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
MST1L	11223	hgsc.bcm.edu	hg19	1	17085887	17085887	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	.	NM_001271733	exon8	c.C934T	p.R312W	TCTCCCGAAGGTC	.	136.0	18.0	62.0	0.0	.	.	.	.	Atlas-SNP
BAI2	576	hgsc.bcm.edu	hg19	1	32207068	32207068	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	BAI2	NM_001703	exon11	c.G1700T	p.R567L	CAGCGGCGGCTGG	.	132.0	72.0	61.0	0.0	.	128	.	.	Atlas-SNP
ARTN	9048	hgsc.bcm.edu	hg19	1	44402421	44402421	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	ARTN	NM_001136215	exon4	c.G671T	p.C224F	CCGCCTGCGGCTG	.	59.0	28.0	21.0	0.0	.	6	.	.	Atlas-SNP
AMPD1	270	hgsc.bcm.edu	hg19	1	115220086	115220086	+	Missense_Mutation	SNP	C	C	A	rs121912682	bycluster;by1000genomes;alternate_allele	TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	AMPD1	NM_000036	exon10	c.G1373T	p.R458L	GACAGGCGGGGCT	.	143.0	21.0	96.0	0.0	.	223	.	C|0.999;T|0.001	Atlas-SNP
IGSF3	3321	hgsc.bcm.edu	hg19	1	117122413	117122413	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	IGSF3_ENST00000369483,NS,carcinoma,0,2	IGSF3	NM_001542	exon11	c.C2995T	p.R999C	TGGAGCGGGACAC	.	121.0	56.0	71.0	0.0	.	294	.	.	Atlas-SNP
OTUD7B	56957	hgsc.bcm.edu	hg19	1	149916120	149916120	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	OTUD7B	NM_020205	exon12	c.G2168T	p.G723V	GGTAGGCCCCCGA	.	51.0	22.0	43.0	0.0	.	76	.	.	Atlas-SNP
OR10J5	127385	hgsc.bcm.edu	hg19	1	159505721	159505721	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	OR10J5	NM_001004469	exon1	c.C77A	p.T26N	AAGAGGGTTATCT	.	152.0	31.0	118.0	0.0	.	68	.	.	Atlas-SNP
RFWD2	64326	hgsc.bcm.edu	hg19	1	175956209	175956209	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	RFWD2	NM_022457	exon18	c.A2003G	p.Y668C	CCTTTATAGTACA	.	202.0	45.0	179.0	0.0	.	67	.	.	Atlas-SNP
TDRD5	163589	hgsc.bcm.edu	hg19	1	179623394	179623394	+	Nonsense_Mutation	SNP	T	T	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	TDRD5	NM_001199085	exon14	c.T2219G	p.L740X	AGCCATTAAAGGA	.	264.0	24.0	283.0	0.0	.	149	.	.	Atlas-SNP
HHIPL2	79802	hgsc.bcm.edu	hg19	1	222705320	222705320	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	HHIPL2	NM_024746	exon6	c.G1711C	p.E571Q	CATCTTCAGCAAA	.	62.0	25.0	91.0	0.0	.	122	.	.	Atlas-SNP
RBM34	23029	hgsc.bcm.edu	hg19	1	235318339	235318339	+	Missense_Mutation	SNP	C	C	A	rs200657743	bycluster;alternate_allele	TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	RBM34	NM_001161533	exon4	c.G454T	p.V152L	CTGCTACTTTAAC	.	694.0	308.0	662.0	1.0	.	41	.	.	Atlas-SNP
KIF26B	55083	hgsc.bcm.edu	hg19	1	245772747	245772747	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	KIF26B	NM_018012	exon8	c.C1831G	p.L611V	GACCTGCTGTCGG	.	132.0	23.0	55.0	0.0	.	343	.	.	Atlas-SNP
SRSF7	6432	hgsc.bcm.edu	hg19	2	38976737	38976737	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	SRSF7	NM_001195446	exon3	c.A320G	p.Y107C	CACTCATAGCATC	.	529.0	188.0	282.0	1.0	.	29	.	.	Atlas-SNP
CCDC88A	55704	hgsc.bcm.edu	hg19	2	55582881	55582881	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	CCDC88A_ENST00000336838,NS,carcinoma,0,2	CCDC88A	NM_018084	exon8	c.A634G	p.I212V	GTTCTATGATAGT	.	78.0	30.0	75.0	0.0	.	336	.	.	Atlas-SNP
SLC5A7	60482	hgsc.bcm.edu	hg19	2	108622601	108622601	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	SLC5A7	NM_021815	exon7	c.G838A	p.G280R	GCTTTCGGGTGCC	.	156.0	59.0	101.0	0.0	.	109	.	.	Atlas-SNP
KYNU	8942	hgsc.bcm.edu	hg19	2	143718192	143718192	+	Splice_Site	SNP	G	G	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	KYNU	NM_001199241	exon9	c.583-1G>A	.	GATTTAGGGGGAA	.	48.0	12.0	74.0	0.0	.	110	.	.	Atlas-SNP
SCN2A	6326	hgsc.bcm.edu	hg19	2	166211045	166211045	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	SCN2A	NM_001040143	exon16	c.A3263G	p.D1088G	TCGTGGATGAAAG	.	305.0	95.0	309.0	0.0	.	589	.	.	Atlas-SNP
CNTN6	27255	hgsc.bcm.edu	hg19	3	1371531	1371531	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	CNTN6,colon,carcinoma,0,1	CNTN6	NM_014461	exon11	c.G1276A	p.D426N	GGTGGGGATATTG	.	177.0	63.0	519.0	1.0	.	245	.	.	Atlas-SNP
CNTN6	27255	hgsc.bcm.edu	hg19	3	1371532	1371532	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	CNTN6	NM_014461	exon11	c.A1277T	p.D426V	GTGGGGATATTGT	.	175.0	60.0	516.0	1.0	.	245	.	.	Atlas-SNP
PDCD6IP	10015	hgsc.bcm.edu	hg19	3	33840383	33840383	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	PDCD6IP	NM_013374	exon1	c.G163A	p.G55S	GCAGTCGGTCGTC	.	41.0	26.0	14.0	0.0	.	62	.	.	Atlas-SNP
TLR9	54106	hgsc.bcm.edu	hg19	3	52255499	52255499	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	TLR9	NM_017442	exon2	c.G2833A	p.G945S	AGAGACCACTGAC	.	54.0	15.0	20.0	0.0	.	72	.	.	Atlas-SNP
FGFRL1	53834	hgsc.bcm.edu	hg19	4	1015991	1015991	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	FGFRL1	NM_001004356	exon3	c.G80T	p.G27V	CCGCAGGCCCCCC	.	78.0	20.0	39.0	0.0	.	77	.	.	Atlas-SNP
LPHN3	23284	hgsc.bcm.edu	hg19	4	62849309	62849309	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	LPHN3	NM_015236	exon16	c.G3020T	p.G1007V	GTTATGGAACAGA	.	192.0	100.0	260.0	0.0	.	800	.	.	Atlas-SNP
UGT2A1	10941	hgsc.bcm.edu	hg19	4	70455333	70455333	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	UGT2A1	NM_001252274	exon7	c.C1839A	p.H613Q	ATCATGGTGAATT	.	289.0	139.0	328.0	1.0	.	131	.	.	Atlas-SNP
PLK4	10733	hgsc.bcm.edu	hg19	4	128806961	128806961	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	PLK4,NS,carcinoma,0,1	PLK4	NM_014264	exon5	c.C436T	p.R146C	CTGACTCGTAATA	.	327.0	114.0	223.0	0.0	.	65	.	.	Atlas-SNP
PDE4D	5144	hgsc.bcm.edu	hg19	5	58882174	58882174	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	PDE4D	NM_006203	exon1	c.A28G	p.R10G	GCCTTCTAAAGGG	.	166.0	78.0	221.0	0.0	.	345	.	.	Atlas-SNP
GPR98	84059	hgsc.bcm.edu	hg19	5	89953983	89953983	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	GPR98	NM_032119	exon21	c.C4640T	p.S1547F	TAGTTTCTGTATA	.	223.0	30.0	214.0	0.0	.	605	.	.	Atlas-SNP
RHOBTB3	22836	hgsc.bcm.edu	hg19	5	95091309	95091309	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	RHOBTB3	NM_014899	exon6	c.A892G	p.I298V	TCCAGTATCATCC	.	167.0	28.0	271.0	0.0	.	43	.	.	Atlas-SNP
PCBD2	84105	hgsc.bcm.edu	hg19	5	134246024	134246024	+	Splice_Site	SNP	G	G	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	PCBD2	NM_032151	exon2	c.85-1G>C	.	TTCATAGTCATCA	.	125.0	23.0	103.0	0.0	.	3	.	.	Atlas-SNP
FOXI1	2299	hgsc.bcm.edu	hg19	5	169535204	169535204	+	Missense_Mutation	SNP	C	C	A	rs35678180	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	FOXI1	NM_012188	exon2	c.C726A	p.S242R	GGACAGCCCCAAG	.	113.0	25.0	57.0	0.0	.	70	.	C|0.995;T|0.005	Atlas-SNP
DBN1	1627	hgsc.bcm.edu	hg19	5	176895871	176895871	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	DBN1	NM_080881	exon3	c.A122T	p.D41V	AGGTCATCGGAGC	.	176.0	23.0	101.0	0.0	.	122	.	.	Atlas-SNP
JARID2	3720	hgsc.bcm.edu	hg19	6	15507624	15507624	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	JARID2	NM_004973	exon11	c.T2708A	p.L903Q	CCATCCTGCGTCA	.	155.0	49.0	71.0	0.0	.	135	.	.	Atlas-SNP
OR11A1	26531	hgsc.bcm.edu	hg19	6	29395051	29395051	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	OR11A1	NM_013937	exon1	c.G368A	p.R123H	AGGTAGCGGTCAT	.	94.0	34.0	77.0	0.0	.	30	.	.	Atlas-SNP
PKHD1	5314	hgsc.bcm.edu	hg19	6	51732778	51732778	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	PKHD1	NM_170724	exon48	c.T7616C	p.I2539T	GCAAGAATGTGAC	.	126.0	39.0	155.0	0.0	.	927	.	.	Atlas-SNP
GFRAL	389400	hgsc.bcm.edu	hg19	6	55263983	55263983	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	GFRAL	NM_207410	exon7	c.C958A	p.P320T	GATTATCCAACCC	.	489.0	149.0	648.0	1.0	.	91	.	.	Atlas-SNP
REV3L	5980	hgsc.bcm.edu	hg19	6	111678241	111678241	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	REV3L	NM_002912	exon18	c.A7160T	p.H2387L	ATTTCATGAAAAA	.	182.0	52.0	260.0	0.0	.	386	.	.	Atlas-SNP
UTRN	7402	hgsc.bcm.edu	hg19	6	144758707	144758707	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	UTRN	NM_007124	exon10	c.A1066G	p.M356V	GCTTTTATGATGG	.	56.0	22.0	64.0	0.0	.	327	.	.	Atlas-SNP
KCND2	3751	hgsc.bcm.edu	hg19	7	119914945	119914945	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	KCND2	NM_012281	exon1	c.C259A	p.R87S	TTTGACCGTGACC	.	144.0	65.0	82.0	0.0	.	194	.	.	Atlas-SNP
ASB15	142685	hgsc.bcm.edu	hg19	7	123270025	123270025	+	Silent	SNP	T	T	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	ASB15	NM_080928	exon9	c.T1446C	p.C482C	GTTCTGTGAGTTT	.	133.0	52.0	143.0	0.0	.	94	.	.	Atlas-SNP
TTPA	7274	hgsc.bcm.edu	hg19	8	63973866	63973866	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	TTPA	NM_000370	exon5	c.A782G	p.N261S	ATAAAATTTGTCC	.	357.0	69.0	186.0	0.0	.	29	.	.	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	hg19	8	110460575	110460575	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	PKHD1L1	NM_177531	exon39	c.G5980C	p.V1994L	ACAGTTGTATTTG	.	232.0	13.0	103.0	0.0	.	522	.	.	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	hg19	8	113662479	113662479	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	CSMD3	NM_198123	exon19	c.G3104T	p.S1035I	TCACAACTAAATG	.	567.0	50.0	287.0	0.0	.	2325	.	.	Atlas-SNP
ASAP1	50807	hgsc.bcm.edu	hg19	8	131164981	131164981	+	Splice_Site	SNP	C	C	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	ASAP1	NM_001247996	exon15	c.1059+1G>A	.	TACTTACTGTGGC	.	364.0	61.0	175.0	0.0	.	133	.	.	Atlas-SNP
OLFM1	10439	hgsc.bcm.edu	hg19	9	138011770	138011770	+	Missense_Mutation	SNP	G	G	A	rs1130517	alternate_allele	TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	OLFM1	NM_014279	exon6	c.G1150A	p.A384T	CGCAGCGCCGGGG	.	55.0	32.0	35.0	0.0	.	57	.	.	Atlas-SNP
GPRIN2	9721	hgsc.bcm.edu	hg19	10	47000008	47000008	+	Silent	SNP	G	G	T	rs111800394	bycluster;alternate_allele	TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	GPRIN2	NM_014696	exon3	c.G1128T	p.P376P	GGTGCCGTCCCCT	.	221.0	23.0	78.0	0.0	.	94	.	G|0.500;A|0.500	Atlas-SNP
CHST15	51363	hgsc.bcm.edu	hg19	10	125769678	125769678	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	CHST15	NM_015892	exon8	c.G1673A	p.W558X	GTCTTCCACGCAA	.	94.0	34.0	37.0	0.0	.	134	.	.	Atlas-SNP
OR10A3	26496	hgsc.bcm.edu	hg19	11	7960259	7960259	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	OR10A3	NM_001003745	exon1	c.C809G	p.T270S	TTCTTGGTTTCGG	.	210.0	72.0	335.0	0.0	.	54	.	.	Atlas-SNP
NAT10	55226	hgsc.bcm.edu	hg19	11	34137375	34137375	+	Silent	SNP	G	G	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	NAT10	NM_024662	exon6	c.G501A	p.V167V	GGATGTGCATTCC	.	215.0	63.0	311.0	0.0	.	78	.	.	Atlas-SNP
C1QTNF4	114900	hgsc.bcm.edu	hg19	11	47611682	47611682	+	Silent	SNP	G	G	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	C1QTNF4	NM_031909	exon2	c.C681T	p.G227G	GTAGGCGCCGGGC	.	42.0	13.0	14.0	0.0	.	19	.	.	Atlas-SNP
OR8K5	219453	hgsc.bcm.edu	hg19	11	55927260	55927260	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	OR8K5	NM_001004058	exon1	c.C534A	p.Y178X	ATCACAGTAAAAA	.	107.0	28.0	141.0	0.0	.	82	.	.	Atlas-SNP
SYVN1	84447	hgsc.bcm.edu	hg19	11	64900941	64900941	+	Silent	SNP	T	T	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	SYVN1	NM_172230	exon2	c.A132G	p.A44A	ACTCACTGCCATG	.	82.0	28.0	44.0	0.0	.	55	.	.	Atlas-SNP
CADM1	23705	hgsc.bcm.edu	hg19	11	115085443	115085443	+	Silent	SNP	C	C	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	CADM1	NM_014333	exon7	c.G879C	p.L293L	CCCAGACAGTACG	.	171.0	25.0	389.0	0.0	.	74	.	.	Atlas-SNP
IGSF9B	22997	hgsc.bcm.edu	hg19	11	133814256	133814256	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	IGSF9B	NM_014987	exon3	c.G268T	p.A90S	GACTGGCCCGGCC	.	148.0	39.0	74.0	0.0	.	290	.	.	Atlas-SNP
VAMP1	6843	hgsc.bcm.edu	hg19	12	6575091	6575091	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	VAMP1	NM_014231	exon3	c.G205C	p.A69P	CATCAGCTCGGTC	.	240.0	90.0	124.0	0.0	.	6	.	.	Atlas-SNP
LRP6	4040	hgsc.bcm.edu	hg19	12	12291266	12291266	+	Silent	SNP	T	T	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	LRP6	NM_002336	exon16	c.A3600G	p.Q1200Q	GTATTCTTGAAGG	.	186.0	61.0	258.0	0.0	.	170	.	.	Atlas-SNP
IFLTD1	160492	hgsc.bcm.edu	hg19	12	25801457	25801457	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	IFLTD1	NM_001145727	exon1	c.T29A	p.I10N	ACACCGATGTCTC	.	228.0	78.0	255.0	0.0	.	121	.	.	Atlas-SNP
DENND5B	160518	hgsc.bcm.edu	hg19	12	31562239	31562239	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	DENND5B	NM_144973	exon14	c.G2761A	p.A921T	CCACAGCATTGAG	.	116.0	41.0	155.0	0.0	.	114	.	.	Atlas-SNP
ATP5B	506	hgsc.bcm.edu	hg19	12	57038650	57038650	+	Missense_Mutation	SNP	T	T	C	rs11542649	bycluster;byhapmap	TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	ATP5B	NM_001686	exon3	c.A400G	p.I134V	CAGGAATTTTGAT	.	562.0	161.0	381.0	0.0	.	48	.	T|1.000;|0.000	Atlas-SNP
GCN1L1	10985	hgsc.bcm.edu	hg19	12	120580635	120580635	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	GCN1L1	NM_006836	exon43	c.C5606T	p.S1869F	TTGTTGGACTGGG	.	199.0	63.0	140.0	0.0	.	207	.	.	Atlas-SNP
RIMBP2	23504	hgsc.bcm.edu	hg19	12	130927134	130927134	+	Silent	SNP	G	G	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	RIMBP2,rectum,carcinoma,0,3	RIMBP2	NM_015347	exon8	c.C712A	p.R238R	CCAACCGCGACTC	.	428.0	152.0	217.0	0.0	.	220	.	.	Atlas-SNP
LNX2	222484	hgsc.bcm.edu	hg19	13	28143356	28143356	+	Silent	SNP	A	A	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	LNX2	NM_153371	exon3	c.T465G	p.T155T	TGCTTGAGTTCTA	.	136.0	68.0	290.0	0.0	.	70	.	.	Atlas-SNP
POSTN	10631	hgsc.bcm.edu	hg19	13	38158220	38158220	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	POSTN	NM_006475	exon9	c.G1129A	p.A377T	TTCCAGCCAGCTC	.	86.0	18.0	100.0	0.0	.	161	.	.	Atlas-SNP
FNDC3A	22862	hgsc.bcm.edu	hg19	13	49710511	49710511	+	Silent	SNP	A	A	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	FNDC3A	NM_001079673	exon6	c.A534G	p.R178R	TGAACGATCTAGT	.	133.0	59.0	241.0	1.0	.	93	.	.	Atlas-SNP
SPRY2	10253	hgsc.bcm.edu	hg19	13	80911451	80911451	+	Silent	SNP	G	G	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	SPRY2	NM_005842	exon2	c.C390G	p.S130S	TTCAGAGGAGCTG	.	183.0	26.0	87.0	0.0	.	28	.	.	Atlas-SNP
OR4K14	122740	hgsc.bcm.edu	hg19	14	20483095	20483095	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	OR4K14	NM_001004712	exon1	c.C258A	p.F86L	ACTAAGGAAATCC	.	116.0	29.0	102.0	0.0	.	86	.	.	Atlas-SNP
PARP2	10038	hgsc.bcm.edu	hg19	14	20820469	20820469	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	PARP2_ENST00000250416,NS,carcinoma,0,2	PARP2	NM_005484	exon7	c.A602G	p.Y201C	GAAAATATGATAT	.	99.0	27.0	72.0	0.0	.	92	.	.	Atlas-SNP
PRKCH	5583	hgsc.bcm.edu	hg19	14	61997206	61997206	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	PRKCH,colon,carcinoma,-1,1	PRKCH	NM_006255	exon12	c.G1654T	p.A552S	GGTCACGCGCCTT	.	163.0	26.0	155.0	0.0	.	89	.	.	Atlas-SNP
LTBP2	4053	hgsc.bcm.edu	hg19	14	74995708	74995708	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	LTBP2,NS,carcinoma,0,1	LTBP2	NM_000428	exon11	c.G2105T	p.G702V	GCTTTGCCCACGC	.	190.0	80.0	97.0	1.0	.	158	.	.	Atlas-SNP
SAMD15	161394	hgsc.bcm.edu	hg19	14	77844990	77844990	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	SAMD15	NM_001010860	exon1	c.C1229T	p.T410I	ATGAAACCAAACC	.	417.0	84.0	295.0	0.0	.	60	.	.	Atlas-SNP
TGM7	116179	hgsc.bcm.edu	hg19	15	43571883	43571883	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	TGM7	NM_052955	exon10	c.G1618A	p.G540S	TACCACCCCCATG	.	70.0	21.0	32.0	0.0	.	86	.	.	Atlas-SNP
LEO1	123169	hgsc.bcm.edu	hg19	15	52258056	52258056	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	LEO1	NM_138792	exon2	c.C704G	p.P235R	AGCTGTGGTTGTT	.	563.0	96.0	545.0	0.0	.	46	.	.	Atlas-SNP
TTLL13	440307	hgsc.bcm.edu	hg19	15	90799374	90799374	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	TTLL13	NM_001029964	exon6	c.T550A	p.Y184N	CATAGCTATGGGG	.	70.0	29.0	51.0	0.0	.	44	.	.	Atlas-SNP
HYDIN	54768	hgsc.bcm.edu	hg19	16	70884513	70884513	+	Silent	SNP	C	C	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	HYDIN	NM_001270974	exon74	c.G12489C	p.V4163V	AAAGTTCACATCT	.	68.0	34.0	173.0	0.0	.	788	.	.	Atlas-SNP
GPS2	2874	hgsc.bcm.edu	hg19	17	7216697	7216697	+	Splice_Site	SNP	A	A	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	GPS2	NM_004489	exon9	c.724+2T>C	.	GTTATCACCTGTC	.	98.0	51.0	97.0	0.0	.	44	.	.	Atlas-SNP
KIAA0100	9703	hgsc.bcm.edu	hg19	17	26967658	26967658	+	Silent	SNP	G	G	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	KIAA0100	NM_014680	exon8	c.C810T	p.F270F	GAGAAGGAATAGG	.	372.0	127.0	251.0	0.0	.	175	.	.	Atlas-SNP
LYZL6	57151	hgsc.bcm.edu	hg19	17	34266279	34266279	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	LYZL6	NM_020426	exon1	c.G82A	p.A28T	CCTGGGCCAAGTC	.	59.0	28.0	84.0	0.0	.	18	.	.	Atlas-SNP
ACACA	31	hgsc.bcm.edu	hg19	17	35538246	35538246	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	ACACA	NM_198834	exon40	c.A4828G	p.I1610V	TATTGATTAACAT	.	224.0	112.0	345.0	0.0	.	395	.	.	Atlas-SNP
HEATR6	63897	hgsc.bcm.edu	hg19	17	58156056	58156056	+	Splice_Site	SNP	C	C	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	HEATR6	NM_022070	exon2	c.219+1G>A	.	CGCCTACCTCCGG	.	38.0	14.0	14.0	0.0	.	98	.	.	Atlas-SNP
PTPRM	5797	hgsc.bcm.edu	hg19	18	8088802	8088802	+	Silent	SNP	C	C	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	PTPRM,NS,carcinoma,0,1	PTPRM	NM_001105244	exon11	c.C1809T	p.T603T	CAATACCGTGACA	.	67.0	29.0	123.0	1.0	.	185	.	.	Atlas-SNP
DYM	54808	hgsc.bcm.edu	hg19	18	46860102	46860102	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	DYM	NM_017653	exon7	c.C616T	p.P206S	ACCATGGACCTCG	.	80.0	12.0	80.0	0.0	.	52	.	.	Atlas-SNP
GMIP	51291	hgsc.bcm.edu	hg19	19	19740822	19740822	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	GMIP	NM_016573	exon21	c.G2863A	p.A955T	AGGTGGCCCTGGG	.	182.0	38.0	90.0	0.0	.	55	.	.	Atlas-SNP
ZNF681	148213	hgsc.bcm.edu	hg19	19	23927076	23927076	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	ZNF681	NM_138286	exon4	c.A1276G	p.K426E	CACATTTTTCACA	.	134.0	47.0	161.0	0.0	.	76	.	.	Atlas-SNP
MLL4	8085	hgsc.bcm.edu	hg19	19	36214013	36214013	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	MLL4	NM_014727	exon6	c.C2839A	p.H947N	CTGGCCCACACAC	.	46.0	7.0	35.0	0.0	.	229	.	.	Atlas-SNP
TGFB1	7040	hgsc.bcm.edu	hg19	19	41850671	41850671	+	Silent	SNP	C	C	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	TGFB1	NM_000660	exon3	c.G615T	p.R205R	CCACTGCCGCACA	.	71.0	19.0	57.0	0.0	.	27	.	.	Atlas-SNP
GIPR	2696	hgsc.bcm.edu	hg19	19	46185002	46185002	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	GIPR	NM_000164	exon14	c.C1210A	p.R404S	GAGATCCGCCGTG	.	22.0	11.0	3.0	0.0	.	36	.	.	Atlas-SNP
ZNF677	342926	hgsc.bcm.edu	hg19	19	53747099	53747099	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	ZNF677	NM_182609	exon4	c.G67C	p.E23Q	GGCACTCCCACTC	.	134.0	45.0	153.0	0.0	.	94	.	.	Atlas-SNP
PCNT	5116	hgsc.bcm.edu	hg19	21	47850032	47850032	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	PCNT	NM_006031	exon36	c.C7799T	p.A2600V	TCCTGGCGGCGGA	.	315.0	55.0	166.0	0.0	.	283	.	.	Atlas-SNP
TRIOBP	11078	hgsc.bcm.edu	hg19	22	38119347	38119347	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	TRIOBP	NM_001039141	exon7	c.G784A	p.A262T	TCTCCTGCCCAAA	.	122.0	30.0	62.0	0.0	.	262	.	.	Atlas-SNP
PAGE2	203569	hgsc.bcm.edu	hg19	X	55117891	55117891	+	Splice_Site	SNP	G	G	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	PAGE2	NM_207339	exon4	c.319+1G>A	.	AAGCAGGTTTGTT	.	334.0	104.0	321.0	0.0	.	26	.	.	Atlas-SNP
NAP1L3	4675	hgsc.bcm.edu	hg19	X	92927476	92927476	+	Silent	SNP	T	T	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	NAP1L3	NM_004538	exon1	c.A828T	p.A276A	TCTTACTGCAGCC	.	231.0	166.0	133.0	0.0	.	81	.	.	Atlas-SNP
PIGS	94005	hgsc.bcm.edu	hg19	17	26898507	26898508	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	PIGS	NM_033198	exon1	c.8_9insG	p.A3fs	.	.	215.0	19.0	90.0	0.0	.	42	.	.	Atlas-INDEL
TFCP2L1	29842	hgsc.bcm.edu	hg19	2	121989435	121989436	+	Frame_Shift_Ins	INS	-	-	CC	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.,1	TFCP2L1	NM_014553	exon13	c.1308_1309insGG	p.G436fs	.	.	145.0	14.0	53.0	0.0	.	54	.	.	Atlas-INDEL
COL22A1	169044	hgsc.bcm.edu	hg19	8	139895383	139895384	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	COL22A1	NM_152888	exon2	c.33_34insG	p.G11fs	.	.	107.0	15.0	25.0	0.0	.	390	.	.	Atlas-INDEL
CIITA	4261	hgsc.bcm.edu	hg19	16	11001148	11001149	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	CIITA	NM_000246	exon11	c.1799_1800insC	p.D600fs	.	.	171.0	12.0	108.0	0.0	.	92	.	.	Atlas-INDEL
ZYX	7791	hgsc.bcm.edu	hg19	7	143080154	143080155	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	ZYX	NM_003461	exon5	c.762_763insC	p.G254fs	.	.	204.0	14.0	99.0	0.0	.	46	.	.	Atlas-INDEL
PTTG1IP	754	hgsc.bcm.edu	hg19	21	46281119	46281120	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	PTTG1IP	NM_004339	exon3	c.236_237insT	p.S79fs	.	.	182.0	17.0	99.0	0.0	.	22	.	.	Atlas-INDEL
CTCFL	140690	hgsc.bcm.edu	hg19	20	56098886	56098887	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	CTCFL	NM_001269044	exon1	c.376_377insG	p.P126fs	.	.	139.0	11.0	83.0	0.0	.	97	.	.	Atlas-INDEL
NFKB2	4791	hgsc.bcm.edu	hg19	10	104157402	104157403	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	NFKB2	NM_002502	exon8	c.621_622insC	p.L207fs	.	.	218.0	15.0	134.0	0.0	.	48	.	.	Atlas-INDEL
SLC12A3	6559	hgsc.bcm.edu	hg19	16	56920341	56920341	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	SLC12A3	NM_001126108	exon16	c.1990delA	p.T664fs	.	.	73.0	38.0	46.0	0.0	.	99	.	.	Atlas-Indel,Pindel
SEMA3F	6405	hgsc.bcm.edu	hg19	3	50222142	50222143	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	SEMA3F	NM_004186	exon13	c.1351_1352insG	p.R451fs	.	.	121.0	22.0	40.0	0.0	.	62	.	.	Atlas-INDEL
CASZ1	54897	hgsc.bcm.edu	hg19	1	10713557	10713558	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	CASZ1	NM_017766	exon11	c.2557_2558insC	p.A853fs	.	.	186.0	11.0	82.0	0.0	.	150	.	.	Atlas-INDEL
TLR1	7096	hgsc.bcm.edu	hg19	4	38798989	38798990	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	TLR1	NM_003263	exon4	c.1464_1465insG	p.S488fs	.	.	256.0	27.0	258.0	0.0	.	70	.	.	Atlas-INDEL
TP53	7157	hgsc.bcm.edu	hg19	17	7577150	7577150	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	TP53,colon,carcinoma,-1,1	TP53	NM_001126112	exon8	c.789delT	p.N263fs	.	.	70.0	33.0	65.0	0.0	.	33396	.	.	Atlas-Indel,Pindel
MTIF2	4528	hgsc.bcm.edu	hg19	2	55470647	55470647	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	MTIF2	NM_002453	exon12	c.1470delA	p.S490fs	.	.	612.0	80.0	784.0	0.0	.	64	.	.	Atlas-Indel,Pindel
ARID1A	8289	hgsc.bcm.edu	hg19	1	27087894	27087898	+	Frame_Shift_Del	DEL	GCCAC	GCCAC	-	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	GCCAC	GCCAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.,1	ARID1A	NM_139135	exon6	c.2180_2184del	p.727_728del	.	.	200.0	70.0	322.0	0.0	.	842	.	.	Atlas-Indel,Pindel
ZNF99	7652	hgsc.bcm.edu	hg19	19	22942280	22942281	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	ZNF99	NM_001080409	exon4	c.431_432insA	p.I144fs	.	.	158.0	51.0	320.0	0.0	.	273	.	.	Atlas-Indel,Pindel
SFRP5	6425	hgsc.bcm.edu	hg19	10	99531159	99531160	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	SFRP5	NM_003015	exon1	c.432_433insT	p.F144fs	.	.	132.0	10.0	39.0	0.0	.	32	.	.	Atlas-INDEL
DDX58	23586	hgsc.bcm.edu	hg19	9	32457172	32457178	+	Frame_Shift_Del	DEL	TTCCACT	TTCCACT	-	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	TTCCACT	TTCCACT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	DDX58	NM_014314	exon18	c.2721_2727del	p.907_909del	.	.	106.0	22.0	246.0	0.0	.	82	.	.	Atlas-Indel,Pindel
KIF20B	9585	hgsc.bcm.edu	hg19	10	91477208	91477209	+	Frame_Shift_Del	DEL	AC	AC	-	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	AC	AC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	KIF20B	NM_016195	exon10	c.1079_1080del	p.360_360del	.	.	311.0	50.0	603.0	0.0	.	191	.	.	Atlas-Indel,Pindel
ASPSCR1	79058	hgsc.bcm.edu	hg19	17	79954362	79954363	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	ASPSCR1	NM_024083	exon7	c.573_574insG	p.A191fs	.	.	79.0	10.0	43.0	0.0	.	27	.	.	Atlas-INDEL
NLGN1	22871	hgsc.bcm.edu	hg19	3	173996955	173996955	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	NLGN1	NM_014932	exon6	c.1163delA	p.N388fs	.	.	131.0	38.0	228.0	0.0	.	209	.	.	Atlas-Indel,Pindel
D2HGDH	728294	hgsc.bcm.edu	hg19	2	242683136	242683137	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	D2HGDH	NM_152783	exon5	c.590_591insC	p.S197fs	.	.	195.0	12.0	104.0	0.0	.	39	.	.	Atlas-INDEL
ZBED1	9189	hgsc.bcm.edu	hg19	X	2406709	2406710	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	ZBED1	NM_001171135	exon2	c.2052_2053insG	p.G684fs	.	.	194.0	16.0	141.0	0.0	.	64	.	.	Atlas-INDEL
OR6C65	403282	hgsc.bcm.edu	hg19	12	55794609	55794610	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	OR6C65	NM_001005518	exon1	c.297_298insT	p.V99fs	.	.	140.0	44.0	122.0	0.0	.	44	.	.	Atlas-Indel,Pindel
TLL2	7093	hgsc.bcm.edu	hg19	10	98145959	98145960	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	TLL2	NM_012465	exon15	c.1866_1867insG	p.G622fs	.	.	98.0	13.0	40.0	0.0	.	122	.	.	Atlas-INDEL
PRSS50	29122	hgsc.bcm.edu	hg19	3	46757122	46757123	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	PRSS50	NM_013270	exon3	c.373_374insG	p.P125fs	.	.	246.0	29.0	97.0	0.0	.	35	.	.	Atlas-INDEL
DFFB	1677	hgsc.bcm.edu	hg19	1	3786299	3786300	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	DFFB	NM_004402	exon5	c.641_642insC	p.G214fs	.	.	198.0	13.0	100.0	0.0	.	30	.	.	Atlas-INDEL
CELSR3	1951	hgsc.bcm.edu	hg19	3	48691751	48691752	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	CELSR3	NM_001407	exon7	c.5123_5124insG	p.A1708fs	.	.	154.0	12.0	73.0	0.0	.	237	.	.	Atlas-INDEL
ALOX15B	247	hgsc.bcm.edu	hg19	17	7950032	7950032	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	ALOX15B	NM_001141	exon9	c.1246delG	p.A416fs	.	.	64.0	11.0	54.0	0.0	.	66	.	.	Atlas-INDEL
POLR1B	84172	hgsc.bcm.edu	hg19	2	113300082	113300083	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-CC-5258-01A-01D-A12Z-10	TCGA-CC-5258-10A-01D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	53feb92e-977d-4591-aaa1-7172f3e42965	04203961-a51c-4ee4-af73-8007d37a0113	.	POLR1B	NM_019014	exon1	c.11_12insC	p.G4fs	.	.	149.0	10.0	64.0	0.0	.	95	.	.	Atlas-INDEL