163S	GCTGGGCGTGGTG	.	57.0	28.0	45.0	0.0	.	102	.	C|1.000;T|0.000	Atlas-SNP
TENM3	55714	hgsc.bcm.edu	hg19	4	183721246	183721246	+	Silent	SNP	C	C	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	.	NM_001080477	exon27	c.C7842T	p.D2614D	CCTGGACGAGGAG	.	95.0	35.0	51.0	0.0	.	.	.	.	Atlas-SNP
GCNT4	51301	hgsc.bcm.edu	hg19	5	74325466	74325466	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	GCNT4	NM_016591	exon1	c.A397C	p.I133L	AGGCTATTGGGAA	.	90.0	6.0	55.0	0.0	.	46	.	.	Atlas-SNP
CHD1	1105	hgsc.bcm.edu	hg19	5	98192416	98192416	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	CHD1	NM_001270	exon35	c.A4801T	p.R1601X	TCTCTCTGTCACT	.	110.0	43.0	78.0	0.0	.	137	.	.	Atlas-SNP
TENM2	57451	hgsc.bcm.edu	hg19	5	167525124	167525124	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	.	NM_001122679	exon9	c.G1805C	p.C602S	CAGACTGTGCTAA	.	140.0	33.0	77.0	0.0	.	.	.	.	Atlas-SNP
TNXB	7148	hgsc.bcm.edu	hg19	6	32047000	32047000	+	Silent	SNP	G	G	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	TNXB	NM_019105	exon11	c.C4185T	p.P1395P	GCCCTGGGGGACG	.	77.0	11.0	62.0	0.0	.	553	.	.	Atlas-SNP
PACSIN1	29993	hgsc.bcm.edu	hg19	6	34494117	34494117	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	PACSIN1	NM_020804	exon2	c.C35A	p.P12Q	TGGCGCCAGAGGA	.	73.0	40.0	37.0	0.0	.	42	.	.	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	hg19	6	38743590	38743590	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	DNAH8	NM_001206927	exon13	c.G1825A	p.G609R	ATAGAAGGAATAG	.	493.0	181.0	374.0	0.0	.	1239	.	.	Atlas-SNP
FILIP1	27145	hgsc.bcm.edu	hg19	6	76072567	76072567	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	FILIP1	NM_015687	exon3	c.T343C	p.Y115H	ACCCGTAATGAGC	.	63.0	33.0	69.0	0.0	.	173	.	.	Atlas-SNP
BVES	11149	hgsc.bcm.edu	hg19	6	105564646	105564646	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	BVES	NM_001199563	exon6	c.T746G	p.F249C	TACCTAAAGATTT	.	108.0	40.0	97.0	0.0	.	33	.	.	Atlas-SNP
CITED2	10370	hgsc.bcm.edu	hg19	6	139694788	139694788	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	CITED2	NM_001168389	exon2	c.C309A	p.F103L	ACCCATGAACTGG	.	57.0	21.0	38.0	0.0	.	16	.	.	Atlas-SNP
GRM1	2911	hgsc.bcm.edu	hg19	6	146755516	146755516	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	GRM1	NM_000838	exon9	c.G3169T	p.G1057C	CCCGGTGGTCCCG	.	134.0	61.0	120.0	0.0	.	419	.	.	Atlas-SNP
MICALL2	79778	hgsc.bcm.edu	hg19	7	1484708	1484708	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	MICALL2	NM_182924	exon6	c.A998T	p.E333V	TTCCCCTCCGTGG	.	57.0	23.0	44.0	0.0	.	63	.	.	Atlas-SNP
SDK1	221935	hgsc.bcm.edu	hg19	7	4150329	4150329	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	SDK1	NM_152744	exon23	c.C3359T	p.T1120I	GGGTCACCCTCTA	.	63.0	19.0	51.0	0.0	.	361	.	.	Atlas-SNP
IGFBP3	3486	hgsc.bcm.edu	hg19	7	45954471	45954471	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	IGFBP3	NM_001013398	exon4	c.A842G	p.Y281C	GTGGTGTAGCCTG	.	83.0	30.0	62.0	0.0	.	40	.	.	Atlas-SNP
PCMTD1	115294	hgsc.bcm.edu	hg19	8	52733033	52733033	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	PCMTD1	NM_052937	exon6	c.A952C	p.K318Q	GATCTTTTTCCTC	.	107.0	9.0	64.0	0.0	.	73	.	.	Atlas-SNP
PREX2	80243	hgsc.bcm.edu	hg19	8	69104690	69104690	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	PREX2	NM_024870	exon37	c.T4534C	p.S1512P	CTGCTGTCAGTTT	.	65.0	11.0	38.0	0.0	.	614	.	.	Atlas-SNP
JPH1	56704	hgsc.bcm.edu	hg19	8	75227529	75227529	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	JPH1	NM_020647	exon2	c.C706T	p.R236C	AGCTGCGCTTGCT	.	147.0	17.0	107.0	0.0	.	77	.	.	Atlas-SNP
CDKN2A	1029	hgsc.bcm.edu	hg19	9	21971209	21971209	+	Splice_Site	SNP	T	T	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	CDKN2A_ENST00000498124,bladder,carcinoma,0,17	CDKN2A	NM_001195132	exon3	c.151-2A>T	.	ATGACCTGCCAGA	.	43.0	16.0	37.0	0.0	.	4810	.	.	Atlas-SNP
AGTPBP1	23287	hgsc.bcm.edu	hg19	9	88162138	88162138	+	Silent	SNP	T	T	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	AGTPBP1	NM_015239	exon26	c.A3447G	p.A1149A	ACTTTCTGCACTG	.	98.0	42.0	86.0	0.0	.	128	.	.	Atlas-SNP
ABCA2	20	hgsc.bcm.edu	hg19	9	139910208	139910208	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	ABCA2	NM_212533	exon23	c.A3523G	p.I1175V	GGATGATGGCGCG	.	95.0	38.0	61.0	0.0	.	113	.	.	Atlas-SNP
ASCC1	51008	hgsc.bcm.edu	hg19	10	73857193	73857193	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	ASCC1	NM_001198798	exon10	c.T973A	p.Y325N	CAAAGTAGAAGTT	.	171.0	14.0	107.0	0.0	.	18	.	.	Atlas-SNP
ATRNL1	26033	hgsc.bcm.edu	hg19	10	117154258	117154258	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	ATRNL1,NS,lymphoid_neoplasm,0,1	ATRNL1	NM_207303	exon20	c.C3265T	p.Q1089X	CAATGCCAATTGT	.	87.0	31.0	93.0	0.0	.	219	.	.	Atlas-SNP
USH1C	10083	hgsc.bcm.edu	hg19	11	17542918	17542918	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	USH1C_ENST00000318024,colon,carcinoma,0,2	USH1C	NM_005709	exon13	c.G1060A	p.E354K	ATCTCTCATTTTC	.	99.0	23.0	85.0	0.0	.	157	.	.	Atlas-SNP
PRMT3	10196	hgsc.bcm.edu	hg19	11	20473685	20473685	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	PRMT3	NM_005788	exon11	c.C1003T	p.L335F	TATTTTCTTCTGT	.	91.0	36.0	73.0	0.0	.	50	.	.	Atlas-SNP
OR4S2	219431	hgsc.bcm.edu	hg19	11	55418847	55418847	+	Silent	SNP	C	C	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	OR4S2	NM_001004059	exon1	c.C468A	p.I156I	CATTATCCAAGTG	.	176.0	79.0	152.0	0.0	.	89	.	.	Atlas-SNP
AHNAK	79026	hgsc.bcm.edu	hg19	11	62292058	62292058	+	Silent	SNP	T	T	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	AHNAK	NM_001620	exon5	c.A9831G	p.K3277K	TGGACCTTTTAAT	.	92.0	43.0	67.0	0.0	.	532	.	.	Atlas-SNP
UBTFL1	642623	hgsc.bcm.edu	hg19	11	89819558	89819558	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	.	NM_001143975	exon1	c.G441T	p.Q147H	GAAACAGAAATAT	.	236.0	39.0	172.0	0.0	.	.	.	.	Atlas-SNP
DYNC2H1	79659	hgsc.bcm.edu	hg19	11	103039593	103039593	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	DYNC2H1	NM_001377	exon32	c.G4872T	p.W1624C	AGACTGGGCTTGG	.	114.0	12.0	95.0	0.0	.	246	.	.	Atlas-SNP
OR8B4	283162	hgsc.bcm.edu	hg19	11	124294728	124294728	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	OR8B4	NM_001005196	exon1	c.C40G	p.L14V	CCACAAGGATAAA	.	68.0	31.0	64.0	0.0	.	60	.	.	Atlas-SNP
GYS2	2998	hgsc.bcm.edu	hg19	12	21713390	21713390	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	GYS2	NM_021957	exon8	c.A1099G	p.I367V	GCATAATGAAAAA	.	87.0	30.0	71.0	0.0	.	110	.	.	Atlas-SNP
KRT6A	3853	hgsc.bcm.edu	hg19	12	52886815	52886815	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	KRT6A	NM_005554	exon1	c.G158A	p.G53E	CCAGCTCCTCCAC	.	194.0	77.0	166.0	0.0	.	89	.	.	Atlas-SNP
TDG	6996	hgsc.bcm.edu	hg19	12	104379458	104379458	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	TDG	NM_003211	exon9	c.G1042T	p.E348X	TACGGAGAAAATC	.	131.0	16.0	94.0	0.0	.	43	.	.	Atlas-SNP
OAS3	4940	hgsc.bcm.edu	hg19	12	113405240	113405240	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	OAS3	NM_006187	exon13	c.T2707C	p.S903P	TCTGGCTCCAGGC	.	129.0	57.0	83.0	0.0	.	63	.	.	Atlas-SNP
SETD8	387893	hgsc.bcm.edu	hg19	12	123874057	123874057	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	SETD8	NM_020382	exon2	c.G88C	p.E30Q	GGCCCGGAGATGG	.	13.0	7.0	0.0	0.0	.	35	.	.	Atlas-SNP
TMEM132B	114795	hgsc.bcm.edu	hg19	12	126135432	126135432	+	Missense_Mutation	SNP	C	C	T	rs149523266	bycluster;by1000genomes;alternate_allele	TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	TMEM132B	NM_052907	exon7	c.C1832T	p.P611L	AGGAGCCGAAAAT	.	132.0	61.0	97.0	0.0	.	207	.	C|0.999;A|0.001	Atlas-SNP
DDHD1	80821	hgsc.bcm.edu	hg19	14	53619420	53619420	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	DDHD1	NM_001160147	exon1	c.G397A	p.G133S	CGCCGCCGCCCCC	.	75.0	4.0	89.0	0.0	.	202	.	.	Atlas-SNP
VSX2	338917	hgsc.bcm.edu	hg19	14	74727333	74727333	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	VSX2	NM_182894	exon5	c.C797T	p.S266L	CCGAGTCGGGGAG	.	384.0	33.0	337.0	0.0	.	32	.	.	Atlas-SNP
AHNAK2	113146	hgsc.bcm.edu	hg19	14	105413863	105413863	+	Missense_Mutation	SNP	G	G	A	rs371234619	alternate_allele	TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	AHNAK2	NM_138420	exon7	c.C7925T	p.T2642I	TTGGCTGTCACAC	.	144.0	16.0	110.0	0.0	.	719	.	.	Atlas-SNP
HAUS2	55142	hgsc.bcm.edu	hg19	15	42858922	42858922	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	HAUS2	NM_018097	exon6	c.G616T	p.A206S	ATATTAGCTGAAG	.	142.0	43.0	118.0	0.0	.	12	.	.	Atlas-SNP
C16orf71	146562	hgsc.bcm.edu	hg19	16	4787921	4787921	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	C16orf71	NM_139170	exon3	c.G250C	p.A84P	TGGGTCGCTGCAG	.	89.0	35.0	105.0	0.0	.	46	.	.	Atlas-SNP
PDZD9	255762	hgsc.bcm.edu	hg19	16	21995781	21995781	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	PDZD9	NM_173806	exon3	c.A422G	p.D141G	TTAATGTCTTTTC	.	131.0	23.0	125.0	0.0	.	18	.	.	Atlas-SNP
CES1	1066	hgsc.bcm.edu	hg19	16	55866943	55866943	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	CES1	NM_001025195	exon1	c.G25A	p.A9T	GAGTGGCCAGGAT	.	344.0	139.0	295.0	0.0	.	78	.	.	Atlas-SNP
LCAT	3931	hgsc.bcm.edu	hg19	16	67976468	67976468	+	Silent	SNP	G	G	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	LCAT	NM_000229	exon5	c.C546G	p.R182R	GAGCTTGCGGTAG	.	145.0	45.0	144.0	0.0	.	31	.	.	Atlas-SNP
PRPF8	10594	hgsc.bcm.edu	hg19	17	1554097	1554097	+	Silent	SNP	C	C	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	PRPF8,NS,carcinoma,0,1	PRPF8	NM_006445	exon43	c.G7007A	p.X2336X	AACGGTCAGGCAT	.	49.0	6.0	67.0	0.0	.	169	.	.	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7574033	7574033	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	TP53,NS,carcinoma,0,1	TP53	NM_000546	exon10	c.A994T	p.I332F	CACGGATCTGCAG	.	78.0	20.0	92.0	0.0	.	33396	.	.	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7577538	7577538	+	Missense_Mutation	SNP	C	C	T	rs11540652	bycluster	TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	TP53_ENST00000545858,NS,adenocarcinoma,0,4	TP53	NM_000546	exon7	c.G743A	p.R248Q	GGCCTCCGGTTCA	.	49.0	11.0	68.0	0.0	.	33396	.	.	Atlas-SNP
KRT38	8687	hgsc.bcm.edu	hg19	17	39594488	39594488	+	Silent	SNP	G	G	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	KRT38	NM_006771	exon6	c.C1098T	p.I366I	GTTGCTGATGAGG	.	82.0	29.0	49.0	0.0	.	63	.	.	Atlas-SNP
SMG8	55181	hgsc.bcm.edu	hg19	17	57289158	57289158	+	Silent	SNP	A	A	G	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	SMG8	NM_018149	exon1	c.A1746G	p.S582S	TCACTCATTACCT	.	36.0	17.0	29.0	0.0	.	79	.	.	Atlas-SNP
CD300E	342510	hgsc.bcm.edu	hg19	17	72613261	72613261	+	Silent	SNP	G	G	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	CD300E	NM_181449	exon2	c.C384T	p.S128S	ACCTGGGGAAACA	.	90.0	39.0	69.0	0.0	.	70	.	.	Atlas-SNP
ITGB4	3691	hgsc.bcm.edu	hg19	17	73738810	73738810	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	ITGB4	NM_001005731	exon25	c.G2930T	p.R977L	GCCGCCGCCTGGT	.	47.0	16.0	28.0	0.0	.	165	.	.	Atlas-SNP
ACAA2	10449	hgsc.bcm.edu	hg19	18	47329197	47329197	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	ACAA2	NM_006111	exon2	c.A43G	p.T15A	AGGGCGTTCGCTT	.	179.0	54.0	95.0	0.0	.	29	.	.	Atlas-SNP
VPS4B	9525	hgsc.bcm.edu	hg19	18	61067937	61067937	+	Splice_Site	SNP	C	C	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	VPS4B	NM_004869	exon7	c.485-1G>T	.	TCTTGCCTAAAAT	.	106.0	32.0	85.0	0.0	.	33	.	.	Atlas-SNP
SHD	56961	hgsc.bcm.edu	hg19	19	4288320	4288320	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	SHD	NM_020209	exon5	c.T797G	p.L266R	TGCGGCTCAGTGA	.	109.0	31.0	76.0	0.0	.	33	.	.	Atlas-SNP
KANK2	25959	hgsc.bcm.edu	hg19	19	11304443	11304443	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	KANK2	NM_015493	exon2	c.C313G	p.R105G	AGCCACGGCCGCA	.	242.0	34.0	129.0	0.0	.	47	.	.	Atlas-SNP
KANK2	25959	hgsc.bcm.edu	hg19	19	11304444	11304444	+	Silent	SNP	G	G	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	KANK2	NM_015493	exon2	c.C312T	p.G104G	GCCACGGCCGCAG	.	241.0	31.0	128.0	0.0	.	47	.	.	Atlas-SNP
CILP2	148113	hgsc.bcm.edu	hg19	19	19654688	19654688	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	CILP2	NM_153221	exon8	c.G1334T	p.R445I	TGGAGAGAAGGGA	.	123.0	11.0	121.0	0.0	.	84	.	.	Atlas-SNP
ZNF43	7594	hgsc.bcm.edu	hg19	19	21992333	21992333	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	ZNF43	NM_001256653	exon4	c.C533A	p.T178N	TTTTCAGTATGGC	.	123.0	50.0	101.0	0.0	.	152	.	.	Atlas-SNP
ZNF728	388523	hgsc.bcm.edu	hg19	19	23158365	23158365	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	.	NM_001267716	exon4	c.T1774C	p.Y592H	ATTTGTAGAATTT	.	23.0	9.0	11.0	0.0	.	.	.	.	Atlas-SNP
FLT3LG	2323	hgsc.bcm.edu	hg19	19	49983824	49983824	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	FLT3LG	NM_001204503	exon7	c.A676T	p.S226C	GTCCCCAGTCCCC	.	80.0	34.0	84.0	0.0	.	22	.	.	Atlas-SNP
ZNF444	55311	hgsc.bcm.edu	hg19	19	56669904	56669904	+	Silent	SNP	G	G	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	ZNF444	NM_001253792	exon4	c.G339A	p.V113V	GAGGGTGCCTCAG	.	195.0	8.0	139.0	0.0	.	15	.	.	Atlas-SNP
SEC23B	10483	hgsc.bcm.edu	hg19	20	18491519	18491519	+	Missense_Mutation	SNP	C	C	T	rs121918222	bycluster	TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	SEC23B	NM_032985	exon2	c.C40T	p.R14W	GAAGAACGGGATG	.	302.0	14.0	167.0	0.0	.	70	.	C|1.000;T|0.000	Atlas-SNP
SOGA1	140710	hgsc.bcm.edu	hg19	20	35414900	35414900	+	Silent	SNP	G	G	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	SOGA1	NM_080627	exon15	c.C4974A	p.P1658P	GCTGGGGGGGAGT	.	37.0	13.0	28.0	0.0	.	136	.	.	Atlas-SNP
PSMG1	8624	hgsc.bcm.edu	hg19	21	40549463	40549463	+	Silent	SNP	T	T	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	PSMG1	NM_003720	exon6	c.A690G	p.A230A	CAGAATTGCTGGG	.	89.0	39.0	78.0	0.0	.	11	.	.	Atlas-SNP
MYO18B	84700	hgsc.bcm.edu	hg19	22	26298630	26298630	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	MYO18B	NM_032608	exon30	c.G4874A	p.G1625D	AGAAGGGTCTCCG	.	100.0	11.0	78.0	0.0	.	322	.	.	Atlas-SNP
DMD	1756	hgsc.bcm.edu	hg19	X	32429887	32429887	+	Silent	SNP	T	T	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	DMD	NM_004006	exon30	c.A4215G	p.Q1405Q	AGGCATTTGAGCT	.	70.0	21.0	37.0	0.0	.	2127	.	.	Atlas-SNP
MAP7D3	79649	hgsc.bcm.edu	hg19	X	135318419	135318419	+	Silent	SNP	G	G	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	MAP7D3	NM_024597	exon7	c.C720T	p.A240A	CCTTTCGGCTTGT	.	60.0	6.0	61.0	0.0	.	102	.	.	Atlas-SNP
ATP2B3	492	hgsc.bcm.edu	hg19	X	152815622	152815622	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	ATP2B3	NM_001001344	exon10	c.A1701C	p.E567D	CCCGGAAGACAAG	.	95.0	83.0	69.0	0.0	.	552	.	.	Atlas-SNP
GRB14	2888	hgsc.bcm.edu	hg19	2	165350963	165350964	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	GRB14	NM_004490	exon13	c.1454_1455insA	p.I485fs	.	.	295.0	51.0	209.0	0.0	.	73	.	.	Atlas-INDEL
SRSF11	9295	hgsc.bcm.edu	hg19	1	70716344	70716345	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	SRSF11	NM_004768	exon13	c.1311_1312insA	p.E437fs	.	.	234.0	89.0	181.0	0.0	.	68	.	.	Atlas-INDEL
LCAT	3931	hgsc.bcm.edu	hg19	16	67976467	67976468	+	Frame_Shift_Ins	INS	-	-	CC	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	LCAT	NM_000229	exon5	c.547_548insGG	p.K183fs	.	.	152.0	45.0	146.0	0.0	.	31	.	.	Atlas-INDEL
CRH	1392	hgsc.bcm.edu	hg19	8	67089349	67089363	+	In_Frame_Del	DEL	GCAGCAGCAGCTGCT	GCAGCAGCAGCTGCT	-	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	GCAGCAGCAGCTGCT	GCAGCAGCAGCTGCT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	CRH	NM_000756	exon2	c.351_365del	p.117_122del	.	.	54.0	20.0	51.0	0.0	.	8	.	.	Atlas-INDEL
AGA	175	hgsc.bcm.edu	hg19	4	178355598	178355598	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-XR-A8TG-01A-11D-A35Z-10	TCGA-XR-A8TG-10A-01D-A35Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	81b78069-7129-494c-9209-e00ecf75cced	110d65ad-5d6c-4db6-beb6-720ee7d7b871	.	AGA	NM_000027	exon7	c.745delG	p.D249fs	.	.	386.0	119.0	197.0	0.0	.	39	.	.	Atlas-INDEL
