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
TNFRSF25	8718	hgsc.bcm.edu	hg19	1	6522204	6522204	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	TNFRSF25	NM_148965	exon9	c.C802T	p.H268Y	GGGTGTGGGCGCT	.	102.0	35.0	146.0	0.0	.	22	.	.	Atlas-SNP
SF3A3	10946	hgsc.bcm.edu	hg19	1	38453345	38453345	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	SF3A3	NM_006802	exon4	c.G203A	p.R68Q	TCCTTTCGTAATC	.	131.0	54.0	220.0	0.0	.	37	.	.	Atlas-SNP
SMAP2	64744	hgsc.bcm.edu	hg19	1	40839819	40839819	+	Silent	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	SMAP2	NM_022733	exon1	c.G27A	p.V9V	GGACGTGGATCGG	.	124.0	47.0	198.0	0.0	.	48	.	.	Atlas-SNP
MKNK1	8569	hgsc.bcm.edu	hg19	1	47028365	47028365	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	MKNK1	NM_003684	exon11	c.G919A	p.A307T	AGTCGGCCCCGCA	.	59.0	11.0	77.0	0.0	.	36	.	.	Atlas-SNP
ZBTB7B	51043	hgsc.bcm.edu	hg19	1	154988092	154988092	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	ZBTB7B	NM_001252406	exon4	c.G1058A	p.S353N	ACCTAAGCTCCCT	.	93.0	16.0	91.0	0.0	.	69	.	.	Atlas-SNP
ARHGAP30	257106	hgsc.bcm.edu	hg19	1	161017651	161017651	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	ARHGAP30	NM_001025598	exon12	c.T3160A	p.S1054T	CTTCAGATGGGAG	.	79.0	35.0	114.0	0.0	.	105	.	.	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	hg19	1	228487124	228487124	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	OBSCN	NM_001271223	exon50	c.G13375A	p.V4459M	GGGGCTGTGTGTG	.	90.0	32.0	217.0	0.0	.	2142	.	.	Atlas-SNP
OR2B11	127623	hgsc.bcm.edu	hg19	1	247615107	247615107	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	OR2B11	NM_001004492	exon1	c.C178A	p.H60N	GGCTGTGGAGTTG	.	88.0	34.0	124.0	0.0	.	102	.	.	Atlas-SNP
OR2B11	127623	hgsc.bcm.edu	hg19	1	247615108	247615108	+	Silent	SNP	G	G	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	OR2B11	NM_001004492	exon1	c.C177A	p.L59L	GCTGTGGAGTTGA	.	87.0	32.0	124.0	0.0	.	102	.	.	Atlas-SNP
MYT1L	23040	hgsc.bcm.edu	hg19	2	1946920	1946920	+	Silent	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	MYT1L	NM_015025	exon9	c.C339T	p.D113D	ATCATTGTCCTCG	.	509.0	26.0	555.0	0.0	.	241	.	.	Atlas-SNP
PPP1R21	129285	hgsc.bcm.edu	hg19	2	48718183	48718183	+	Silent	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	PPP1R21	NM_152994	exon15	c.G1473A	p.L491L	CAATTTGGACTAC	.	134.0	9.0	218.0	0.0	.	47	.	.	Atlas-SNP
PCBP1	5093	hgsc.bcm.edu	hg19	2	70315174	70315174	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	PCBP1,rectum,carcinoma,0,6	PCBP1	NM_006196	exon1	c.T299A	p.L100Q	TCACCCTGAGGCT	.	30.0	10.0	57.0	0.0	.	28	.	.	Atlas-SNP
CLEC4F	165530	hgsc.bcm.edu	hg19	2	71043634	71043634	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	CLEC4F	NM_173535	exon4	c.G879C	p.Q293H	TGTGTTCTGCAAA	.	297.0	19.0	428.0	0.0	.	95	.	.	Atlas-SNP
TEX261	113419	hgsc.bcm.edu	hg19	2	71215838	71215838	+	Silent	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	TEX261	NM_144582	exon6	c.C483T	p.V161V	GGAGACGACATCA	.	68.0	27.0	101.0	0.0	.	11	.	.	Atlas-SNP
NPAS2	4862	hgsc.bcm.edu	hg19	2	101580593	101580593	+	Silent	SNP	T	T	C	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	NPAS2	NM_002518	exon8	c.T672C	p.V224V	GGAGGTTTGCTTC	.	88.0	31.0	138.0	0.0	.	88	.	.	Atlas-SNP
CACNB4	785	hgsc.bcm.edu	hg19	2	152732958	152732958	+	Missense_Mutation	SNP	C	C	G	rs376364352		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	CACNB4	NM_001145798	exon5	c.G503C	p.R168T	CGTCCTCTTTTTT	.	63.0	28.0	279.0	0.0	.	108	.	.	Atlas-SNP
SLC25A12	8604	hgsc.bcm.edu	hg19	2	172691267	172691267	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	SLC25A12	NM_003705	exon7	c.G721T	p.G241C	TTGTGCCAGCTAG	.	47.0	8.0	112.0	0.0	.	59	.	.	Atlas-SNP
ALS2	57679	hgsc.bcm.edu	hg19	2	202633600	202633600	+	Silent	SNP	T	T	G	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	ALS2	NM_001135745	exon2	c.A9C	p.S3S	CTTCTTTGAGTCC	.	72.0	22.0	140.0	0.0	.	172	.	.	Atlas-SNP
FARP2	9855	hgsc.bcm.edu	hg19	2	242343251	242343251	+	Silent	SNP	C	C	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	FARP2,caecum,carcinoma,0,2	FARP2	NM_014808	exon3	c.C192T	p.C64C	TAAATGCGATGGC	.	100.0	20.0	192.0	0.0	.	92	.	.	Atlas-SNP
TRIM71	131405	hgsc.bcm.edu	hg19	3	32915309	32915309	+	Splice_Site	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	TRIM71	NM_001039111	exon2	c.853-1G>A	.	TCCCCAGGTGCTG	.	199.0	32.0	299.0	0.0	.	73	.	.	Atlas-SNP
TRMT10C	54931	hgsc.bcm.edu	hg19	3	101283884	101283884	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	.	NM_017819	exon2	c.G259A	p.D87N	AGTAAGGATGAAG	.	118.0	44.0	193.0	0.0	.	.	.	.	Atlas-SNP
GTF2E1	2960	hgsc.bcm.edu	hg19	3	120469757	120469757	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	GTF2E1	NM_005513	exon2	c.G358A	p.D120N	GAGAGAGATTCGA	.	116.0	61.0	155.0	0.0	.	52	.	.	Atlas-SNP
PLXND1	23129	hgsc.bcm.edu	hg19	3	129275500	129275500	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	PLXND1	NM_015103	exon35	c.T5621C	p.M1874T	TCTGCCATGGCCA	.	148.0	55.0	179.0	0.0	.	149	.	.	Atlas-SNP
NAAA	27163	hgsc.bcm.edu	hg19	4	76861223	76861223	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	NAAA	NM_014435	exon2	c.G302T	p.G101V	CACATGCCGCGGA	.	57.0	22.0	121.0	0.0	.	26	.	.	Atlas-SNP
STBD1	8987	hgsc.bcm.edu	hg19	4	77230589	77230589	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	STBD1	NM_003943	exon2	c.G513T	p.E171D	TGCAGAGAAGTTG	.	109.0	42.0	146.0	0.0	.	22	.	.	Atlas-SNP
ANXA3	306	hgsc.bcm.edu	hg19	4	79503384	79503384	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	ANXA3	NM_005139	exon5	c.G252A	p.M84I	TCTCATGGTGGCC	.	157.0	62.0	304.0	0.0	.	35	.	.	Atlas-SNP
GHR	2690	hgsc.bcm.edu	hg19	5	42713546	42713546	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	GHR	NM_001242399	exon8	c.G821A	p.W274X	TTCCATGGCTCTT	.	158.0	49.0	425.0	0.0	.	94	.	.	Atlas-SNP
ARHGEF28	64283	hgsc.bcm.edu	hg19	5	73168941	73168941	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	.	NM_001080479	exon22	c.C2684T	p.P895L	TTTTCCCCTGTTT	.	158.0	50.0	172.0	0.0	.	.	.	.	Atlas-SNP
PSD2	84249	hgsc.bcm.edu	hg19	5	139193051	139193051	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	PSD2	NM_032289	exon3	c.G529T	p.E177X	AGCTTCGAGGCCC	.	97.0	51.0	144.0	0.0	.	88	.	.	Atlas-SNP
PCDHA11	56138	hgsc.bcm.edu	hg19	5	140249239	140249239	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	PCDHA11_ENST00000398640,NS,carcinoma,0,2	PCDHA11	NM_018902	exon1	c.C551T	p.T184I	CACCAACAAATGG	.	58.0	9.0	58.0	0.0	.	209	.	.	Atlas-SNP
TENM2	57451	hgsc.bcm.edu	hg19	5	166711893	166711893	+	Silent	SNP	C	C	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	.	NM_001122679	exon1	c.C51T	p.G17G	CTGTGGCAAAGAG	.	72.0	22.0	85.0	0.0	.	.	.	.	Atlas-SNP
SYCP2L	221711	hgsc.bcm.edu	hg19	6	10894136	10894136	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	SYCP2L	NM_001040274	exon3	c.G115T	p.G39X	GATAAAGGATTTC	.	173.0	70.0	285.0	0.0	.	101	.	.	Atlas-SNP
OR2H2	7932	hgsc.bcm.edu	hg19	6	29556102	29556102	+	Silent	SNP	C	C	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	OR2H2	NM_007160	exon1	c.C381A	p.P127P	CCAGCCCCTCCAC	.	122.0	40.0	180.0	0.0	.	29	.	.	Atlas-SNP
FRS3	10817	hgsc.bcm.edu	hg19	6	41738386	41738386	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	FRS3	NM_006653	exon7	c.C1450G	p.R484G	TGTGCCGGGTTTT	.	82.0	29.0	151.0	0.0	.	53	.	.	Atlas-SNP
PLA2G7	7941	hgsc.bcm.edu	hg19	6	46672428	46672428	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	PLA2G7	NM_005084	exon12	c.C1195G	p.H399D	CTTTATGAAGTCC	.	275.0	144.0	385.0	0.0	.	49	.	.	Atlas-SNP
PGK2	5232	hgsc.bcm.edu	hg19	6	49753721	49753721	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	PGK2	NM_138733	exon1	c.A1180T	p.T394S	CTCCAGTGCTGAC	.	109.0	54.0	153.0	0.0	.	87	.	.	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	hg19	7	48311639	48311639	+	Silent	SNP	A	A	G	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	ABCA13	NM_152701	exon17	c.A2376G	p.K792K	TCAGAAACTCTTG	.	81.0	11.0	159.0	0.0	.	1192	.	.	Atlas-SNP
TAS2R39	259285	hgsc.bcm.edu	hg19	7	142881187	142881187	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	TAS2R39	NM_176881	exon1	c.C676A	p.L226M	TTCATCCTGACAG	.	181.0	12.0	260.0	0.0	.	42	.	.	Atlas-SNP
SLC10A5	347051	hgsc.bcm.edu	hg19	8	82606130	82606130	+	Silent	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	SLC10A5,NS,carcinoma,0,1	SLC10A5	NM_001010893	exon1	c.C1078T	p.L360L	GAGGCAGCGTACA	.	47.0	13.0	130.0	0.0	.	35	.	.	Atlas-SNP
YWHAZ	7534	hgsc.bcm.edu	hg19	8	101960838	101960838	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	YWHAZ	NM_145690	exon2	c.T280A	p.C94S	CATTGCAGATATC	.	158.0	12.0	286.0	0.0	.	23	.	.	Atlas-SNP
LINGO2	158038	hgsc.bcm.edu	hg19	9	27949442	27949442	+	Missense_Mutation	SNP	G	G	T	rs199551773	bycluster;alternate_allele	TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	LINGO2_ENST00000379992,NS,carcinoma,0,2	LINGO2	NM_001258282	exon7	c.C1228A	p.P410T	TTTTGGGTTTTTT	.	108.0	16.0	192.0	0.0	.	244	.	G|0.999;A|0.001	Atlas-SNP
ANKRD26	22852	hgsc.bcm.edu	hg19	10	27352965	27352965	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	ANKRD26	NM_014915	exon12	c.G1315T	p.G439W	CAGCCCCAGCTAA	.	122.0	45.0	211.0	0.0	.	179	.	.	Atlas-SNP
WDFY4	57705	hgsc.bcm.edu	hg19	10	49939462	49939462	+	Silent	SNP	G	G	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	WDFY4	NM_020945	exon9	c.G1437T	p.G479G	CCCTGGGCCATCC	.	41.0	12.0	56.0	0.0	.	205	.	.	Atlas-SNP
STOX1	219736	hgsc.bcm.edu	hg19	10	70652470	70652470	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	STOX1	NM_152709	exon4	c.T2948C	p.L983P	TACCGCTAACTCC	.	180.0	77.0	303.0	0.0	.	75	.	.	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	hg19	10	134751175	134751175	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	TTC40	NM_001200049	exon6	c.C541A	p.L181I	CCAGAAGTTCCCT	.	44.0	30.0	98.0	0.0	.	100	.	.	Atlas-SNP
OR51E2	81285	hgsc.bcm.edu	hg19	11	4703712	4703712	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	OR51E2	NM_030774	exon2	c.T230A	p.M77K	TTAGGCATGGTGG	.	34.0	15.0	94.0	0.0	.	77	.	.	Atlas-SNP
DPP3	10072	hgsc.bcm.edu	hg19	11	66249912	66249912	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	DPP3	NM_001256670	exon2	c.G241T	p.A81S	GCCCTGGCTGAAG	.	44.0	9.0	36.0	0.0	.	61	.	.	Atlas-SNP
MYO7A	4647	hgsc.bcm.edu	hg19	11	76858899	76858899	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	MYO7A	NM_001127179	exon4	c.C188G	p.S63W	CCACGTCGGTCCA	.	54.0	24.0	69.0	0.0	.	164	.	.	Atlas-SNP
ATM	472	hgsc.bcm.edu	hg19	11	108172499	108172499	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	ATM	NM_000051	exon35	c.A5302G	p.R1768G	CCTTTTAGAACAT	.	113.0	15.0	180.0	0.0	.	1657	.	.	Atlas-SNP
SLC2A3	6515	hgsc.bcm.edu	hg19	12	8086448	8086448	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	SLC2A3	NM_006931	exon2	c.C66A	p.F22L	AAATTGGAAAGAG	.	143.0	47.0	211.0	0.0	.	83	.	.	Atlas-SNP
CDKN1B	1027	hgsc.bcm.edu	hg19	12	12871889	12871889	+	Splice_Site	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	CDKN1B	NM_004064	exon2	c.605+1G>A	.	AGCTCGGTGGGTT	.	32.0	16.0	40.0	0.0	.	48	.	.	Atlas-SNP
CNPY2	10330	hgsc.bcm.edu	hg19	12	56708752	56708752	+	Splice_Site	SNP	T	T	C	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	CNPY2	NM_014255	exon4	c.89-2A>G	.	GCATGCTGGTGGA	.	82.0	32.0	129.0	0.0	.	16	.	.	Atlas-SNP
PTPRB	5787	hgsc.bcm.edu	hg19	12	70960239	70960239	+	Missense_Mutation	SNP	C	C	G	rs374292920	alternate_allele	TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	PTPRB	NM_001109754	exon15	c.G3880C	p.E1294Q	GGGCTTCCTTGCT	.	349.0	142.0	543.0	0.0	.	676	.	.	Atlas-SNP
GCN1L1	10985	hgsc.bcm.edu	hg19	12	120602144	120602144	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	GCN1L1	NM_006836	exon18	c.A1844G	p.H615R	ACCTTGTGAGAAC	.	85.0	32.0	96.0	0.0	.	207	.	.	Atlas-SNP
RNF10	9921	hgsc.bcm.edu	hg19	12	121013648	121013648	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	RNF10	NM_014868	exon16	c.A2254T	p.N752Y	AGTGATAATTCAG	.	115.0	13.0	187.0	0.0	.	75	.	.	Atlas-SNP
MLXIP	22877	hgsc.bcm.edu	hg19	12	122623457	122623457	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	MLXIP	NM_014938	exon15	c.G2480A	p.R827Q	AAACCCGGACCTT	.	210.0	12.0	389.0	0.0	.	46	.	.	Atlas-SNP
CCDC168	643677	hgsc.bcm.edu	hg19	13	103381888	103381888	+	Silent	SNP	C	C	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	.	NM_001146197	exon4	c.G21159A	p.K7053K	TGAAATCTTTGCC	.	119.0	9.0	190.0	0.0	.	.	.	.	Atlas-SNP
DHRS4L1	728635	hgsc.bcm.edu	hg19	14	24517998	24517998	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	.	NM_001082488	exon8	c.T653C	p.I218T	GACTTATCAAGAC	.	502.0	180.0	818.0	2.0	.	.	.	.	Atlas-SNP
DYNC1H1	1778	hgsc.bcm.edu	hg19	14	102466376	102466376	+	Silent	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	DYNC1H1	NM_001376	exon17	c.G3855A	p.G1285G	TGAGGGGAAGTTT	.	65.0	25.0	116.0	0.0	.	395	.	.	Atlas-SNP
EIF2AK4	440275	hgsc.bcm.edu	hg19	15	40268641	40268641	+	Silent	SNP	C	C	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	EIF2AK4	NM_001013703	exon12	c.C1845T	p.C615C	CTGCTGCTACGCA	.	62.0	34.0	87.0	0.0	.	107	.	.	Atlas-SNP
HERC1	8925	hgsc.bcm.edu	hg19	15	63991120	63991120	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	HERC1	NM_003922	exon26	c.A4712G	p.N1571S	GAGGAGTTGCATA	.	93.0	17.0	158.0	0.0	.	624	.	.	Atlas-SNP
SCAPER	49855	hgsc.bcm.edu	hg19	15	77134131	77134131	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	SCAPER	NM_020843	exon4	c.G337A	p.A113T	CTACTGCTCGGCG	.	151.0	87.0	271.0	0.0	.	160	.	.	Atlas-SNP
ABCC6	368	hgsc.bcm.edu	hg19	16	16244451	16244451	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	ABCC6	NM_001171	exon30	c.G4387T	p.V1463L	CCATCACGGAGCG	.	57.0	24.0	89.0	0.0	.	110	.	.	Atlas-SNP
GTF3C1	2975	hgsc.bcm.edu	hg19	16	27517278	27517278	+	Missense_Mutation	SNP	G	G	T	rs140459536	alternate_allele	TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	GTF3C1	NM_001520	exon10	c.C1712A	p.A571E	CTGTCCGCACAGT	.	105.0	41.0	148.0	0.0	.	210	.	G|1.000;A|0.000	Atlas-SNP
AP1G1	164	hgsc.bcm.edu	hg19	16	71823203	71823203	+	Silent	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	AP1G1	NM_001030007	exon2	c.C180T	p.G60G	AGGGTAGCCCAGC	.	111.0	52.0	169.0	0.0	.	83	.	.	Atlas-SNP
AP1G1	164	hgsc.bcm.edu	hg19	16	71823204	71823204	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	AP1G1	NM_001030007	exon2	c.G179T	p.G60V	GGGTAGCCCAGCA	.	113.0	51.0	172.0	0.0	.	83	.	.	Atlas-SNP
TBC1D26	353149	hgsc.bcm.edu	hg19	17	15642100	15642100	+	Silent	SNP	C	C	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	TBC1D26	NM_178571	exon8	c.C453T	p.H151H	CAGCCACACCCTG	.	222.0	94.0	585.0	2.0	.	16	.	.	Atlas-SNP
MPO	4353	hgsc.bcm.edu	hg19	17	56355395	56355395	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	MPO	NM_000250	exon7	c.C997T	p.L333F	AAGTGAGCGCGTT	.	54.0	23.0	61.0	0.0	.	114	.	.	Atlas-SNP
RPS6KB1	6198	hgsc.bcm.edu	hg19	17	58013587	58013587	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	RPS6KB1	NM_001272043	exon11	c.A990T	p.R330S	GAAAAGAAATGCT	.	257.0	155.0	302.0	1.0	.	43	.	.	Atlas-SNP
MRC2	9902	hgsc.bcm.edu	hg19	17	60743465	60743465	+	Silent	SNP	C	C	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	MRC2	NM_006039	exon3	c.C531T	p.T177T	CTACACCATCCAG	.	50.0	33.0	76.0	0.0	.	126	.	.	Atlas-SNP
MAP2K6	5608	hgsc.bcm.edu	hg19	17	67521065	67521065	+	Silent	SNP	C	C	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	MAP2K6	NM_002758	exon9	c.C687T	p.L229L	AGAGCTCAACCAG	.	150.0	86.0	150.0	0.0	.	41	.	.	Atlas-SNP
GAA	2548	hgsc.bcm.edu	hg19	17	78091993	78091993	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	GAA	NM_001079803	exon19	c.G2483T	p.G828V	TCCAGGGCCCTGG	.	70.0	27.0	72.0	0.0	.	66	.	.	Atlas-SNP
FUT3	2525	hgsc.bcm.edu	hg19	19	5844841	5844841	+	Silent	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	FUT3	NM_001097640	exon3	c.C10T	p.L4L	CACCCAGGGGATC	.	102.0	13.0	173.0	0.0	.	30	.	.	Atlas-SNP
CPAMD8	27151	hgsc.bcm.edu	hg19	19	17038989	17038989	+	Missense_Mutation	SNP	G	G	A	rs200032712		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	CPAMD8	NM_015692	exon25	c.C3341T	p.P1114L	GGCCTCGGGAGGG	.	59.0	23.0	46.0	0.0	.	192	.	G|0.999;A|0.001	Atlas-SNP
SIGLEC12	89858	hgsc.bcm.edu	hg19	19	52001391	52001391	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	SIGLEC12	NM_053003	exon5	c.G1286T	p.G429V	AGCACCCCAAGGT	.	66.0	17.0	86.0	0.0	.	243	.	.	Atlas-SNP
ZNF432	9668	hgsc.bcm.edu	hg19	19	52538685	52538685	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	ZNF432	NM_014650	exon5	c.G247A	p.E83K	CAACTTCGTTGTT	.	163.0	61.0	246.0	0.0	.	172	.	.	Atlas-SNP
SIRPD	128646	hgsc.bcm.edu	hg19	20	1532400	1532400	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	SIRPD	NM_178460	exon2	c.T358C	p.F120L	TTATGAACTTCAC	.	79.0	24.0	137.0	0.0	.	34	.	.	Atlas-SNP
PLCB4	5332	hgsc.bcm.edu	hg19	20	9401994	9401994	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	PLCB4	NM_001172646	exon26	c.G2205T	p.E735D	CGTAGAGGTGGAT	.	116.0	48.0	168.0	0.0	.	204	.	.	Atlas-SNP
ATP9A	10079	hgsc.bcm.edu	hg19	20	50346419	50346419	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	ATP9A	NM_006045	exon2	c.A167T	p.N56I	ATGACATTCCGAG	.	74.0	23.0	140.0	0.0	.	135	.	.	Atlas-SNP
KCNJ6	3763	hgsc.bcm.edu	hg19	21	39086700	39086700	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	KCNJ6	NM_002240	exon3	c.C760T	p.P254S	TCAACGGGATGAA	.	179.0	33.0	321.0	0.0	.	58	.	.	Atlas-SNP
EWSR1	2130	hgsc.bcm.edu	hg19	22	29694814	29694814	+	Silent	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	EWSR1	NM_013986	exon15	c.G1524A	p.R508R	ACCCCGGGGTTCC	.	61.0	23.0	73.0	0.0	.	104	.	.	Atlas-SNP
TAF1	6872	hgsc.bcm.edu	hg19	X	70680629	70680629	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	TAF1	NM_004606	exon37	c.A5435G	p.H1812R	CTTCCCATGGTTT	.	90.0	67.0	146.0	0.0	.	439	.	.	Atlas-SNP
COX3	5742	hgsc.bcm.edu	hg19	MT	9925	9925	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	.	ENST00000362079	exon1	c.G719A	p.W240X	CCGCCTGATACTG	.	289.0	12.0	81.0	0.0	.	.	.	.	Atlas-SNP
TIMP4	7079	hgsc.bcm.edu	hg19	3	12195189	12195189	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	TIMP4	NM_003256	exon5	c.502delT	p.C168fs	.	.	102.0	23.0	201.0	0.0	.	21	.	.	Atlas-INDEL
MTF2	22823	hgsc.bcm.edu	hg19	1	93599749	93599749	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	MTF2	NM_007358	exon14	c.1420delT	p.Y474fs	.	.	121.0	50.0	183.0	0.0	.	51	.	.	Atlas-Indel,Pindel
CEP97	79598	hgsc.bcm.edu	hg19	3	101481359	101481360	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	CEP97	NM_024548	exon10	c.1848_1849insA	p.I616fs	.	.	282.0	52.0	511.0	0.0	.	122	.	.	Atlas-Indel,Pindel
GPR152	390212	hgsc.bcm.edu	hg19	11	67219120	67219121	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	GPR152	NM_206997	exon1	c.1076_1077insC	p.Q359fs	.	.	181.0	12.0	205.0	0.0	.	41	.	.	Atlas-INDEL
SEC14L3	266629	hgsc.bcm.edu	hg19	22	30857663	30857664	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	SEC14L3	NM_174975	exon10	c.790_791insG	p.I264fs	.	.	93.0	11.0	129.0	0.0	.	46	.	.	Atlas-INDEL
OR51A4	401666	hgsc.bcm.edu	hg19	11	4968139	4968139	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	OR51A4,NS,carcinoma,0,1	OR51A4	NM_001005329	exon1	c.193delC	p.L65fs	.	.	591.0	135.0	1224.0	0.0	.	73	.	.	Atlas-Indel,Pindel
RAB40B	10966	hgsc.bcm.edu	hg19	17	80615904	80615904	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-DD-A115-01A-11D-A12Z-10	TCGA-DD-A115-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	29d6950d-f63e-48ca-afb5-cdd95aa16f0e	97ef9891-4c64-4f64-b1be-59895971138d	.	RAB40B	NM_006822	exon6	c.673delT	p.F225fs	.	.	164.0	23.0	190.0	0.0	.	24	.	.	Atlas-Indel,Pindel