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
AURKAIP1	54998	hgsc.bcm.edu	hg19	1	1309702	1309702	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	AURKAIP1	NM_001127230	exon3	c.A176G	p.E59G	TCCAGCTCCAGCT	.	47.0	4.0	33.0	0.0	.	12	.	.	Atlas-SNP
PRKCZ	5590	hgsc.bcm.edu	hg19	1	2116024	2116024	+	Silent	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PRKCZ	NM_002744	exon17	c.G1578A	p.L526L	CAAGCTGGAGAAG	.	90.0	4.0	104.0	0.0	.	84	.	.	Atlas-SNP
NOL9	79707	hgsc.bcm.edu	hg19	1	6592674	6592674	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NOL9	NM_024654	exon8	c.A1384G	p.T462A	TCTTGGTCTTGCT	.	196.0	8.0	190.0	0.0	.	49	.	.	Atlas-SNP
PRDM2	7799	hgsc.bcm.edu	hg19	1	14057576	14057576	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PRDM2	NM_015866	exon3	c.A91G	p.R31G	GAAGTGAGGCTTT	.	104.0	5.0	103.0	0.0	.	147	.	.	Atlas-SNP
CELA2B	51032	hgsc.bcm.edu	hg19	1	15802955	15802955	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CELA2B	NM_015849	exon2	c.T44C	p.L15P	CAGCCCTCAGTTG	.	149.0	10.0	161.0	0.0	.	37	.	.	Atlas-SNP
SPEN	23013	hgsc.bcm.edu	hg19	1	16255127	16255127	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SPEN	NM_015001	exon11	c.G2392C	p.D798H	ACTTTTGATCCGG	.	43.0	16.0	45.0	0.0	.	374	.	.	Atlas-SNP
HSPG2	3339	hgsc.bcm.edu	hg19	1	22183660	22183660	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	HSPG2	NM_005529	exon44	c.G5423A	p.R1808H	TGCAGGCGGGTCC	.	202.0	90.0	235.0	0.0	.	311	.	.	Atlas-SNP
FGR	2268	hgsc.bcm.edu	hg19	1	27950421	27950421	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	FGR	NM_001042729	exon3	c.T7C	p.C3R	ACACACAGCCCAT	.	86.0	4.0	84.0	0.0	.	39	.	.	Atlas-SNP
ZSCAN20	7579	hgsc.bcm.edu	hg19	1	33960764	33960764	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ZSCAN20	NM_145238	exon8	c.C2820T	p.F940F	GTGCTTCAGTGAG	.	78.0	4.0	53.0	0.0	.	107	.	.	Atlas-SNP
GJB4	127534	hgsc.bcm.edu	hg19	1	35227120	35227120	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GJB4	NM_153212	exon2	c.C265A	p.L89M	CCCTCACTGCTCG	.	105.0	50.0	122.0	0.0	.	51	.	.	Atlas-SNP
ZMYM1	79830	hgsc.bcm.edu	hg19	1	35570358	35570358	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ZMYM1	NM_024772	exon6	c.A795G	p.T265T	TATTACAGCATAT	.	96.0	5.0	103.0	0.0	.	86	.	.	Atlas-SNP
ZNF691	51058	hgsc.bcm.edu	hg19	1	43316759	43316759	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ZNF691	NM_001242739	exon4	c.A223G	p.S75G	CAAGAGAGCCTGT	.	94.0	5.0	98.0	0.0	.	30	.	.	Atlas-SNP
TTC22	55001	hgsc.bcm.edu	hg19	1	55248004	55248004	+	Silent	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TTC22	NM_001114108	exon6	c.C1167T	p.I389I	CTGGCCGATGTCC	.	68.0	24.0	42.0	0.0	.	40	.	.	Atlas-SNP
NEGR1	257194	hgsc.bcm.edu	hg19	1	72058553	72058553	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	NEGR1,ampulla_of_Vater,carcinoma,0,1	NEGR1	NM_173808	exon6	c.C887T	p.T296I	ACACAGGTATAAT	.	209.0	0.0	216.0	0.0	.	60	.	.	Atlas-SNP
USP33	23032	hgsc.bcm.edu	hg19	1	78183652	78183652	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	USP33	NM_015017	exon18	c.A1911G	p.L637L	GCCTTCTAGCGGA	.	175.0	84.0	193.0	0.0	.	87	.	.	Atlas-SNP
CYR61	3491	hgsc.bcm.edu	hg19	1	86048133	86048133	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CYR61	NM_001554	exon4	c.T669C	p.P223P	CAACCCTTTACAA	.	100.0	4.0	100.0	0.0	.	18	.	.	Atlas-SNP
CLCA2	9635	hgsc.bcm.edu	hg19	1	86913417	86913417	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CLCA2	NM_006536	exon11	c.A1940G	p.E647G	AGCCAGAGACTGG	.	74.0	6.0	75.0	0.0	.	102	.	.	Atlas-SNP
HFM1	164045	hgsc.bcm.edu	hg19	1	91788716	91788716	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	HFM1	NM_001017975	exon22	c.A2468G	p.Q823R	CTTAACTGTATAT	.	118.0	5.0	107.0	0.0	.	188	.	.	Atlas-SNP
MTF2	22823	hgsc.bcm.edu	hg19	1	93545089	93545089	+	Splice_Site	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MTF2	NM_001164392	exon1	c.5+1G>T	.	AATGAGGTGAGAG	.	104.0	53.0	124.0	0.0	.	51	.	.	Atlas-SNP
STXBP3	6814	hgsc.bcm.edu	hg19	1	109342913	109342913	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	STXBP3	NM_007269	exon17	c.T1521C	p.G507G	GAATGGTTCAGGA	.	84.0	4.0	60.0	0.0	.	44	.	.	Atlas-SNP
KCNC4	3749	hgsc.bcm.edu	hg19	1	110775556	110775556	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	KCNC4	NM_001039574	exon4	c.T1843C	p.S615P	CTCTCGTCCAACT	.	120.0	5.0	117.0	0.0	.	113	.	.	Atlas-SNP
DENND2C	163259	hgsc.bcm.edu	hg19	1	115168554	115168554	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	DENND2C	NM_001256404	exon4	c.T52C	p.C18R	TTTTGCAGTGGCT	.	60.0	5.0	93.0	0.0	.	105	.	.	Atlas-SNP
SYCP1	6847	hgsc.bcm.edu	hg19	1	115537378	115537378	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SYCP1	NM_003176	exon31	c.T2763C	p.A921A	ACCAGCTTCTCAT	.	98.0	4.0	162.0	0.0	.	149	.	.	Atlas-SNP
CD101	9398	hgsc.bcm.edu	hg19	1	117556295	117556295	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CD101	NM_001256109	exon4	c.A1109G	p.E370G	GCCCAGAGGATGA	.	89.0	4.0	208.0	0.0	.	95	.	.	Atlas-SNP
ZNF697	90874	hgsc.bcm.edu	hg19	1	120168499	120168499	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ZNF697	NM_001080470	exon2	c.A225G	p.T75T	CTCACCTGTGCAG	.	80.0	4.0	125.0	0.0	.	26	.	.	Atlas-SNP
KLHDC9	126823	hgsc.bcm.edu	hg19	1	161068355	161068355	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	KLHDC9	NM_001007255	exon1	c.C30T	p.A10A	TCGGGCCGCAGGC	.	87.0	4.0	36.0	0.0	.	16	.	.	Atlas-SNP
NIT1	4817	hgsc.bcm.edu	hg19	1	161088600	161088600	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NIT1	NM_001185092	exon2	c.T27C	p.P9P	GCCTCCTCACAGA	.	147.0	6.0	94.0	0.0	.	41	.	.	Atlas-SNP
NCF2	4688	hgsc.bcm.edu	hg19	1	183532683	183532683	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NCF2	NM_001127651	exon13	c.A1064C	p.K355T	TGCACCTTGAGTG	.	301.0	57.0	135.0	0.0	.	69	.	.	Atlas-SNP
LRRN2	10446	hgsc.bcm.edu	hg19	1	204589102	204589102	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	LRRN2,brain,primitive_neuroectodermal_tumour-medulloblastoma,+2,1	LRRN2	NM_006338	exon3	c.C19T	p.P7S	AGAGTGGGGCCAC	.	274.0	0.0	126.0	0.0	.	81	.	.	Atlas-SNP
C1orf116	79098	hgsc.bcm.edu	hg19	1	207196403	207196403	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	C1orf116,caecum,carcinoma,+2,2	C1orf116	NM_023938	exon4	c.T706C	p.S236P	CCTGGGAGCTGGA	.	170.0	7.0	95.0	1.0	.	64	.	.	Atlas-SNP
PARP1	142	hgsc.bcm.edu	hg19	1	226570841	226570841	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	PARP1,NS,carcinoma,0,1	PARP1	NM_001618	exon8	c.A1055G	p.K352R	TCCTGTTTTTTAA	.	251.0	0.0	86.0	0.0	.	100	.	.	Atlas-SNP
OR2C3	81472	hgsc.bcm.edu	hg19	1	247695757	247695757	+	Silent	SNP	G	G	C	rs61746303	bycluster;byfrequency;by1000genomes;alternate_allele	TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	OR2C3,NS,carcinoma,0,2	OR2C3	NM_198074	exon2	c.C57G	p.S19S	TCGTGTGGAGAAG	.	446.0	0.0	149.0	0.0	.	92	.	G|0.996;A|0.004	Atlas-SNP
CEBPZ	10153	hgsc.bcm.edu	hg19	2	37455073	37455073	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CEBPZ	NM_005760	exon2	c.T1263C	p.S421S	TTCACCAGACACA	.	135.0	6.0	128.0	0.0	.	68	.	.	Atlas-SNP
UGP2	7360	hgsc.bcm.edu	hg19	2	64112780	64112780	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	UGP2	NM_006759	exon6	c.A633G	p.S211S	TTACTCAGGGGAA	.	70.0	5.0	69.0	0.0	.	38	.	.	Atlas-SNP
C2orf68	388969	hgsc.bcm.edu	hg19	2	85836675	85836675	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	C2orf68	NM_001013649	exon3	c.A261G	p.E87E	GGACTCTTCATAG	.	75.0	4.0	95.0	0.0	.	5	.	.	Atlas-SNP
KDM3A	55818	hgsc.bcm.edu	hg19	2	86693761	86693761	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	KDM3A	NM_001146688	exon10	c.A1274G	p.K425R	CTTCTAAGGCAGA	.	146.0	6.0	137.0	0.0	.	179	.	.	Atlas-SNP
CCDC93	54520	hgsc.bcm.edu	hg19	2	118677924	118677924	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CCDC93	NM_019044	exon24	c.T1891C	p.S631P	TTCAGGAGGCCTT	.	56.0	5.0	51.0	0.0	.	70	.	.	Atlas-SNP
UPP2	151531	hgsc.bcm.edu	hg19	2	158958553	158958553	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	UPP2	NM_001135098	exon3	c.T149C	p.V50A	TTAAGGTGACTTT	.	146.0	6.0	140.0	0.0	.	60	.	.	Atlas-SNP
TANC1	85461	hgsc.bcm.edu	hg19	2	159954261	159954261	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TANC1	NM_033394	exon4	c.A174G	p.K58K	GGCCAAAGGTGTC	.	95.0	4.0	104.0	0.0	.	157	.	.	Atlas-SNP
GRB14	2888	hgsc.bcm.edu	hg19	2	165350955	165350955	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GRB14	NM_004490	exon13	c.T1462C	p.F488L	TTTGAAAGTGCTT	.	164.0	7.0	152.0	0.0	.	73	.	.	Atlas-SNP
SCN1A	6323	hgsc.bcm.edu	hg19	2	166854614	166854614	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SCN1A	NM_001165963	exon23	c.G4410A	p.G1470G	GAAGGACCCAAAG	.	227.0	105.0	254.0	0.0	.	641	.	.	Atlas-SNP
SCN7A	6332	hgsc.bcm.edu	hg19	2	167318900	167318900	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SCN7A	NM_002976	exon9	c.A1082G	p.Q361R	CTTACCTGGTGAT	.	120.0	5.0	116.0	0.0	.	410	.	.	Atlas-SNP
KLHL23	151230	hgsc.bcm.edu	hg19	2	170592618	170592618	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	KLHL23	NM_144711	exon2	c.T1094C	p.V365A	GTGCAGTCACCTT	.	108.0	5.0	111.0	0.0	.	52	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179454987	179454987	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TTN	NM_001267550	exon304	c.A61465G	p.R20489G	CTACTCTCACGGT	.	158.0	7.0	174.0	0.0	.	18412	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179596303	179596303	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TTN	NM_001267550	exon59	c.A17190G	p.P5730P	GAAGGATGGGGGT	.	62.0	4.0	66.0	0.0	.	18412	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179632568	179632568	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TTN	NM_001267550	exon40	c.T9389C	p.V3130A	CCTGCCACCACTG	.	117.0	5.0	107.0	0.0	.	18412	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179642440	179642440	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TTN	NM_001267550	exon25	c.T4471C	p.F1491L	CATGAAACCAGAA	.	77.0	4.0	59.0	0.0	.	18412	.	.	Atlas-SNP
TTN	7273	hgsc.bcm.edu	hg19	2	179645980	179645980	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TTN	NM_001267550	exon21	c.A3391G	p.S1131G	TGTAACTCACTTT	.	143.0	8.0	135.0	0.0	.	18412	.	.	Atlas-SNP
ASNSD1	54529	hgsc.bcm.edu	hg19	2	190531152	190531152	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ASNSD1	NM_019048	exon4	c.T294C	p.Y98Y	TAATTATCTTTCC	.	52.0	4.0	49.0	0.0	.	63	.	.	Atlas-SNP
ORMDL1	94101	hgsc.bcm.edu	hg19	2	190636521	190636521	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ORMDL1	NM_016467	exon5	c.T434C	p.V145A	ATCCGAACACCAT	.	89.0	4.0	90.0	0.0	.	8	.	.	Atlas-SNP
GLS	2744	hgsc.bcm.edu	hg19	2	191796332	191796332	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GLS	NM_014905	exon14	c.T1619C	p.L540P	AAAAACTTGATCC	.	78.0	4.0	96.0	0.0	.	47	.	.	Atlas-SNP
SGOL2	151246	hgsc.bcm.edu	hg19	2	201400866	201400866	+	Splice_Site	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SGOL2	NM_001160033	exon4	c.387+1G>A	.	TCTGAGGTAAGTA	.	84.0	4.0	84.0	0.0	.	126	.	.	Atlas-SNP
CASP10	843	hgsc.bcm.edu	hg19	2	202074279	202074279	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CASP10	NM_032977	exon9	c.T1409C	p.V470A	AATTGGTCCCAAG	.	92.0	6.0	103.0	0.0	.	95	.	.	Atlas-SNP
ALS2CR8	79800	hgsc.bcm.edu	hg19	2	203848290	203848290	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ALS2CR8	NM_024744	exon17	c.A2121G	p.P707P	AGAACCAGCATTG	.	79.0	5.0	53.0	0.0	.	56	.	.	Atlas-SNP
NBEAL1	65065	hgsc.bcm.edu	hg19	2	203881127	203881127	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NBEAL1	NM_001114132	exon2	c.T20C	p.L7P	AGAGGCTCTTTGA	.	74.0	4.0	76.0	0.0	.	266	.	.	Atlas-SNP
VWC2L	402117	hgsc.bcm.edu	hg19	2	215301371	215301371	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	VWC2L	NM_001080500	exon3	c.T409C	p.C137R	GAATGGTGTCGCT	.	154.0	7.0	119.0	0.0	.	40	.	.	Atlas-SNP
ABCA12	26154	hgsc.bcm.edu	hg19	2	215884303	215884303	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ABCA12	NM_173076	exon12	c.T1505C	p.L502P	CCAGTCAGCAAAT	.	115.0	5.0	140.0	0.0	.	368	.	.	Atlas-SNP
MRPL44	65080	hgsc.bcm.edu	hg19	2	224824697	224824697	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MRPL44	NM_022915	exon2	c.A626G	p.E209G	GACCTGAGAGGAC	.	94.0	4.0	82.0	0.0	.	31	.	.	Atlas-SNP
COL4A4	1286	hgsc.bcm.edu	hg19	2	227942736	227942736	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	COL4A4	NM_000092	exon25	c.C1861T	p.P621S	TGCCTGGGGGGCC	.	84.0	4.0	76.0	0.0	.	215	.	.	Atlas-SNP
SPHKAP	80309	hgsc.bcm.edu	hg19	2	228881536	228881536	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SPHKAP	NM_030623	exon7	c.A4034G	p.E1345G	CACTTCTCTGCTT	.	173.0	7.0	163.0	0.0	.	750	.	.	Atlas-SNP
SAG	6295	hgsc.bcm.edu	hg19	2	234237222	234237222	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SAG	NM_000541	exon8	c.A611G	p.D204G	TGTCTGACAAGCC	.	97.0	5.0	109.0	0.0	.	77	.	.	Atlas-SNP
CXCR7	57007	hgsc.bcm.edu	hg19	2	237489341	237489341	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CXCR7	NM_020311	exon2	c.A233T	p.D78V	GCTATGACACGCA	.	159.0	79.0	171.0	0.0	.	72	.	.	Atlas-SNP
IRAK2	3656	hgsc.bcm.edu	hg19	3	10251316	10251316	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	IRAK2	NM_001570	exon4	c.T468C	p.P156P	CCAGCCTCCTGAA	.	87.0	7.0	85.0	0.0	.	113	.	.	Atlas-SNP
FBLN2	2199	hgsc.bcm.edu	hg19	3	13611908	13611908	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	FBLN2	NM_001998	exon2	c.T53C	p.L18P	TGGCCCTGGCCCT	.	73.0	4.0	51.0	0.0	.	137	.	.	Atlas-SNP
FBLN2	2199	hgsc.bcm.edu	hg19	3	13612069	13612069	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	FBLN2	NM_001998	exon2	c.G214C	p.D72H	TACTATGACTGCC	.	412.0	255.0	227.0	0.0	.	137	.	.	Atlas-SNP
LRRFIP2	9209	hgsc.bcm.edu	hg19	3	37170627	37170627	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	LRRFIP2	NM_001134369	exon4	c.T104C	p.L35P	GCTGCCAGCCTTG	.	90.0	4.0	90.0	0.0	.	71	.	.	Atlas-SNP
GOLGA4	2803	hgsc.bcm.edu	hg19	3	37365457	37365457	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GOLGA4	NM_001172713	exon15	c.T2146C	p.S716P	GAACTGTCAGAAG	.	115.0	5.0	115.0	0.0	.	173	.	.	Atlas-SNP
ZNF197	10168	hgsc.bcm.edu	hg19	3	44684620	44684620	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	ZNF197,NS,carcinoma,0,1	ZNF197	NM_006991	exon6	c.T1998C	p.I666I	CCTCATTTTACAT	.	88.0	4.0	85.0	0.0	.	81	.	.	Atlas-SNP
CCR5	1234	hgsc.bcm.edu	hg19	3	46414949	46414949	+	Missense_Mutation	SNP	C	C	A	rs113869679	bycluster	TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	CCR5,colon,carcinoma,0,1	CCR5	NM_000579	exon3	c.C556A	p.Q186K	TACAGTCAGTATC	.	87.0	4.0	83.0	2.0	.	128	.	.	Atlas-SNP
RBM6	10180	hgsc.bcm.edu	hg19	3	50005375	50005375	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	RBM6	NM_005777	exon3	c.T517C	p.S173P	CCTCCATCTGACT	.	94.0	5.0	117.0	0.0	.	85	.	.	Atlas-SNP
NEK4	6787	hgsc.bcm.edu	hg19	3	52797562	52797562	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NEK4	NM_003157	exon5	c.A745G	p.R249G	ACGGCCTTTCTTC	.	91.0	4.0	92.0	0.0	.	51	.	.	Atlas-SNP
FRMD4B	23150	hgsc.bcm.edu	hg19	3	69225784	69225784	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	FRMD4B	NM_015123	exon22	c.A2875G	p.N959D	TCCAGTTCCCAGA	.	69.0	4.0	78.0	0.0	.	90	.	.	Atlas-SNP
EPHA3	2042	hgsc.bcm.edu	hg19	3	89156972	89156972	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	EPHA3	NM_005233	exon1	c.A74G	p.Q25R	TTCCGCAGCCTTC	.	136.0	6.0	139.0	0.0	.	501	.	.	Atlas-SNP
CBLB	868	hgsc.bcm.edu	hg19	3	105464838	105464838	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CBLB	NM_170662	exon6	c.A768G	p.T256T	TGGATGTGTCACA	.	91.0	4.0	84.0	0.0	.	118	.	.	Atlas-SNP
MORC1	27136	hgsc.bcm.edu	hg19	3	108705728	108705728	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MORC1	NM_014429	exon22	c.A2256G	p.Q752Q	TTTACCTTGGTTT	.	79.0	6.0	69.0	0.0	.	211	.	.	Atlas-SNP
CASR	846	hgsc.bcm.edu	hg19	3	121980428	121980428	+	Silent	SNP	T	T	C	rs200545177	bycluster;alternate_allele	TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CASR	NM_001178065	exon4	c.T546C	p.S182S	CAAGTCTTTCCTC	.	98.0	5.0	106.0	0.0	.	190	.	.	Atlas-SNP
PARP14	54625	hgsc.bcm.edu	hg19	3	122418450	122418450	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PARP14	NM_017554	exon6	c.G1049A	p.R350H	TGAGGCGTTGTCA	.	141.0	59.0	140.0	0.0	.	242	.	.	Atlas-SNP
PIK3R4	30849	hgsc.bcm.edu	hg19	3	130463932	130463932	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PIK3R4	NM_014602	exon2	c.A131G	p.K44R	CGGTGCTTGGCTC	.	105.0	5.0	82.0	0.0	.	145	.	.	Atlas-SNP
ATP2C1	27032	hgsc.bcm.edu	hg19	3	130716555	130716555	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ATP2C1	NM_001199181	exon24	c.A2451G	p.S817S	TTCATCAATAATC	.	97.0	4.0	118.0	0.0	.	94	.	.	Atlas-SNP
SLC25A36	55186	hgsc.bcm.edu	hg19	3	140692752	140692752	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SLC25A36	NM_018155	exon6	c.A647G	p.D216G	AAAATGATGAAGA	.	84.0	4.0	65.0	0.0	.	24	.	.	Atlas-SNP
MME	4311	hgsc.bcm.edu	hg19	3	154802054	154802054	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MME	NM_007287	exon2	c.T98C	p.V33A	TCTCGGTCCTTGT	.	198.0	8.0	225.0	0.0	.	133	.	.	Atlas-SNP
MCCC1	56922	hgsc.bcm.edu	hg19	3	182751790	182751790	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MCCC1	NM_020166	exon14	c.A1670G	p.D557G	TTACCATCTTTAA	.	89.0	6.0	98.0	0.0	.	87	.	.	Atlas-SNP
PIGZ	80235	hgsc.bcm.edu	hg19	3	196674726	196674726	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PIGZ	NM_025163	exon3	c.T1042C	p.S348P	GTGCAGAGGCCTG	.	86.0	4.0	104.0	0.0	.	34	.	.	Atlas-SNP
NELFA	7469	hgsc.bcm.edu	hg19	4	1993397	1993397	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	.	NM_005663	exon2	c.T289G	p.S97A	GGTCCGAGTCGAG	.	133.0	45.0	121.0	0.0	.	.	.	.	Atlas-SNP
ZFYVE28	57732	hgsc.bcm.edu	hg19	4	2306482	2306482	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ZFYVE28	NM_020972	exon8	c.T1585C	p.S529P	CCGCAGAGTCCAG	.	87.0	4.0	93.0	0.0	.	79	.	.	Atlas-SNP
MSX1	4487	hgsc.bcm.edu	hg19	4	4864457	4864457	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MSX1	NM_002448	exon2	c.C499T	p.R167C	ACCCTCCGCAAAC	.	88.0	36.0	83.0	0.0	.	19	.	.	Atlas-SNP
CPEB2	132864	hgsc.bcm.edu	hg19	4	15060074	15060074	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CPEB2	NM_001177382	exon9	c.A2491G	p.S831G	GAAGAGAGCTCAG	.	129.0	6.0	126.0	0.0	.	77	.	.	Atlas-SNP
STIM2	57620	hgsc.bcm.edu	hg19	4	27000885	27000885	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	STIM2	NM_001169118	exon5	c.T541C	p.S181P	ATGATCTCCCAGT	.	96.0	4.0	83.0	0.0	.	77	.	.	Atlas-SNP
GABRA2	2555	hgsc.bcm.edu	hg19	4	46312234	46312234	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GABRA2	NM_000807	exon6	c.A515G	p.D172G	GGGAAATCCTCCA	.	109.0	5.0	124.0	0.0	.	134	.	.	Atlas-SNP
ATP10D	57205	hgsc.bcm.edu	hg19	4	47559792	47559792	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ATP10D	NM_020453	exon12	c.A1936G	p.K646E	AGTGGGAAAGAGC	.	72.0	4.0	83.0	0.0	.	168	.	.	Atlas-SNP
FRAS1	80144	hgsc.bcm.edu	hg19	4	79186220	79186220	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	FRAS1	NM_001166133	exon7	c.G645T	p.Q215H	CCCGCAGTGCTCT	.	98.0	6.0	97.0	0.0	.	779	.	.	Atlas-SNP
ANXA3	306	hgsc.bcm.edu	hg19	4	79512700	79512700	+	Missense_Mutation	SNP	T	T	C	rs376948856	bycluster	TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ANXA3	NM_005139	exon7	c.T406C	p.Y136H	TCAGTATACAAGA	.	84.0	4.0	101.0	0.0	.	35	.	.	Atlas-SNP
SEC31A	22872	hgsc.bcm.edu	hg19	4	83791555	83791555	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SEC31A	NM_001077206	exon8	c.A805G	p.S269G	CCATGCTCCAAGC	.	77.0	4.0	70.0	0.0	.	227	.	.	Atlas-SNP
HELQ	113510	hgsc.bcm.edu	hg19	4	84368176	84368176	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	HELQ	NM_133636	exon4	c.T1204C	p.S402P	AACTTGACAAACC	.	95.0	4.0	95.0	0.0	.	95	.	.	Atlas-SNP
WDFY3	23001	hgsc.bcm.edu	hg19	4	85722810	85722810	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	WDFY3,NS,carcinoma,0,1	WDFY3	NM_014991	exon17	c.G2815T	p.V939L	TCAACACCATGGG	.	47.0	2.0	45.0	0.0	.	314	.	.	Atlas-SNP
MTTP	4547	hgsc.bcm.edu	hg19	4	100532580	100532580	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MTTP	NM_000253	exon15	c.C1959T	p.Y653Y	TCAGTACATTGGG	.	142.0	68.0	144.0	0.0	.	127	.	.	Atlas-SNP
SGMS2	166929	hgsc.bcm.edu	hg19	4	108817100	108817100	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SGMS2	NM_001136257	exon2	c.T391C	p.S131P	TCTGTATCAGAAA	.	121.0	5.0	109.0	0.0	.	39	.	.	Atlas-SNP
HADH	3033	hgsc.bcm.edu	hg19	4	108940796	108940796	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	HADH	NM_005327	exon4	c.C520T	p.P174S	TTCAACCCAGTGC	.	111.0	55.0	121.0	0.0	.	40	.	.	Atlas-SNP
PDE5A	8654	hgsc.bcm.edu	hg19	4	120528278	120528278	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PDE5A	NM_001083	exon2	c.T327C	p.P109P	TCTAAGAGGCCGG	.	76.0	4.0	75.0	0.0	.	83	.	.	Atlas-SNP
FAT4	79633	hgsc.bcm.edu	hg19	4	126240400	126240400	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	FAT4	NM_024582	exon1	c.A2834G	p.K945R	ATGAAAAGAATGG	.	83.0	5.0	114.0	0.0	.	1752	.	.	Atlas-SNP
SORBS2	8470	hgsc.bcm.edu	hg19	4	186567931	186567931	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SORBS2	NM_001145673	exon11	c.A1112G	p.D371G	TCCCAGTCATGCC	.	69.0	4.0	75.0	0.0	.	300	.	.	Atlas-SNP
FAT1	2195	hgsc.bcm.edu	hg19	4	187538165	187538165	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	FAT1	NM_005245	exon11	c.T9069C	p.C3023C	CTTTTCACAAACT	.	131.0	6.0	190.0	0.0	.	500	.	.	Atlas-SNP
PDZD2	23037	hgsc.bcm.edu	hg19	5	32089623	32089623	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PDZD2	NM_178140	exon19	c.A6069G	p.R2023R	GTGTAGAGCAGAG	.	57.0	4.0	36.0	0.0	.	306	.	.	Atlas-SNP
DHX29	54505	hgsc.bcm.edu	hg19	5	54563641	54563641	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	DHX29	NM_019030	exon22	c.G3304A	p.A1102T	CTGCAGCTAGTGT	.	68.0	32.0	66.0	0.0	.	116	.	.	Atlas-SNP
IL31RA	133396	hgsc.bcm.edu	hg19	5	55212851	55212851	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	IL31RA	NM_139017	exon15	c.A2198G	p.E733G	TGTGTGAGGAAGG	.	100.0	4.0	108.0	0.0	.	84	.	.	Atlas-SNP
ARHGEF28	64283	hgsc.bcm.edu	hg19	5	73076546	73076546	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	NP_001073948_1,NS,carcinoma,0,2	.	NM_001080479	exon7	c.T886C	p.S296P	ATGCCCTCCAGCG	.	60.0	3.0	56.0	0.0	.	.	.	.	Atlas-SNP
SLCO6A1	133482	hgsc.bcm.edu	hg19	5	101794140	101794140	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SLCO6A1	NM_173488	exon6	c.A1077G	p.R359R	TTTAAGTCTGCTG	.	109.0	5.0	108.0	0.0	.	153	.	.	Atlas-SNP
ACSL6	23305	hgsc.bcm.edu	hg19	5	131296298	131296298	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ACSL6	NM_001009185	exon19	c.T1874C	p.I625T	ACAACAATGCCTA	.	92.0	4.0	107.0	0.0	.	169	.	.	Atlas-SNP
PSD2	84249	hgsc.bcm.edu	hg19	5	139216497	139216497	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PSD2	NM_032289	exon10	c.T1505C	p.F502S	ACCCCTTCCTGGA	.	106.0	6.0	108.0	0.0	.	88	.	.	Atlas-SNP
PCDHB10	56126	hgsc.bcm.edu	hg19	5	140574361	140574361	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PCDHB10	NM_018930	exon1	c.A2236G	p.T746A	GCTGAGACCCTGT	.	111.0	5.0	107.0	0.0	.	177	.	.	Atlas-SNP
PCDHGA2	56113	hgsc.bcm.edu	hg19	5	140718779	140718779	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PCDHGA2	NM_018915	exon1	c.A241G	p.S81G	CCGCGAAGCGGCA	.	158.0	7.0	160.0	0.0	.	205	.	.	Atlas-SNP
DIAPH1	1729	hgsc.bcm.edu	hg19	5	140896440	140896440	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	DIAPH1	NM_005219	exon28	c.A3797G	p.E1266G	ACCAACTCCTTGG	.	107.0	5.0	94.0	0.0	.	64	.	.	Atlas-SNP
FBXO38	81545	hgsc.bcm.edu	hg19	5	147807148	147807148	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	FBXO38	NM_030793	exon15	c.A2291G	p.E764G	CCATGGAGGAGGG	.	99.0	6.0	87.0	0.0	.	115	.	.	Atlas-SNP
PDGFRB	5159	hgsc.bcm.edu	hg19	5	149500490	149500490	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	PDGFRB,colon,carcinoma,0,1	PDGFRB	NM_002609	exon18	c.A2547G	p.R849R	GATGTCTCGAGCC	.	212.0	9.0	226.0	2.0	.	142	.	.	Atlas-SNP
CAMK2A	815	hgsc.bcm.edu	hg19	5	149652691	149652691	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CAMK2A	NM_171825	exon2	c.A94G	p.K32E	GCACCTTCACACA	.	149.0	6.0	157.0	0.0	.	42	.	.	Atlas-SNP
HNRNPH1	3187	hgsc.bcm.edu	hg19	5	179041962	179041962	+	Splice_Site	SNP	T	T	C	rs113642265	bycluster	TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	HNRNPH1	NM_005520	exon15	c.1351-2A>G	.	GTTACCTGCAAAG	.	120.0	5.0	119.0	0.0	.	62	.	A|1.000	Atlas-SNP
TBC1D9B	23061	hgsc.bcm.edu	hg19	5	179331759	179331759	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TBC1D9B	NM_198868	exon2	c.C172T	p.P58S	GGTAAGGGGCCAC	.	133.0	64.0	182.0	0.0	.	157	.	.	Atlas-SNP
TBC1D9B	23061	hgsc.bcm.edu	hg19	5	179331760	179331760	+	Silent	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TBC1D9B	NM_198868	exon2	c.C171T	p.A57A	GTAAGGGGCCACG	.	133.0	64.0	187.0	0.0	.	157	.	.	Atlas-SNP
FAM50B	26240	hgsc.bcm.edu	hg19	6	3850605	3850605	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	FAM50B	NM_012135	exon2	c.T560C	p.V187A	TGGAGGTCACCTT	.	121.0	5.0	58.0	0.0	.	44	.	.	Atlas-SNP
SYCP2L	221711	hgsc.bcm.edu	hg19	6	10928640	10928640	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	SYCP2L,right_lower_lobe,carcinoma,0,1	SYCP2L	NM_001040274	exon18	c.A1445G	p.Q482R	AGCTTCAGCCGGT	.	68.0	3.0	38.0	0.0	.	101	.	.	Atlas-SNP
OR2W1	26692	hgsc.bcm.edu	hg19	6	29012812	29012812	+	Silent	SNP	A	A	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	OR2W1	NM_030903	exon1	c.T141G	p.L47L	AGATGCAAGAATG	.	408.0	37.0	244.0	0.0	.	36	.	.	Atlas-SNP
SKIV2L	6499	hgsc.bcm.edu	hg19	6	31933561	31933561	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SKIV2L	NM_006929	exon18	c.T1973C	p.V658A	CCCAGGTCTTGTT	.	144.0	7.0	119.0	0.0	.	97	.	.	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	hg19	6	38825330	38825330	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	DNAH8_ENST00000359357,NS,carcinoma,0,2	DNAH8	NM_001206927	exon42	c.G5770T	p.D1924Y	ACACACGATTCAG	.	363.0	0.0	220.0	0.0	.	1239	.	.	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	hg19	6	38851761	38851761	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	DNAH8	NM_001206927	exon56	c.A8246G	p.E2749G	TTAATGAGTGGGG	.	92.0	4.0	54.0	0.0	.	1239	.	.	Atlas-SNP
EFHC1	114327	hgsc.bcm.edu	hg19	6	52303151	52303151	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	EFHC1	NM_018100	exon3	c.A335G	p.E112G	CAACTGAGGAACA	.	87.0	4.0	71.0	0.0	.	68	.	.	Atlas-SNP
TRAM2	9697	hgsc.bcm.edu	hg19	6	52370844	52370844	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TRAM2	NM_012288	exon8	c.A717G	p.E239E	GTTGTTTTCATCT	.	96.0	4.0	95.0	0.0	.	27	.	.	Atlas-SNP
DST	667	hgsc.bcm.edu	hg19	6	56497659	56497659	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	DST	NM_001723	exon14	c.A2187G	p.A729A	TCTTTCTGCAGAT	.	128.0	47.0	92.0	0.0	.	1427	.	.	Atlas-SNP
COL9A1	1297	hgsc.bcm.edu	hg19	6	70991132	70991132	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	COL9A1	NM_001851	exon8	c.T837C	p.P279P	GCCCGGAGGCCCG	.	104.0	5.0	90.0	0.0	.	228	.	.	Atlas-SNP
COL12A1	1303	hgsc.bcm.edu	hg19	6	75801079	75801079	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	COL12A1	NM_004370	exon62	c.G8712A	p.M2904I	TGCTCGCATCATG	.	79.0	4.0	72.0	0.0	.	385	.	.	Atlas-SNP
NUS1	116150	hgsc.bcm.edu	hg19	6	118024821	118024821	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NUS1	NM_138459	exon4	c.A745G	p.S249G	GTGGACAGCACAT	.	135.0	6.0	105.0	0.0	.	15	.	.	Atlas-SNP
TRDN	10345	hgsc.bcm.edu	hg19	6	123653052	123653052	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	TRDN,colon,carcinoma,0,1	TRDN	NM_006073	exon23	c.G1443A	p.E481E	AACTTTCTCTTCT	.	68.0	3.0	58.0	0.0	.	88	.	.	Atlas-SNP
LAMA2	3908	hgsc.bcm.edu	hg19	6	129465145	129465145	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	LAMA2,NS,carcinoma,-1,1	LAMA2	NM_000426	exon5	c.A739G	p.R247G	TTTCAGAGGATCC	.	143.0	6.0	110.0	2.0	.	481	.	.	Atlas-SNP
MYB	4602	hgsc.bcm.edu	hg19	6	135517124	135517124	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MYB	NM_001161659	exon9	c.T1187C	p.L396P	AAACACTCCAATT	.	83.0	5.0	69.0	0.0	.	137	.	.	Atlas-SNP
IFNGR1	3459	hgsc.bcm.edu	hg19	6	137528138	137528138	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	IFNGR1	NM_000416	exon2	c.A162G	p.P54P	GACCTGTGGCATG	.	93.0	4.0	86.0	0.0	.	46	.	.	Atlas-SNP
TXLNB	167838	hgsc.bcm.edu	hg19	6	139576758	139576758	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TXLNB	NM_153235	exon7	c.A1020G	p.A340A	CCACTCTGCTGCC	.	98.0	4.0	103.0	0.0	.	96	.	.	Atlas-SNP
NMBR	4829	hgsc.bcm.edu	hg19	6	142400004	142400004	+	Silent	SNP	C	C	T	rs149123905		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NMBR	NM_002511	exon2	c.G459A	p.T153T	CCCTGACGTCTGC	.	160.0	20.0	134.0	0.0	.	62	.	C|1.000;T|0.000	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	hg19	6	152665262	152665262	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	SYNE1_ENST00000423061,colon,carcinoma,-1,3	SYNE1	NM_182961	exon74	c.A12179T	p.E4060V	CTTGGCTCTAAAT	.	149.0	0.0	130.0	0.0	.	3227	.	.	Atlas-SNP
SYNE1	23345	hgsc.bcm.edu	hg19	6	152740820	152740820	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SYNE1	NM_033071	exon40	c.C5326A	p.Q1776K	CAAATTGCTGGTG	.	247.0	80.0	189.0	0.0	.	3227	.	.	Atlas-SNP
ARID1B	57492	hgsc.bcm.edu	hg19	6	157099208	157099208	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ARID1B	NM_017519	exon1	c.T145C	p.S49P	GCATCCTCTTCCT	.	84.0	6.0	70.0	0.0	.	320	.	.	Atlas-SNP
IGF2R	3482	hgsc.bcm.edu	hg19	6	160511067	160511067	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	IGF2R	NM_000876	exon44	c.T6587C	p.V2196A	GCCAGGTGAAGCC	.	150.0	6.0	129.0	0.0	.	251	.	.	Atlas-SNP
LPA	4018	hgsc.bcm.edu	hg19	6	161027527	161027527	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	LPA	NM_005577	exon18	c.G2767A	p.E923K	GAGCCTCTAGGCT	.	112.0	5.0	111.0	0.0	.	237	.	.	Atlas-SNP
UNC93A	54346	hgsc.bcm.edu	hg19	6	167711454	167711454	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	UNC93A	NM_018974	exon4	c.T521C	p.L174P	AGCAGCTCACGTC	.	98.0	5.0	82.0	0.0	.	66	.	.	Atlas-SNP
C6orf70	55780	hgsc.bcm.edu	hg19	6	170176070	170176070	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	C6orf70	NM_018341	exon15	c.T1429C	p.S477P	TGCCACTCTTTGA	.	125.0	5.0	105.0	0.0	.	63	.	.	Atlas-SNP
IQCE	23288	hgsc.bcm.edu	hg19	7	2629557	2629557	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	IQCE	NM_152558	exon14	c.A1061G	p.E354G	TGATGGAGAGCTC	.	100.0	5.0	110.0	0.0	.	66	.	.	Atlas-SNP
GLI3	2737	hgsc.bcm.edu	hg19	7	42005877	42005877	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GLI3	NM_000168	exon15	c.A2794T	p.K932X	CGTACTTGGCCTT	.	111.0	9.0	68.0	0.0	.	312	.	.	Atlas-SNP
ABCA13	154664	hgsc.bcm.edu	hg19	7	48315670	48315670	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	ABCA13_ENST00000435803,NS,lymphoid_neoplasm,0,2	ABCA13	NM_152701	exon17	c.A6407G	p.E2136G	CAAATGAGGATTA	.	71.0	4.0	66.0	1.0	.	1192	.	.	Atlas-SNP
SUMF2	25870	hgsc.bcm.edu	hg19	7	56136261	56136261	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	SUMF2_ENST00000342190,NS,carcinoma,0,4	SUMF2	NM_015411	exon2	c.G211A	p.G71R	GGTGACGGGCCTG	.	112.0	0.0	98.0	0.0	.	56	.	.	Atlas-SNP
PION	54103	hgsc.bcm.edu	hg19	7	76990177	76990177	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PION	NM_017439	exon14	c.T991C	p.S331P	TGTGTGACCCAAC	.	93.0	4.0	219.0	0.0	.	74	.	.	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	hg19	7	82476475	82476475	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	PCLO_ENST00000333891,NS,carcinoma,0,2	PCLO	NM_014510	exon11	c.A13743C	p.E4581D	TTCTGCTTCCCCA	.	26.0	2.0	35.0	0.0	.	1506	.	.	Atlas-SNP
PCLO	27445	hgsc.bcm.edu	hg19	7	82578936	82578936	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PCLO	NM_014510	exon6	c.A10968G	p.V3656V	ATGCAGTACTTTC	.	90.0	4.0	175.0	0.0	.	1506	.	.	Atlas-SNP
SEMA3E	9723	hgsc.bcm.edu	hg19	7	83029465	83029465	+	Silent	SNP	T	T	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SEMA3E	NM_012431	exon11	c.A1245C	p.I415I	AGGTTTTATGGCC	.	178.0	157.0	403.0	0.0	.	125	.	.	Atlas-SNP
RBM48	84060	hgsc.bcm.edu	hg19	7	92163807	92163807	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	.	NM_032120	exon4	c.T540C	p.C180C	ATTTTGTAAAGCT	.	65.0	4.0	114.0	0.0	.	.	.	.	Atlas-SNP
TAF6	6878	hgsc.bcm.edu	hg19	7	99707891	99707891	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TAF6	NM_001190415	exon11	c.G1201A	p.V401M	CGTCCACCCAGCT	.	51.0	4.0	119.0	0.0	.	55	.	.	Atlas-SNP
EPHB4	2050	hgsc.bcm.edu	hg19	7	100417891	100417891	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	EPHB4	NM_004444	exon5	c.T836C	p.L279P	CCTGACAGGGGCT	.	42.0	4.0	74.0	0.0	.	106	.	.	Atlas-SNP
CUX1	1523	hgsc.bcm.edu	hg19	7	101833103	101833103	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CUX1	NM_001202543	exon12	c.A1061G	p.E354G	TGGAAGAAAAACT	.	100.0	4.0	162.0	0.0	.	253	.	.	Atlas-SNP
CUX1	1523	hgsc.bcm.edu	hg19	7	101837150	101837150	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	CUX1_ENST00000292538,NS,carcinoma,0,2	CUX1	NM_001202543	exon13	c.T1138A	p.S380T	GCACCGTCCGAGG	.	58.0	0.0	94.0	0.0	.	253	.	.	Atlas-SNP
MLL5	55904	hgsc.bcm.edu	hg19	7	104742347	104742347	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	MLL5,NS,carcinoma,0,1	MLL5	NM_018682	exon16	c.A1902G	p.E634E	AAAAGAAGAAAAT	.	40.0	3.0	69.0	0.0	.	173	.	.	Atlas-SNP
FOXP2	93986	hgsc.bcm.edu	hg19	7	114174697	114174697	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	FOXP2	NM_001172767	exon2	c.T194C	p.L65P	AACTTCTTTTACA	.	99.0	4.0	174.0	0.0	.	133	.	.	Atlas-SNP
CAPZA2	830	hgsc.bcm.edu	hg19	7	116557794	116557794	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CAPZA2	NM_006136	exon10	c.A734G	p.E245G	TCAGTGAGAATTA	.	94.0	5.0	161.0	0.0	.	29	.	.	Atlas-SNP
KCND2	3751	hgsc.bcm.edu	hg19	7	119915322	119915322	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	KCND2	NM_012281	exon1	c.C636T	p.S212S	ATCAAGCCCAGGT	.	98.0	4.0	225.0	0.0	.	194	.	.	Atlas-SNP
CADPS2	93664	hgsc.bcm.edu	hg19	7	122255249	122255249	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CADPS2	NM_001167940	exon6	c.A1209G	p.E403E	TGAGGCTTCGGCC	.	62.0	4.0	156.0	0.0	.	116	.	.	Atlas-SNP
GRM8	2918	hgsc.bcm.edu	hg19	7	126409939	126409939	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GRM8	NM_000845	exon6	c.T1337C	p.I446T	GCCCGAATATAAC	.	61.0	4.0	128.0	0.0	.	377	.	.	Atlas-SNP
CHRM2	1129	hgsc.bcm.edu	hg19	7	136699964	136699964	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CHRM2	NM_001006632	exon3	c.A352G	p.S118G	ATCATCAGCTTTG	.	97.0	4.0	195.0	0.0	.	167	.	.	Atlas-SNP
OR9A4	130075	hgsc.bcm.edu	hg19	7	141618691	141618691	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	OR9A4	NM_001001656	exon1	c.T16C	p.S6P	AATTACTCTAGTG	.	85.0	4.0	138.0	0.0	.	58	.	.	Atlas-SNP
PRKAG2	51422	hgsc.bcm.edu	hg19	7	151372542	151372542	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PRKAG2	NM_016203	exon4	c.A648G	p.P216P	TGCCAGTGGAGGC	.	71.0	59.0	162.0	0.0	.	86	.	.	Atlas-SNP
CSMD1	64478	hgsc.bcm.edu	hg19	8	3216824	3216824	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CSMD1	NM_033225	exon21	c.G3154T	p.A1052S	TGAAGGCAGGGAC	.	86.0	72.0	151.0	0.0	.	1469	.	.	Atlas-SNP
RP1L1	94137	hgsc.bcm.edu	hg19	8	10480616	10480616	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	RP1L1	NM_178857	exon2	c.A96G	p.P32P	CTTGGCTGGCGTG	.	71.0	4.0	134.0	0.0	.	453	.	.	Atlas-SNP
MTUS1	57509	hgsc.bcm.edu	hg19	8	17611715	17611715	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MTUS1	NM_001001924	exon2	c.T1602C	p.P534P	CTGCTGAGGTCTG	.	94.0	4.0	176.0	0.0	.	144	.	.	Atlas-SNP
DPYSL2	1808	hgsc.bcm.edu	hg19	8	26435798	26435798	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	DPYSL2	NM_001386	exon1	c.C28T	p.P10S	AATATTCCACGCA	.	25.0	4.0	60.0	0.0	.	49	.	.	Atlas-SNP
SCARA5	286133	hgsc.bcm.edu	hg19	8	27823939	27823939	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SCARA5	NM_173833	exon3	c.T233C	p.I78T	GCTAAGATGAAGA	.	113.0	5.0	172.0	0.0	.	53	.	.	Atlas-SNP
ELP3	55140	hgsc.bcm.edu	hg19	8	27987036	27987036	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	ELP3,NS,carcinoma,0,1	ELP3	NM_018091	exon8	c.T635C	p.L212P	GAAGCCTCACAAA	.	72.0	3.0	130.0	1.0	.	36	.	.	Atlas-SNP
LEPROTL1	23484	hgsc.bcm.edu	hg19	8	29959445	29959445	+	Silent	SNP	C	C	T	rs372366525		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	LEPROTL1	NM_001128208	exon2	c.C48T	p.I16I	AGCAATCGGACTG	.	35.0	4.0	91.0	0.0	.	16	.	.	Atlas-SNP
UNC5D	137970	hgsc.bcm.edu	hg19	8	35606082	35606082	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	UNC5D_ENST00000404895,NS,carcinoma,0,2	UNC5D	NM_080872	exon12	c.G1804T	p.E602X	AGTCCTGAAGTCA	.	72.0	3.0	141.0	0.0	.	393	.	.	Atlas-SNP
IDO1	3620	hgsc.bcm.edu	hg19	8	39785359	39785359	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	IDO1	NM_002164	exon10	c.T867C	p.A289A	TGCTGCTCAGTTC	.	41.0	4.0	106.0	0.0	.	43	.	.	Atlas-SNP
AP3M2	10947	hgsc.bcm.edu	hg19	8	42026560	42026560	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	AP3M2,NS,carcinoma,0,1	AP3M2	NM_001134296	exon10	c.A1238G	p.K413R	CTGGGAAGTTCCA	.	36.0	2.0	68.0	0.0	.	41	.	.	Atlas-SNP
HGSNAT	138050	hgsc.bcm.edu	hg19	8	43016586	43016586	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	HGSNAT_ENST00000458501,NS,carcinoma,0,1	HGSNAT	NM_152419	exon5	c.A499G	p.S167G	GCTGTGAGCATTG	.	107.0	5.0	185.0	0.0	.	85	.	.	Atlas-SNP
EFCAB1	79645	hgsc.bcm.edu	hg19	8	49643943	49643943	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	EFCAB1	NM_024593	exon2	c.A178G	p.T60A	CAAATGTCACATG	.	109.0	6.0	186.0	0.0	.	27	.	.	Atlas-SNP
NSMAF	8439	hgsc.bcm.edu	hg19	8	59514660	59514660	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NSMAF	NM_001144772	exon14	c.A1175G	p.K392R	ACTGGCTTACTGA	.	87.0	4.0	131.0	0.0	.	156	.	.	Atlas-SNP
CSPP1	79848	hgsc.bcm.edu	hg19	8	68007674	68007674	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CSPP1	NM_024790	exon6	c.A657G	p.R219R	CCAAAGACGACTA	.	60.0	4.0	98.0	0.0	.	129	.	.	Atlas-SNP
ARFGEF1	10565	hgsc.bcm.edu	hg19	8	68178248	68178248	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	ARFGEF1,NS,carcinoma,0,1	ARFGEF1	NM_006421	exon14	c.A2116G	p.I706V	AATCTATCCCTTG	.	80.0	4.0	176.0	0.0	.	196	.	.	Atlas-SNP
GDAP1	54332	hgsc.bcm.edu	hg19	8	75276266	75276266	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GDAP1	NM_018972	exon6	c.A741G	p.A247A	CCTGGCAGACGTC	.	53.0	4.0	85.0	0.0	.	36	.	.	Atlas-SNP
CRISPLD1	83690	hgsc.bcm.edu	hg19	8	75929308	75929308	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CRISPLD1	NM_031461	exon9	c.A956G	p.D319G	GTTTGGATAGTAA	.	45.0	4.0	102.0	0.0	.	94	.	.	Atlas-SNP
ZFHX4	79776	hgsc.bcm.edu	hg19	8	77616580	77616580	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	ZFHX4,NS,carcinoma,0,1	ZFHX4	NM_024721	exon2	c.C257T	p.A86V	AATGTGCCACTTC	.	72.0	3.0	153.0	0.0	.	878	.	.	Atlas-SNP
IL7	3574	hgsc.bcm.edu	hg19	8	79652274	79652274	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	IL7,colon,carcinoma,0,1	IL7	NM_000880	exon3	c.T191C	p.F64S	AAGTTAAATTCAT	.	55.0	3.0	161.0	0.0	.	12	.	.	Atlas-SNP
VPS13B	157680	hgsc.bcm.edu	hg19	8	100790967	100790967	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	VPS13B	NM_017890	exon42	c.A7562G	p.E2521G	AACTAGAATACAT	.	109.0	5.0	222.0	0.0	.	811	.	.	Atlas-SNP
PKHD1L1	93035	hgsc.bcm.edu	hg19	8	110539227	110539227	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PKHD1L1	NM_177531	exon77	c.T12699C	p.V4233V	TGCAGTTTCAACT	.	98.0	4.0	164.0	0.0	.	522	.	.	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	hg19	8	113317079	113317079	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CSMD3	NM_198123	exon52	c.T8137C	p.S2713P	AATGGGAGCCATT	.	91.0	5.0	187.0	0.0	.	2325	.	.	Atlas-SNP
CSMD3	114788	hgsc.bcm.edu	hg19	8	113364738	113364738	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CSMD3	NM_198123	exon39	c.A6162G	p.E2054E	TTGTGGTTCAGGA	.	86.0	4.0	168.0	0.0	.	2325	.	.	Atlas-SNP
ATAD2	29028	hgsc.bcm.edu	hg19	8	124371920	124371920	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ATAD2	NM_014109	exon10	c.T1163C	p.L388P	AGTGGGAGGCACC	.	62.0	4.0	89.0	0.0	.	160	.	.	Atlas-SNP
ZNF572	137209	hgsc.bcm.edu	hg19	8	125988660	125988660	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	ZNF572,NS,carcinoma,0,1	ZNF572	NM_152412	exon3	c.A150G	p.K50K	AGAGAAACCTTCA	.	60.0	3.0	100.0	0.0	.	82	.	.	Atlas-SNP
GSDMC	56169	hgsc.bcm.edu	hg19	8	130788517	130788517	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GSDMC	NM_031415	exon3	c.G235A	p.G79R	ACGGTCCTGTCAC	.	78.0	4.0	127.0	0.0	.	71	.	.	Atlas-SNP
EFR3A	23167	hgsc.bcm.edu	hg19	8	132991670	132991670	+	Splice_Site	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	EFR3A	NM_015137	exon14	c.1575+2T>C	.	AAAAGGTAAGACA	.	52.0	4.0	143.0	0.0	.	96	.	.	Atlas-SNP
KCNQ3	3786	hgsc.bcm.edu	hg19	8	133198356	133198356	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	KCNQ3	NM_004519	exon2	c.A459G	p.G153G	CCAGTCTCCCGAG	.	69.0	5.0	155.0	0.0	.	164	.	.	Atlas-SNP
TG	7038	hgsc.bcm.edu	hg19	8	133941385	133941385	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TG	NM_003235	exon23	c.T4764C	p.A1588A	TGTGGCTGTCAGA	.	93.0	4.0	149.0	0.0	.	416	.	.	Atlas-SNP
HSF1	3297	hgsc.bcm.edu	hg19	8	145535035	145535035	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	HSF1	NM_005526	exon6	c.A593G	p.Q198R	TGGTGCAGTCAAA	.	90.0	5.0	128.0	0.0	.	29	.	.	Atlas-SNP
TONSL	4796	hgsc.bcm.edu	hg19	8	145666353	145666353	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	TONSL_ENST00000409379,NS,carcinoma,0,2	TONSL	NM_013432	exon8	c.A1007G	p.K336R	ACCTGCTTCTGGT	.	81.0	4.0	187.0	0.0	.	128	.	.	Atlas-SNP
DOCK8	81704	hgsc.bcm.edu	hg19	9	434865	434865	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	DOCK8	NM_203447	exon39	c.T4969C	p.C1657R	AAGAAGTGCTACA	.	80.0	4.0	109.0	0.0	.	401	.	.	Atlas-SNP
ERMP1	79956	hgsc.bcm.edu	hg19	9	5832863	5832863	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ERMP1	NM_024896	exon1	c.G165A	p.G55G	GCTACCCCCGGGG	.	5.0	5.0	0.0	0.0	.	63	.	.	Atlas-SNP
CCDC171	203238	hgsc.bcm.edu	hg19	9	15777602	15777602	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	.	NM_173550	exon19	c.A2676G	p.P892P	AGATCCAAATTCC	.	38.0	4.0	57.0	0.0	.	.	.	.	Atlas-SNP
IFNB1	3456	hgsc.bcm.edu	hg19	9	21077802	21077802	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	IFNB1	NM_002176	exon1	c.A67G	p.S23G	TGTAGCTCATGGA	.	101.0	5.0	122.0	0.0	.	33	.	.	Atlas-SNP
ELAVL2	1993	hgsc.bcm.edu	hg19	9	23731087	23731087	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ELAVL2	NM_001171195	exon3	c.A266G	p.D89G	TTGGGGTCAATGT	.	89.0	4.0	108.0	0.0	.	80	.	.	Atlas-SNP
LINGO2	158038	hgsc.bcm.edu	hg19	9	27950199	27950199	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	LINGO2	NM_001258282	exon7	c.T471C	p.S157S	TTCTAGAGACTTC	.	94.0	5.0	106.0	0.0	.	244	.	.	Atlas-SNP
NDUFB6	4712	hgsc.bcm.edu	hg19	9	32572964	32572964	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	NDUFB6,caecum,carcinoma,0,1	NDUFB6	NM_001199987	exon1	c.A95G	p.E32G	ACCGGCTCCCGAG	.	35.0	2.0	39.0	1.0	.	12	.	.	Atlas-SNP
TMEM215	401498	hgsc.bcm.edu	hg19	9	32784212	32784212	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TMEM215	NM_212558	exon2	c.G31T	p.G11W	AGGACTGGGCTGG	.	433.0	180.0	388.0	1.0	.	38	.	.	Atlas-SNP
PIGO	84720	hgsc.bcm.edu	hg19	9	35092757	35092757	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	PIGO,NS,carcinoma,0,1	PIGO	NM_001201484	exon8	c.G1127A	p.R376Q	AGAAATCGGGACA	.	49.0	2.0	55.0	0.0	.	86	.	.	Atlas-SNP
FRMPD1	22844	hgsc.bcm.edu	hg19	9	37745568	37745568	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	FRMPD1	NM_014907	exon16	c.A3539G	p.D1180G	CTAGAGACCCTCA	.	89.0	4.0	68.0	0.0	.	237	.	.	Atlas-SNP
PRKACG	5568	hgsc.bcm.edu	hg19	9	71628966	71628966	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PRKACG	NM_002732	exon1	c.A43G	p.S15G	TCACGCTCTCCTC	.	90.0	4.0	127.0	0.0	.	65	.	.	Atlas-SNP
ANXA1	301	hgsc.bcm.edu	hg19	9	75775231	75775231	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ANXA1	NM_000700	exon5	c.T323C	p.V108A	AGGTTGTTTTAGC	.	93.0	4.0	98.0	0.0	.	27	.	.	Atlas-SNP
ERCC6L2	375748	hgsc.bcm.edu	hg19	9	98691001	98691001	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	.	NM_001010895	exon11	c.T1639C	p.L547L	GTCTAGTTGCTTG	.	103.0	5.0	87.0	0.0	.	.	.	.	Atlas-SNP
SVEP1	79987	hgsc.bcm.edu	hg19	9	113171160	113171160	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SVEP1	NM_153366	exon38	c.T6720C	p.S2240S	TACAGGACTTCCG	.	74.0	4.0	42.0	0.0	.	326	.	.	Atlas-SNP
KIAA1958	158405	hgsc.bcm.edu	hg19	9	115422320	115422320	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	KIAA1958	NM_133465	exon4	c.A2122G	p.R708G	TCCCGGAGGCTTG	.	78.0	4.0	74.0	0.0	.	52	.	.	Atlas-SNP
DFNB31	25861	hgsc.bcm.edu	hg19	9	117186678	117186678	+	Missense_Mutation	SNP	C	C	G	rs117352600	bycluster;by1000genomes;alternate_allele	TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	DFNB31,NS,carcinoma,0,1	DFNB31	NM_001173425	exon6	c.G1352C	p.G451A	CTGCCACCACGGT	.	178.0	0.0	229.0	0.0	.	100	.	C|0.997;T|0.003	Atlas-SNP
CNTRL	11064	hgsc.bcm.edu	hg19	9	123858738	123858738	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CNTRL	NM_007018	exon4	c.A518G	p.K173R	TGCAAAAGCTTAA	.	85.0	4.0	76.0	0.0	.	161	.	.	Atlas-SNP
CNTRL	11064	hgsc.bcm.edu	hg19	9	123924501	123924501	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CNTRL	NM_007018	exon32	c.T5375C	p.L1792P	AAGATCTCCAAGA	.	87.0	5.0	116.0	0.0	.	161	.	.	Atlas-SNP
NEK6	10783	hgsc.bcm.edu	hg19	9	127101926	127101926	+	Silent	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NEK6	NM_001166171	exon9	c.G801T	p.L267L	GTCCCTGGGCTGT	.	238.0	10.0	257.0	0.0	.	47	.	.	Atlas-SNP
CEL	1056	hgsc.bcm.edu	hg19	9	135944115	135944115	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CEL	NM_001807	exon8	c.G961T	p.A321S	ATCCCCGCTGACC	.	651.0	122.0	833.0	1.0	.	71	.	.	Atlas-SNP
AGPAT2	10555	hgsc.bcm.edu	hg19	9	139569213	139569213	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	AGPAT2	NM_006412	exon5	c.A635G	p.N212S	TTGGTGTTGTAGA	.	53.0	4.0	64.0	0.0	.	17	.	.	Atlas-SNP
EHMT1	79813	hgsc.bcm.edu	hg19	9	140729307	140729307	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	EHMT1	NM_024757	exon27	c.A3799G	p.S1267G	CACTCGAGCGCGG	.	49.0	4.0	40.0	0.0	.	196	.	.	Atlas-SNP
CACNA1B	774	hgsc.bcm.edu	hg19	9	140878654	140878654	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CACNA1B	NM_001243812	exon13	c.T1721A	p.I574N	TTGGGATCAGTGT	.	229.0	102.0	282.0	1.0	.	266	.	.	Atlas-SNP
ITIH5	80760	hgsc.bcm.edu	hg19	10	7608182	7608182	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ITIH5	NM_030569	exon13	c.G2338T	p.V780L	CCACCACCACACT	.	158.0	64.0	198.0	0.0	.	343	.	.	Atlas-SNP
CDC123	8872	hgsc.bcm.edu	hg19	10	12280454	12280454	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CDC123	NM_006023	exon10	c.689-2A>G	.	CTTTACAGTTGTG	.	77.0	4.0	82.0	0.0	.	34	.	.	Atlas-SNP
KIF5B	3799	hgsc.bcm.edu	hg19	10	32308888	32308888	+	Splice_Site	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	KIF5B	NM_004521	exon21	c.2205-1G>A	.	TTTTGGCTGACGA	.	125.0	5.0	102.0	0.0	.	81	.	.	Atlas-SNP
CCNY	219771	hgsc.bcm.edu	hg19	10	35857995	35857995	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CCNY	NM_145012	exon10	c.T923C	p.L308P	CTCGCCTCTGCGA	.	74.0	4.0	55.0	0.0	.	22	.	.	Atlas-SNP
PPYR1	5540	hgsc.bcm.edu	hg19	10	47087681	47087681	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	PPYR1,NS,carcinoma,0,1	PPYR1	NM_005972	exon3	c.G898T	p.G300W	TGCCACGGGAACC	.	235.0	0.0	218.0	0.0	.	54	.	.	Atlas-SNP
ANK3	288	hgsc.bcm.edu	hg19	10	61822911	61822911	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ANK3	NM_020987	exon40	c.A12553G	p.S4185G	CAAAACTTCTGGT	.	90.0	5.0	86.0	0.0	.	703	.	.	Atlas-SNP
RHOBTB1	9886	hgsc.bcm.edu	hg19	10	62671170	62671170	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	RHOBTB1	NM_014836	exon3	c.A131G	p.Q44R	AGCAGCTGATACT	.	111.0	5.0	109.0	0.0	.	61	.	.	Atlas-SNP
VPS26A	9559	hgsc.bcm.edu	hg19	10	70917887	70917887	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	VPS26A	NM_004896	exon5	c.T471C	p.Y157Y	CACCTATCCTGAT	.	87.0	4.0	107.0	0.0	.	24	.	.	Atlas-SNP
C10orf54	64115	hgsc.bcm.edu	hg19	10	73515148	73515148	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	C10orf54	NM_022153	exon4	c.T644C	p.V215A	TTGTAGACCAGGA	.	100.0	4.0	98.0	0.0	.	29	.	.	Atlas-SNP
PPP3CB	5532	hgsc.bcm.edu	hg19	10	75206313	75206313	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PPP3CB	NM_001142354	exon11	c.A1208G	p.K403R	ATTTCTTTCCGGG	.	98.0	4.0	79.0	0.0	.	68	.	.	Atlas-SNP
GLUD1	2746	hgsc.bcm.edu	hg19	10	88817488	88817488	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GLUD1	NM_005271	exon11	c.T1454C	p.I485T	ATGGGAATAGTTC	.	66.0	4.0	126.0	0.0	.	30	.	.	Atlas-SNP
FAS	355	hgsc.bcm.edu	hg19	10	90768720	90768720	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	FAS	NM_152872	exon4	c.T409C	p.S137P	TGTAACTCTACTG	.	97.0	4.0	142.0	0.0	.	47	.	.	Atlas-SNP
HPSE2	60495	hgsc.bcm.edu	hg19	10	100904127	100904127	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	HPSE2_ENST00000370546,caecum,carcinoma,0,2	HPSE2	NM_001166246	exon3	c.A478G	p.K160E	TCTGTTTATCTAA	.	29.0	2.0	74.0	0.0	.	203	.	.	Atlas-SNP
FBXW4	6468	hgsc.bcm.edu	hg19	10	103427709	103427709	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	FBXW4	NM_022039	exon5	c.G704A	p.G235E	CACTGCCCCAGCC	.	47.0	4.0	98.0	0.0	.	39	.	.	Atlas-SNP
PCGF6	84108	hgsc.bcm.edu	hg19	10	105110543	105110543	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	RNF134,colon,carcinoma,0,2	PCGF6	NM_001011663	exon1	c.A281G	p.E94G	TCCTCTTCTTCCT	.	65.0	3.0	52.0	0.0	.	23	.	.	Atlas-SNP
NRAP	4892	hgsc.bcm.edu	hg19	10	115401184	115401184	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NRAP	NM_001261463	exon13	c.A1263G	p.E421E	AACTCCTTCATAG	.	94.0	4.0	170.0	0.0	.	208	.	.	Atlas-SNP
PLEKHS1	79949	hgsc.bcm.edu	hg19	10	115526208	115526208	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PLEKHS1	NM_024889	exon3	c.A67G	p.K23E	GTCTGCAAACAAG	.	79.0	4.0	178.0	0.0	.	19	.	.	Atlas-SNP
ABLIM1	3983	hgsc.bcm.edu	hg19	10	116201493	116201493	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ABLIM1	NM_002313	exon18	c.T1986C	p.N662N	AAGCCCATTTCTT	.	75.0	4.0	123.0	0.0	.	131	.	.	Atlas-SNP
GFRA1	2674	hgsc.bcm.edu	hg19	10	118029096	118029096	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GFRA1	NM_005264	exon4	c.A337G	p.N113D	GATCATTTCCTAA	.	60.0	5.0	94.0	0.0	.	107	.	.	Atlas-SNP
SLC18A2	6571	hgsc.bcm.edu	hg19	10	119015120	119015120	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SLC18A2	NM_003054	exon9	c.A847G	p.T283A	AAGGGGACACCCC	.	33.0	4.0	48.0	0.0	.	58	.	.	Atlas-SNP
PLEKHA1	59338	hgsc.bcm.edu	hg19	10	124172507	124172507	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PLEKHA1	NM_021622	exon6	c.A414G	p.Q138Q	AAAGCAAGTGTCT	.	79.0	4.0	179.0	0.0	.	33	.	.	Atlas-SNP
MKI67	4288	hgsc.bcm.edu	hg19	10	129899614	129899614	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MKI67	NM_002417	exon14	c.A9613G	p.T3205A	TTTTTGTCTTTCT	.	99.0	5.0	192.0	0.0	.	363	.	.	Atlas-SNP
TTC40	54777	hgsc.bcm.edu	hg19	10	134674359	134674359	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TTC40	NM_001200049	exon36	c.A5018G	p.E1673G	CAGAACTCCTCAC	.	76.0	4.0	109.0	0.0	.	100	.	.	Atlas-SNP
LSP1	4046	hgsc.bcm.edu	hg19	11	1904750	1904750	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	LSP1	NM_001242932	exon5	c.A842G	p.D281G	TCCAGGACAACCT	.	146.0	6.0	179.0	0.0	.	59	.	.	Atlas-SNP
FAM160A2	84067	hgsc.bcm.edu	hg19	11	6244470	6244470	+	Splice_Site	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	FAM160A2	NM_001098794	exon5	c.778-2A>G	.	AGCACCTATGAGA	.	96.0	4.0	94.0	0.0	.	100	.	.	Atlas-SNP
RASSF10	644943	hgsc.bcm.edu	hg19	11	13031942	13031942	+	Silent	SNP	G	G	T	rs375762962	alternate_allele	TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	.	NM_001080521	exon1	c.G819T	p.V273V	CTACGTGCAGGAC	.	363.0	169.0	453.0	0.0	.	.	.	.	Atlas-SNP
LDHC	3948	hgsc.bcm.edu	hg19	11	18467858	18467858	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	LDHC	NM_002301	exon7	c.A812G	p.H271R	GAGTGCACCCAGT	.	108.0	5.0	84.0	0.0	.	37	.	.	Atlas-SNP
PRDM11	56981	hgsc.bcm.edu	hg19	11	45204634	45204634	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PRDM11	NM_001256695	exon4	c.T446C	p.I149T	GGCAGATCTCCAC	.	100.0	4.0	112.0	0.0	.	53	.	.	Atlas-SNP
OR4C12	283093	hgsc.bcm.edu	hg19	11	50003747	50003747	+	Silent	SNP	A	A	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	OR4C12	NM_001005270	exon1	c.T291A	p.A97A	GGCTTGAGCCATA	.	209.0	99.0	224.0	0.0	.	82	.	.	Atlas-SNP
OR5W2	390148	hgsc.bcm.edu	hg19	11	55681562	55681562	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.,1	OR5W2	NM_001001960	exon1	c.T497C	p.L166P	AAGCATAGGCGGA	.	99.0	4.0	101.0	0.0	.	112	.	.	Atlas-SNP
P2RX3	5024	hgsc.bcm.edu	hg19	11	57114119	57114119	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	P2RX3	NM_002559	exon2	c.T221C	p.V74A	ACAGAGTCATGGA	.	144.0	6.0	138.0	0.0	.	55	.	.	Atlas-SNP
SLC22A9	114571	hgsc.bcm.edu	hg19	11	63149671	63149671	+	Missense_Mutation	SNP	A	A	C	rs76547355		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.,5	SLC22A9	NM_080866	exon6	c.A995C	p.Q332P	CAGCACAAAAAAA	.	123.0	7.0	117.0	1.0	.	77	.	A|0.500;C|0.500	Atlas-SNP
MUS81	80198	hgsc.bcm.edu	hg19	11	65632582	65632582	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MUS81	NM_025128	exon13	c.T1367C	p.F456S	TCACCTTCAGTGA	.	108.0	5.0	124.0	0.0	.	68	.	.	Atlas-SNP
C11orf80	79703	hgsc.bcm.edu	hg19	11	66581347	66581347	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	C11orf80	NM_024650	exon10	c.T1050C	p.Y350Y	TCTATATGGACCT	.	98.0	4.0	90.0	0.0	.	31	.	.	Atlas-SNP
CPT1A	1374	hgsc.bcm.edu	hg19	11	68530124	68530124	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CPT1A	NM_001876	exon15	c.G1846A	p.V616M	CCCGCACGAAGTC	.	84.0	34.0	80.0	0.0	.	89	.	.	Atlas-SNP
CTTN	2017	hgsc.bcm.edu	hg19	11	70279767	70279767	+	Missense_Mutation	SNP	G	G	T	rs144726386	bycluster;by1000genomes;alternate_allele	TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	CTTN_ENST00000376561,NS,carcinoma,0,2	CTTN	NM_005231	exon17	c.G1459T	p.D487Y	ACCTACGATGAGT	.	167.0	0.0	163.0	1.0	.	162	.	G|1.000;A|0.000	Atlas-SNP
C2CD3	26005	hgsc.bcm.edu	hg19	11	73817537	73817537	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	C2CD3	NM_015531	exon13	c.C1964T	p.P655L	ACTTCTGGCTGAG	.	99.0	4.0	111.0	0.0	.	288	.	.	Atlas-SNP
SERPINH1	871	hgsc.bcm.edu	hg19	11	75277809	75277809	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SERPINH1	NM_001235	exon2	c.T415C	p.S139P	CCCAGCTCAGTGA	.	154.0	7.0	167.0	0.0	.	33	.	.	Atlas-SNP
NAALAD2	10003	hgsc.bcm.edu	hg19	11	89892488	89892488	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NAALAD2	NM_005467	exon8	c.A972G	p.T324T	CTTTACAGGGAGT	.	126.0	6.0	122.0	0.0	.	113	.	.	Atlas-SNP
GPR83	10888	hgsc.bcm.edu	hg19	11	94113691	94113691	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GPR83	NM_016540	exon4	c.T896C	p.V299A	AAGAGGACTACCA	.	123.0	7.0	150.0	0.0	.	47	.	.	Atlas-SNP
ALKBH8	91801	hgsc.bcm.edu	hg19	11	107396182	107396182	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ALKBH8	NM_138775	exon9	c.A1015G	p.T339A	AAGGTGTTTGCCT	.	99.0	4.0	106.0	0.0	.	88	.	.	Atlas-SNP
NXPE1	120400	hgsc.bcm.edu	hg19	11	114393611	114393611	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NXPE1	NM_152315	exon5	c.A672G	p.K224K	TACAACTTTGGGG	.	96.0	4.0	118.0	0.0	.	8	.	.	Atlas-SNP
DSCAML1	57453	hgsc.bcm.edu	hg19	11	117314661	117314661	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	DSCAML1	NM_020693	exon21	c.T3983C	p.V1328A	GAGGTGACGGCGG	.	64.0	4.0	68.0	0.0	.	286	.	.	Atlas-SNP
MLL	4297	hgsc.bcm.edu	hg19	11	118377090	118377090	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MLL	NM_001197104	exon27	c.A10483G	p.S3495G	CCTAATAGCATGG	.	164.0	7.0	145.0	0.0	.	548	.	.	Atlas-SNP
HMBS	3145	hgsc.bcm.edu	hg19	11	118963697	118963697	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	HMBS	NM_000190	exon13	c.A878G	p.E293G	TACAAGAGACCAT	.	156.0	7.0	178.0	0.0	.	27	.	.	Atlas-SNP
MCAM	4162	hgsc.bcm.edu	hg19	11	119185942	119185942	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MCAM	NM_006500	exon2	c.T99C	p.P33P	CAGCTCAGGCGCA	.	66.0	5.0	83.0	0.0	.	57	.	.	Atlas-SNP
ZNF202	7753	hgsc.bcm.edu	hg19	11	123598256	123598256	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	ZNF202,bladder,carcinoma,0,1	ZNF202	NM_003455	exon8	c.G880A	p.E294K	AAGGCTCTTCCTC	.	186.0	8.0	196.0	0.0	.	72	.	.	Atlas-SNP
VWA5A	4013	hgsc.bcm.edu	hg19	11	124013240	124013240	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	VWA5A	NM_014622	exon16	c.T2115C	p.G705G	CCTAGGTATGAGT	.	90.0	40.0	103.0	0.0	.	102	.	.	Atlas-SNP
SPA17	53340	hgsc.bcm.edu	hg19	11	124551288	124551288	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SPA17	NM_017425	exon3	c.C158T	p.T53I	TAGAAACCAACTT	.	63.0	4.0	70.0	0.0	.	16	.	.	Atlas-SNP
NCAPD3	23310	hgsc.bcm.edu	hg19	11	134072792	134072792	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NCAPD3	NM_015261	exon13	c.T1534C	p.Y512H	TTTGGTAGGAAAA	.	103.0	5.0	95.0	0.0	.	141	.	.	Atlas-SNP
C12orf4	57102	hgsc.bcm.edu	hg19	12	4599703	4599703	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	C12orf4	NM_020374	exon13	c.A1551G	p.Q517Q	TAGAAATTGCACT	.	95.0	4.0	56.0	0.0	.	58	.	.	Atlas-SNP
PLCZ1	89869	hgsc.bcm.edu	hg19	12	18841042	18841042	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PLCZ1	NM_033123	exon13	c.T1572C	p.T524T	TACACGAGTCTGC	.	82.0	4.0	78.0	0.0	.	107	.	.	Atlas-SNP
PLEKHA5	54477	hgsc.bcm.edu	hg19	12	19518932	19518932	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PLEKHA5	NM_001256470	exon30	c.C3643T	p.P1215S	CATAAACCAGAAG	.	48.0	4.0	34.0	0.0	.	198	.	.	Atlas-SNP
SLCO1B7	338821	hgsc.bcm.edu	hg19	12	21207384	21207384	+	Splice_Site	SNP	A	A	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SLCO1B7	NM_001009562	exon10	c.1357-2A>C	.	ATTTTTAGGTGTT	.	179.0	28.0	122.0	0.0	.	85	.	.	Atlas-SNP
SLCO1B7	338821	hgsc.bcm.edu	hg19	12	21207385	21207385	+	Splice_Site	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SLCO1B7	NM_001009562	exon10	c.1357-1G>T	.	TTTTTAGGTGTTT	.	182.0	30.0	124.0	0.0	.	85	.	.	Atlas-SNP
PUS7L	83448	hgsc.bcm.edu	hg19	12	44132189	44132189	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PUS7L	NM_001098614	exon6	c.A1368G	p.K456K	TATGGCTTTCATC	.	95.0	5.0	77.0	0.0	.	73	.	.	Atlas-SNP
KRT84	3890	hgsc.bcm.edu	hg19	12	52771877	52771877	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	KRT84	NM_033045	exon9	c.G1744T	p.G582C	TGCGGCCGCCGCT	.	162.0	72.0	209.0	0.0	.	61	.	.	Atlas-SNP
MFSD5	84975	hgsc.bcm.edu	hg19	12	53646714	53646714	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MFSD5	NM_001170790	exon2	c.C416T	p.A139V	GAAGGGCCTGCAG	.	174.0	84.0	149.0	0.0	.	40	.	.	Atlas-SNP
GPR84	53831	hgsc.bcm.edu	hg19	12	54756956	54756956	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GPR84	NM_020370	exon2	c.T680C	p.V227A	CTGGCCACATGGT	.	97.0	41.0	95.0	0.0	.	38	.	.	Atlas-SNP
AGAP2	116986	hgsc.bcm.edu	hg19	12	58135818	58135818	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	AGAP2	NM_014770	exon1	c.A37G	p.R13G	CTGCTCTCACTGC	.	123.0	5.0	125.0	0.0	.	167	.	.	Atlas-SNP
USP15	9958	hgsc.bcm.edu	hg19	12	62696641	62696641	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	USP15	NM_001252078	exon3	c.T288C	p.G96G	TGAAGGTTGGAAT	.	112.0	5.0	96.0	0.0	.	105	.	.	Atlas-SNP
MSRB3	253827	hgsc.bcm.edu	hg19	12	65762781	65762781	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MSRB3	NM_198080	exon4	c.A288G	p.S96S	CAGGTCAGAAACC	.	97.0	5.0	172.0	0.0	.	80	.	.	Atlas-SNP
IFNG	3458	hgsc.bcm.edu	hg19	12	68553390	68553390	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	IFNG	NM_000619	exon1	c.A6G	p.K2K	TGTATATTTCATC	.	100.0	4.0	59.0	0.0	.	38	.	.	Atlas-SNP
IL26	55801	hgsc.bcm.edu	hg19	12	68619375	68619375	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	IL26	NM_018402	exon1	c.A162G	p.A54A	AATCGTTGCTTTG	.	94.0	4.0	73.0	0.0	.	32	.	.	Atlas-SNP
E2F7	144455	hgsc.bcm.edu	hg19	12	77421889	77421889	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	E2F7	NM_203394	exon11	c.T1914C	p.S638S	CTTGGGAGAGGCA	.	125.0	6.0	135.0	0.0	.	201	.	.	Atlas-SNP
OTOGL	283310	hgsc.bcm.edu	hg19	12	80722448	80722448	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	OTOGL	NM_173591	exon35	c.T4176C	p.V1392V	AAGGGTTGAAGGA	.	124.0	6.0	148.0	0.0	.	235	.	.	Atlas-SNP
HCFC2	29915	hgsc.bcm.edu	hg19	12	104461781	104461781	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	HCFC2	NM_013320	exon3	c.T369C	p.P123P	TTTACCTCCTTGT	.	76.0	4.0	54.0	0.0	.	94	.	.	Atlas-SNP
ANKRD13A	88455	hgsc.bcm.edu	hg19	12	110468463	110468463	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ANKRD13A	NM_033121	exon12	c.T1248C	p.F416F	CTTGTTTCATGTC	.	29.0	4.0	53.0	0.0	.	39	.	.	Atlas-SNP
RNFT2	84900	hgsc.bcm.edu	hg19	12	117290508	117290508	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	RNFT2	NM_032814	exon11	c.A1254G	p.A418A	AAGTGCAGGTGTG	.	104.0	5.0	105.0	0.0	.	28	.	.	Atlas-SNP
SBNO1	55206	hgsc.bcm.edu	hg19	12	123813423	123813423	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	SBNO1,NS,carcinoma,0,1	SBNO1	NM_001167856	exon9	c.C1154A	p.S385Y	TTGGAAGAAATTT	.	33.0	2.0	37.0	0.0	.	138	.	.	Atlas-SNP
GJB6	10804	hgsc.bcm.edu	hg19	13	20797265	20797265	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GJB6	NM_001110220	exon4	c.G355A	p.E119K	TGTCCTCTATGTC	.	51.0	4.0	84.0	0.0	.	33	.	.	Atlas-SNP
XPO4	64328	hgsc.bcm.edu	hg19	13	21442811	21442811	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	XPO4	NM_022459	exon2	c.A99G	p.Q33Q	CTGGCGTTGTTCA	.	102.0	5.0	71.0	0.0	.	153	.	.	Atlas-SNP
NBEA	26960	hgsc.bcm.edu	hg19	13	35756614	35756614	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NBEA	NM_015678	exon29	c.A4780G	p.S1594G	ACTGGAAGCCAAC	.	87.0	4.0	126.0	0.0	.	340	.	.	Atlas-SNP
STOML3	161003	hgsc.bcm.edu	hg19	13	39542653	39542653	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	STOML3	NM_145286	exon6	c.A535G	p.T179A	GTTCGGTGGCATC	.	50.0	4.0	96.0	0.0	.	47	.	.	Atlas-SNP
SLC25A30	253512	hgsc.bcm.edu	hg19	13	45973083	45973083	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SLC25A30	NM_001010875	exon8	c.T745C	p.L249L	GTAACAAGCAATC	.	61.0	4.0	116.0	0.0	.	24	.	.	Atlas-SNP
WDFY2	115825	hgsc.bcm.edu	hg19	13	52301856	52301856	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	WDFY2	NM_052950	exon6	c.A528G	p.S176S	CCACTCAGGCCAA	.	99.0	4.0	101.0	0.0	.	36	.	.	Atlas-SNP
BORA	79866	hgsc.bcm.edu	hg19	13	73320191	73320191	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	C13orf34,NS,carcinoma,0,1	.	NM_024808	exon9	c.A848G	p.Q283R	AATTTCAGATAGG	.	91.0	5.0	137.0	0.0	.	.	.	.	Atlas-SNP
PIBF1	10464	hgsc.bcm.edu	hg19	13	73366611	73366611	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PIBF1	NM_006346	exon3	c.T279C	p.N93N	ACTTAATGATGCA	.	95.0	4.0	138.0	0.0	.	65	.	.	Atlas-SNP
SCEL	8796	hgsc.bcm.edu	hg19	13	78176797	78176797	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SCEL	NM_144777	exon17	c.A986G	p.N329S	GACAAAATCTCGA	.	94.0	4.0	118.0	0.0	.	85	.	.	Atlas-SNP
DOCK9	23348	hgsc.bcm.edu	hg19	13	99537983	99537983	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	DOCK9	NM_001130049	exon20	c.A2242G	p.R748G	CATCCCTCTTCTT	.	100.0	4.0	122.0	0.0	.	311	.	.	Atlas-SNP
GPR183	1880	hgsc.bcm.edu	hg19	13	99947814	99947814	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GPR183	NM_004951	exon2	c.A586G	p.I196V	GCAGAATCCAGGG	.	144.0	6.0	180.0	0.0	.	38	.	.	Atlas-SNP
ANKRD10	55608	hgsc.bcm.edu	hg19	13	111532117	111532117	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ANKRD10	NM_017664	exon6	c.A1130G	p.Y377C	CCGTGGTAGTGTC	.	77.0	4.0	80.0	0.0	.	24	.	.	Atlas-SNP
MCF2L	23263	hgsc.bcm.edu	hg19	13	113739231	113739231	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MCF2L	NM_001112732	exon19	c.A2087G	p.K696R	ATGAGAAGTACTG	.	81.0	4.0	123.0	0.0	.	182	.	.	Atlas-SNP
SYNE2	23224	hgsc.bcm.edu	hg19	14	64600817	64600817	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SYNE2	NM_182914	exon78	c.T14545C	p.S4849P	TATGCATCTCTTG	.	75.0	4.0	142.0	0.0	.	577	.	.	Atlas-SNP
ESR2	2100	hgsc.bcm.edu	hg19	14	64727316	64727316	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ESR2	NM_001214902	exon4	c.T803C	p.L268P	AGCACTAGCTGCT	.	94.0	4.0	170.0	0.0	.	82	.	.	Atlas-SNP
NEK9	91754	hgsc.bcm.edu	hg19	14	75563856	75563856	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NEK9	NM_033116	exon17	c.T2120C	p.L707P	TGATGCAGAGATC	.	68.0	4.0	89.0	0.0	.	64	.	.	Atlas-SNP
SPATA7	55812	hgsc.bcm.edu	hg19	14	88899513	88899513	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	SPATA7,NS,carcinoma,0,1	SPATA7	NM_018418	exon10	c.G1117A	p.D373N	ATTGAAGATGTAA	.	40.0	2.0	60.0	0.0	.	58	.	.	Atlas-SNP
UNC79	57578	hgsc.bcm.edu	hg19	14	94155183	94155183	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	UNC79	NM_020818	exon45	c.A6668G	p.Q2223R	TGCAGCAAGGGTA	.	77.0	5.0	122.0	0.0	.	366	.	.	Atlas-SNP
UNC79	57578	hgsc.bcm.edu	hg19	14	94158267	94158267	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	UNC79	NM_020818	exon47	c.T7031C	p.L2344P	GCATCCTTCAGCT	.	72.0	4.0	159.0	0.0	.	366	.	.	Atlas-SNP
SERPINA6	866	hgsc.bcm.edu	hg19	14	94776279	94776279	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SERPINA6	NM_001756	exon3	c.A678G	p.T226T	CACAGTTGTCTCG	.	76.0	4.0	126.0	0.0	.	102	.	.	Atlas-SNP
PPP2R5C	5527	hgsc.bcm.edu	hg19	14	102252487	102252487	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PPP2R5C	NM_001161726	exon3	c.A226G	p.N76D	AGCAATAATAGAG	.	100.0	4.0	178.0	0.0	.	74	.	.	Atlas-SNP
TRMT61A	115708	hgsc.bcm.edu	hg19	14	103999139	103999139	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TRMT61A	NM_152307	exon3	c.A552G	p.S184S	CCCATCACCCTGG	.	98.0	4.0	180.0	0.0	.	15	.	.	Atlas-SNP
NDN	4692	hgsc.bcm.edu	hg19	15	23931946	23931946	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NDN	NM_002487	exon1	c.T419C	p.L140P	CGCCGGAGGATGC	.	94.0	4.0	91.0	0.0	.	79	.	.	Atlas-SNP
FMN1	342184	hgsc.bcm.edu	hg19	15	33194132	33194132	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	FMN1	NM_001103184	exon9	c.A2818G	p.I940V	TGATGATCTCTAC	.	116.0	5.0	68.0	0.0	.	174	.	.	Atlas-SNP
SPRED1	161742	hgsc.bcm.edu	hg19	15	38643506	38643506	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SPRED1	NM_152594	exon7	c.A976G	p.R326G	AAACGAAGAAAAG	.	98.0	4.0	56.0	0.0	.	51	.	.	Atlas-SNP
KNSTRN	90417	hgsc.bcm.edu	hg19	15	40678607	40678607	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	.	NM_033286	exon3	c.T349C	p.S117P	GTTAGGTCCAAAG	.	183.0	9.0	108.0	0.0	.	.	.	.	Atlas-SNP
C15orf43	145645	hgsc.bcm.edu	hg19	15	45250636	45250636	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	C15orf43	NM_152448	exon3	c.C212T	p.A71V	TCTCTGCGGTAGC	.	141.0	73.0	117.0	0.0	.	19	.	.	Atlas-SNP
DTWD1	56986	hgsc.bcm.edu	hg19	15	49917370	49917370	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	DTWD1	NM_001144955	exon2	c.T6C	p.S2S	AATGTCTCTCAAT	.	94.0	4.0	112.0	0.0	.	22	.	.	Atlas-SNP
ADAM10	102	hgsc.bcm.edu	hg19	15	58902675	58902675	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ADAM10	NM_001110	exon14	c.A1846G	p.S616G	GCCTACTCCACTG	.	149.0	8.0	118.0	0.0	.	59	.	.	Atlas-SNP
ZNF609	23060	hgsc.bcm.edu	hg19	15	64792108	64792108	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ZNF609	NM_015042	exon1	c.T490C	p.S164P	AACAGCTCATCTA	.	152.0	7.0	138.0	0.0	.	106	.	.	Atlas-SNP
NEO1	4756	hgsc.bcm.edu	hg19	15	73418808	73418808	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NEO1	NM_001172623	exon4	c.G775T	p.V259F	CCCTTAGTCAGAG	.	89.0	5.0	64.0	0.0	.	102	.	.	Atlas-SNP
CYP1A1	1543	hgsc.bcm.edu	hg19	15	75015113	75015113	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CYP1A1	NM_000499	exon2	c.T326C	p.L109P	GTGTAGAGGTCGG	.	86.0	4.0	78.0	0.0	.	60	.	.	Atlas-SNP
MAN2C1	4123	hgsc.bcm.edu	hg19	15	75653703	75653703	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MAN2C1	NM_001256494	exon11	c.A1238G	p.E413G	AGGCCCTCCCAGA	.	72.0	5.0	90.0	0.0	.	76	.	.	Atlas-SNP
PEAK1	0	hgsc.bcm.edu	hg19	15	77471450	77471450	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	.	NM_024776	exon5	c.A2819G	p.E940G	TCATCCTCCTCAT	.	106.0	5.0	97.0	0.0	.	.	.	.	Atlas-SNP
AP3B2	8120	hgsc.bcm.edu	hg19	15	83331627	83331627	+	Silent	SNP	C	C	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	AP3B2	NM_004644	exon22	c.G2595T	p.R865R	AGCTACCCGGTGC	.	70.0	42.0	61.0	0.0	.	103	.	.	Atlas-SNP
NMB	4828	hgsc.bcm.edu	hg19	15	85200578	85200578	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NMB	NM_205858	exon2	c.T159C	p.G53G	GAAGTGACCTGGA	.	78.0	5.0	87.0	0.0	.	14	.	.	Atlas-SNP
TICRR	90381	hgsc.bcm.edu	hg19	15	90167599	90167599	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	.	NM_152259	exon20	c.T4058C	p.L1353P	CATCTCTCTCCTG	.	56.0	4.0	53.0	0.0	.	.	.	.	Atlas-SNP
ALDH1A3	220	hgsc.bcm.edu	hg19	15	101425535	101425535	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ALDH1A3	NM_000693	exon2	c.T163C	p.S55P	AACCCTTCAACTC	.	83.0	4.0	87.0	0.0	.	61	.	.	Atlas-SNP
CCDC154	645811	hgsc.bcm.edu	hg19	16	1488735	1488735	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CCDC154	NM_001143980	exon9	c.A910G	p.S304G	GGTGGCTCTCCTG	.	83.0	4.0	90.0	0.0	.	27	.	.	Atlas-SNP
IGFALS	3483	hgsc.bcm.edu	hg19	16	1841743	1841743	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	IGFALS	NM_001146006	exon2	c.A790G	p.S264G	TCCTGCTCAGGTC	.	97.0	5.0	93.0	0.0	.	29	.	.	Atlas-SNP
SRRM2	23524	hgsc.bcm.edu	hg19	16	2814503	2814503	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SRRM2	NM_016333	exon11	c.A3974G	p.N1325S	GGGAGAACAGCTT	.	74.0	4.0	73.0	0.0	.	263	.	.	Atlas-SNP
CIITA	4261	hgsc.bcm.edu	hg19	16	11001915	11001915	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	CIITA_ENST00000324288,NS,carcinoma,0,1	CIITA	NM_000246	exon11	c.G2566A	p.G856S	GCGGCGGGCCAAG	.	148.0	0.0	154.0	0.0	.	92	.	.	Atlas-SNP
XYLT1	64131	hgsc.bcm.edu	hg19	16	17211555	17211555	+	Silent	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	XYLT1	NM_022166	exon11	c.C2505A	p.T835T	GAATTTGGTCTCT	.	216.0	107.0	218.0	0.0	.	147	.	.	Atlas-SNP
KIF22	3835	hgsc.bcm.edu	hg19	16	29810070	29810070	+	Splice_Site	SNP	T	T	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	KIF22	NM_007317	exon4	c.549+2T>G	.	AGAAGGTGAGGCC	.	84.0	5.0	109.0	0.0	.	29	.	.	Atlas-SNP
BCL7C	9274	hgsc.bcm.edu	hg19	16	30904020	30904020	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	BCL7C	NM_004765	exon4	c.G329A	p.G110D	TCTGTGCCCTTTT	.	100.0	5.0	113.0	0.0	.	30	.	.	Atlas-SNP
PHKB	5257	hgsc.bcm.edu	hg19	16	47531308	47531308	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	PHKB_ENST00000323584,NS,carcinoma,0,3	PHKB	NM_000293	exon2	c.77-2A>G	.	TCTTTTAGGCTCA	.	10.0	2.0	17.0	0.0	.	298	.	.	Atlas-SNP
N4BP1	9683	hgsc.bcm.edu	hg19	16	48595062	48595062	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	N4BP1	NM_153029	exon2	c.T1492C	p.S498P	TTGGAGAGGCAAC	.	103.0	5.0	169.0	0.0	.	121	.	.	Atlas-SNP
TPPP3	51673	hgsc.bcm.edu	hg19	16	67425009	67425009	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TPPP3	NM_016140	exon3	c.A6G	p.A2A	GCTCGCTGCCATG	.	58.0	4.0	115.0	0.0	.	13	.	.	Atlas-SNP
CENPT	80152	hgsc.bcm.edu	hg19	16	67863958	67863958	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CENPT	NM_025082	exon12	c.A896G	p.E299G	TCTGCCTCTCCTG	.	59.0	4.0	109.0	0.0	.	26	.	.	Atlas-SNP
ZFP90	146198	hgsc.bcm.edu	hg19	16	68598370	68598370	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ZFP90	NM_133458	exon4	c.A1680G	p.K560K	TGGGAAAGCCTTT	.	44.0	4.0	51.0	0.0	.	67	.	.	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7577565	7577565	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	TP53_ENST00000545858,NS,carcinoma,-1,40	TP53	NM_000546	exon7	c.A716G	p.N239S	GAACTGTTACACA	.	110.0	98.0	265.0	0.0	.	33396	.	.	Atlas-SNP
DNAH2	146754	hgsc.bcm.edu	hg19	17	7636446	7636446	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	DNAH2	NM_020877	exon4	c.T441C	p.V147V	ACCAGTTCCCATC	.	95.0	5.0	146.0	0.0	.	498	.	.	Atlas-SNP
CHD3	1107	hgsc.bcm.edu	hg19	17	7810554	7810554	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CHD3	NM_001005271	exon31	c.A4954G	p.M1652V	GAGAAGATGGAGA	.	83.0	5.0	128.0	0.0	.	169	.	.	Atlas-SNP
MYH4	4622	hgsc.bcm.edu	hg19	17	10354170	10354170	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MYH4	NM_017533	exon29	c.C3908A	p.S1303Y	AGCTGAGAAACCA	.	145.0	124.0	249.0	0.0	.	349	.	.	Atlas-SNP
MYH3	4621	hgsc.bcm.edu	hg19	17	10543929	10543929	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MYH3	NM_002470	exon20	c.T2240C	p.L747P	GATGCCAGAAGCT	.	94.0	4.0	169.0	0.0	.	227	.	.	Atlas-SNP
DNAH9	1770	hgsc.bcm.edu	hg19	17	11648192	11648192	+	Missense_Mutation	SNP	C	C	T	rs375918058		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	DNAH9,NS,carcinoma,0,1	DNAH9	NM_001372	exon31	c.C6190T	p.R2064W	CCTGACCGGCCTG	.	67.0	3.0	160.0	0.0	.	695	.	.	Atlas-SNP
SHMT1	6470	hgsc.bcm.edu	hg19	17	18232099	18232099	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SHMT1	NM_004169	exon12	c.T1417C	p.S473P	AGAGAGAGGCGAA	.	85.0	4.0	84.0	0.0	.	36	.	.	Atlas-SNP
SEBOX	645832	hgsc.bcm.edu	hg19	17	26692221	26692221	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SEBOX	NM_001080837	exon1	c.C31G	p.H11D	GGCCATGCCAGGC	.	91.0	4.0	97.0	0.0	.	20	.	.	Atlas-SNP
KIAA0100	9703	hgsc.bcm.edu	hg19	17	26948170	26948170	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	KIAA0100	NM_014680	exon28	c.A5078G	p.E1693G	TGTGCCTCAGCTG	.	123.0	5.0	99.0	0.0	.	175	.	.	Atlas-SNP
CCT6B	10693	hgsc.bcm.edu	hg19	17	33278993	33278993	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CCT6B	NM_006584	exon5	c.A590G	p.K197R	TTATGCTTCATCT	.	96.0	4.0	100.0	0.0	.	63	.	.	Atlas-SNP
ERBB2	2064	hgsc.bcm.edu	hg19	17	37863315	37863315	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	ERBB2,colon,carcinoma,0,2	ERBB2	NM_004448	exon2	c.T146C	p.L49P	GCCACCTCTACCA	.	168.0	7.0	158.0	2.0	.	429	.	.	Atlas-SNP
BRCA1	672	hgsc.bcm.edu	hg19	17	41276097	41276097	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	BRCA1	NM_007298	exon1	c.T17C	p.L6P	ACGCGAAGAGCAG	.	98.0	4.0	165.0	0.0	.	304	.	.	Atlas-SNP
EFTUD2	9343	hgsc.bcm.edu	hg19	17	42960512	42960512	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	EFTUD2	NM_004247	exon6	c.T441C	p.D147D	TAAACAATCCACA	.	86.0	4.0	156.0	0.0	.	85	.	.	Atlas-SNP
ERN1	2081	hgsc.bcm.edu	hg19	17	62125246	62125246	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ERN1	NM_001433	exon19	c.G2501A	p.S834N	TCTAGGCTCCAGA	.	57.0	4.0	81.0	0.0	.	102	.	.	Atlas-SNP
PITPNC1	26207	hgsc.bcm.edu	hg19	17	65665662	65665662	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PITPNC1	NM_012417	exon7	c.A501G	p.G167G	ACGGGGACAGTTG	.	98.0	4.0	111.0	0.0	.	47	.	.	Atlas-SNP
NUP85	79902	hgsc.bcm.edu	hg19	17	73205985	73205985	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NUP85	NM_024844	exon3	c.T195C	p.S65S	TTACTCTCAAATC	.	99.0	4.0	79.0	0.0	.	44	.	.	Atlas-SNP
MXRA7	439921	hgsc.bcm.edu	hg19	17	74681182	74681182	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MXRA7	NM_001008529	exon3	c.A472G	p.T158A	CTTTGGTCATCAT	.	127.0	6.0	194.0	0.0	.	11	.	.	Atlas-SNP
DNAH17	8632	hgsc.bcm.edu	hg19	17	76421461	76421461	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	DNAH17	NM_173628	exon80	c.A13107G	p.R4369R	GCCCTCTCGCGGA	.	63.0	5.0	148.0	0.0	.	347	.	.	Atlas-SNP
CARD14	79092	hgsc.bcm.edu	hg19	17	78163550	78163550	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	CARD14_ENST00000309710,right_upper_lobe,carcinoma,0,2	CARD14	NM_001257970	exon6	c.844-2A>G	.	TGCCCCAGGCGGA	.	92.0	5.0	125.0	0.0	.	98	.	.	Atlas-SNP
MYADML2	255275	hgsc.bcm.edu	hg19	17	79899113	79899113	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MYADML2	NM_001145113	exon3	c.A505G	p.I169V	GGACGATCTTGAG	.	109.0	5.0	205.0	0.0	.	11	.	.	Atlas-SNP
OGFOD3	79701	hgsc.bcm.edu	hg19	17	80373502	80373502	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	.	NM_175902	exon2	c.A76G	p.T26A	TCTTGGTGCTGAG	.	39.0	4.0	40.0	0.0	.	.	.	.	Atlas-SNP
NDC80	10403	hgsc.bcm.edu	hg19	18	2578924	2578924	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NDC80	NM_006101	exon6	c.477-2A>G	.	TCTCATAGGTATC	.	79.0	4.0	90.0	0.0	.	62	.	.	Atlas-SNP
MYOM1	8736	hgsc.bcm.edu	hg19	18	3086103	3086103	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MYOM1	NM_003803	exon30	c.A4184G	p.E1395G	TCCCTCTCATCTT	.	74.0	5.0	74.0	0.0	.	192	.	.	Atlas-SNP
ANKRD12	23253	hgsc.bcm.edu	hg19	18	9256481	9256481	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ANKRD12	NM_015208	exon9	c.T3216C	p.N1072N	AGTGAATGATGAT	.	83.0	4.0	86.0	0.0	.	167	.	.	Atlas-SNP
ANKRD12	23253	hgsc.bcm.edu	hg19	18	9258341	9258341	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ANKRD12	NM_015208	exon9	c.A5076T	p.L1692F	CATTTTATCAAGT	.	65.0	4.0	59.0	0.0	.	167	.	.	Atlas-SNP
CEP192	55125	hgsc.bcm.edu	hg19	18	13071058	13071058	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CEP192	NM_032142	exon28	c.A5195G	p.Q1732R	TTGTGCAGCCATT	.	112.0	5.0	118.0	0.0	.	340	.	.	Atlas-SNP
LDLRAD4	753	hgsc.bcm.edu	hg19	18	13643356	13643356	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	.	NM_001003674	exon3	c.226-2A>G	.	TCCGCCAGGAAGG	.	199.0	8.0	251.0	0.0	.	.	.	.	Atlas-SNP
DSG3	1830	hgsc.bcm.edu	hg19	18	29056124	29056124	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	DSG3	NM_001944	exon16	c.T2901C	p.C967C	GATCTGTCCCATT	.	111.0	5.0	109.0	0.0	.	172	.	.	Atlas-SNP
TTR	7276	hgsc.bcm.edu	hg19	18	29172906	29172906	+	Silent	SNP	T	T	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TTR	NM_000371	exon2	c.T117A	p.A39A	AGATGCTGTCCGA	.	144.0	64.0	145.0	0.0	.	21	.	.	Atlas-SNP
PIGN	23556	hgsc.bcm.edu	hg19	18	59806257	59806257	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PIGN	NM_176787	exon13	c.A1075G	p.S359G	ACATGCTCTCTGC	.	174.0	8.0	154.0	0.0	.	62	.	.	Atlas-SNP
MIER2	54531	hgsc.bcm.edu	hg19	19	327183	327183	+	Missense_Mutation	SNP	G	G	T	rs201881025	bycluster;byfrequency;alternate_allele	TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	MIER2,lower_third,carcinoma,0,1	MIER2	NM_017550	exon5	c.C443A	p.P148Q	ACGGACGGGGTGA	.	101.0	0.0	139.0	0.0	.	51	.	G|0.998;A|0.002	Atlas-SNP
REXO1	57455	hgsc.bcm.edu	hg19	19	1828117	1828117	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	REXO1	NM_020695	exon2	c.A671G	p.D224G	GAGTTGTCCACCA	.	72.0	4.0	50.0	0.0	.	55	.	.	Atlas-SNP
IZUMO4	113177	hgsc.bcm.edu	hg19	19	2098975	2098975	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	IZUMO4	NM_001039846	exon9	c.A555G	p.R185R	GAACAGACCACGC	.	98.0	4.0	107.0	0.0	.	25	.	.	Atlas-SNP
ACSBG2	81616	hgsc.bcm.edu	hg19	19	6161259	6161259	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ACSBG2	NM_030924	exon6	c.A541G	p.I181V	AAAGCGATCATCC	.	88.0	4.0	93.0	0.0	.	83	.	.	Atlas-SNP
EPOR	2057	hgsc.bcm.edu	hg19	19	11491862	11491862	+	Silent	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	EPOR	NM_000121	exon5	c.C609A	p.T203T	ACACTCGGTGCGG	.	25.0	22.0	63.0	0.0	.	26	.	.	Atlas-SNP
RGL3	57139	hgsc.bcm.edu	hg19	19	11527335	11527335	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	RGL3	NM_001035223	exon4	c.G378A	p.E126E	CTTGATCTCTACC	.	66.0	4.0	132.0	0.0	.	100	.	.	Atlas-SNP
ACP5	54	hgsc.bcm.edu	hg19	19	11687318	11687318	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ACP5	NM_001111034	exon5	c.A475G	p.T159A	ATAGTGTCACTGT	.	60.0	4.0	132.0	0.0	.	30	.	.	Atlas-SNP
ZNF564	163050	hgsc.bcm.edu	hg19	19	12638001	12638001	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ZNF564	NM_144976	exon4	c.A921G	p.G307G	ATAAGGTCCATCC	.	53.0	4.0	80.0	0.0	.	55	.	.	Atlas-SNP
PRDX2	7001	hgsc.bcm.edu	hg19	19	12911584	12911584	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PRDX2	NM_181738	exon3	c.A403G	p.R135G	TCATCCTTAAAGA	.	93.0	4.0	166.0	0.0	.	20	.	.	Atlas-SNP
DNASE2	1777	hgsc.bcm.edu	hg19	19	12987072	12987072	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	DNASE2	NM_001375	exon6	c.A815G	p.Q272R	AGAACCTGCCAGA	.	95.0	4.0	157.0	0.0	.	23	.	.	Atlas-SNP
SLC35E1	79939	hgsc.bcm.edu	hg19	19	16677349	16677349	+	Silent	SNP	G	G	A	rs371476983		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	SLC35E1,medulla,primitive_neuroectodermal_tumour-medulloblastoma,0,1	SLC35E1	NM_024881	exon4	c.C750T	p.S250S	CAAGTCGCTGCTG	.	50.0	2.0	67.0	0.0	.	48	.	.	Atlas-SNP
MYO9B	4650	hgsc.bcm.edu	hg19	19	17296790	17296790	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MYO9B	NM_001130065	exon18	c.A2557G	p.I853V	CGCTGCATCCGTT	.	76.0	4.0	127.0	0.0	.	264	.	.	Atlas-SNP
PGLS	25796	hgsc.bcm.edu	hg19	19	17622717	17622717	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PGLS	NM_012088	exon1	c.A236G	p.D79G	TCTGCGACGAGCG	.	94.0	4.0	107.0	0.0	.	12	.	.	Atlas-SNP
ZNF507	22847	hgsc.bcm.edu	hg19	19	32843842	32843842	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ZNF507	NM_001136156	exon3	c.C106A	p.Q36K	GATGAACAAAGAA	.	125.0	5.0	106.0	0.0	.	92	.	.	Atlas-SNP
ZNF781	163115	hgsc.bcm.edu	hg19	19	38160811	38160811	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ZNF781	NM_152605	exon4	c.A239G	p.K80R	GTTCTCTTATGTT	.	73.0	4.0	65.0	0.0	.	66	.	.	Atlas-SNP
CAPN12	147968	hgsc.bcm.edu	hg19	19	39226821	39226821	+	Silent	SNP	C	C	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CAPN12	NM_144691	exon12	c.G1512C	p.P504P	GGTGCTCGGCACC	.	31.0	15.0	55.0	0.0	.	43	.	.	Atlas-SNP
PSMC4	5704	hgsc.bcm.edu	hg19	19	40478358	40478358	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PSMC4	NM_006503	exon3	c.T218C	p.L73P	AATTTCTCCATGC	.	92.0	5.0	63.0	0.0	.	48	.	.	Atlas-SNP
PSMC4	5704	hgsc.bcm.edu	hg19	19	40478370	40478370	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PSMC4	NM_006503	exon3	c.A230G	p.E77G	CCCAGGAGGAGGT	.	95.0	4.0	65.0	0.0	.	48	.	.	Atlas-SNP
LIG1	3978	hgsc.bcm.edu	hg19	19	48636271	48636271	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	LIG1	NM_000234	exon18	c.T1693C	p.C565R	ATTCGCAGGTGAA	.	124.0	5.0	102.0	0.0	.	151	.	.	Atlas-SNP
TULP2	7288	hgsc.bcm.edu	hg19	19	49385453	49385453	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TULP2	NM_003323	exon12	c.A1283G	p.E428G	AGCGACTCCTGTT	.	89.0	5.0	70.0	0.0	.	60	.	.	Atlas-SNP
MED25	81857	hgsc.bcm.edu	hg19	19	50333046	50333046	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MED25	NM_030973	exon6	c.G529A	p.G177R	CAGCGGGGGATCC	.	167.0	83.0	147.0	0.0	.	98	.	.	Atlas-SNP
IZUMO2	126123	hgsc.bcm.edu	hg19	19	50666320	50666320	+	Silent	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	IZUMO2	NM_152358	exon1	c.C132T	p.F44F	CAACTGGAAGCGA	.	178.0	76.0	196.0	0.0	.	26	.	.	Atlas-SNP
SIGLEC12	89858	hgsc.bcm.edu	hg19	19	52002711	52002711	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SIGLEC12	NM_053003	exon3	c.T1068C	p.A356A	TCGGACAGCCCTG	.	154.0	7.0	194.0	0.0	.	243	.	.	Atlas-SNP
EPS8L1	54869	hgsc.bcm.edu	hg19	19	55594861	55594861	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	EPS8L1	NM_133180	exon13	c.C1330T	p.L444L	AAACAGCTACAGC	.	89.0	4.0	80.0	0.0	.	122	.	.	Atlas-SNP
SYT5	6861	hgsc.bcm.edu	hg19	19	55687412	55687412	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SYT5	NM_003180	exon4	c.A333G	p.R111R	CTGCAGTCGTCCT	.	98.0	4.0	108.0	0.0	.	45	.	.	Atlas-SNP
SIRPD	128646	hgsc.bcm.edu	hg19	20	1532596	1532596	+	Silent	SNP	G	G	C	rs144302855	alternate_allele	TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SIRPD	NM_178460	exon2	c.C162G	p.P54P	GGTATTGGGTACG	.	165.0	7.0	164.0	0.0	.	34	.	G|1.000;A|0.000	Atlas-SNP
C20orf194	25943	hgsc.bcm.edu	hg19	20	3356928	3356928	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	C20orf194,colon,carcinoma,0,1	C20orf194	NM_001009984	exon4	c.C305T	p.S102L	CTATCCGATTTAA	.	94.0	6.0	109.0	2.0	.	83	.	.	Atlas-SNP
SIGLEC1	6614	hgsc.bcm.edu	hg19	20	3672111	3672111	+	Silent	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SIGLEC1	NM_023068	exon17	c.C4467T	p.H1489H	CTCCGCGTGCAGC	.	358.0	174.0	363.0	0.0	.	210	.	.	Atlas-SNP
HAO1	54363	hgsc.bcm.edu	hg19	20	7915282	7915282	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	HAO1,NS,carcinoma,0,1	HAO1	NM_017545	exon2	c.A138G	p.R46R	CTTCCATCTAGAA	.	54.0	3.0	51.0	0.0	.	71	.	.	Atlas-SNP
SNAP25	6616	hgsc.bcm.edu	hg19	20	10277665	10277665	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SNAP25	NM_003081	exon6	c.A374G	p.E125G	AACGGGAGCAGAT	.	122.0	5.0	116.0	0.0	.	79	.	.	Atlas-SNP
RRBP1	6238	hgsc.bcm.edu	hg19	20	17640671	17640671	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	RRBP1	NM_004587	exon2	c.A482G	p.Q161R	AGAACCTGGATGG	.	77.0	5.0	91.0	0.0	.	157	.	.	Atlas-SNP
RIN2	54453	hgsc.bcm.edu	hg19	20	19981288	19981288	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	RIN2	NM_001242581	exon12	c.A2543G	p.N848S	AGGTCAACAGTGG	.	88.0	4.0	102.0	0.0	.	126	.	.	Atlas-SNP
NAPB	63908	hgsc.bcm.edu	hg19	20	23383705	23383705	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NAPB	NM_022080	exon2	c.A103G	p.N35D	TTGTGTTTCCTCT	.	82.0	4.0	92.0	0.0	.	22	.	.	Atlas-SNP
VSX1	30813	hgsc.bcm.edu	hg19	20	25057157	25057157	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	VSX1	NM_014588	exon5	c.A838G	p.R280G	GCTTCCTTATCAT	.	97.0	4.0	88.0	0.0	.	20	.	.	Atlas-SNP
CBFA2T2	9139	hgsc.bcm.edu	hg19	20	32217714	32217714	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CBFA2T2	NM_005093	exon9	c.A1249G	p.S417G	TCTCTCAGCAATG	.	104.0	5.0	95.0	0.0	.	93	.	.	Atlas-SNP
MYH7B	57644	hgsc.bcm.edu	hg19	20	33586333	33586333	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MYH7B	NM_020884	exon34	c.A4020G	p.L1340L	CCTGCTAGAGGAG	.	88.0	4.0	80.0	0.0	.	145	.	.	Atlas-SNP
SOGA1	140710	hgsc.bcm.edu	hg19	20	35437068	35437068	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SOGA1	NM_080627	exon8	c.C2662A	p.Q888K	ATTTCTGCTCCAG	.	61.0	25.0	86.0	0.0	.	136	.	.	Atlas-SNP
SRC	6714	hgsc.bcm.edu	hg19	20	36028552	36028552	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SRC	NM_005417	exon10	c.A894G	p.K298K	CATCAAAACCCTG	.	95.0	5.0	127.0	0.0	.	52	.	.	Atlas-SNP
CTSA	5476	hgsc.bcm.edu	hg19	20	44520238	44520238	+	Silent	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.,5	CTSA	NM_000308	exon2	c.C85T	p.L29L	CTGTTCCTGCTGC	.	48.0	2.0	35.0	0.0	.	52	.	.	Atlas-SNP
SYCP2	10388	hgsc.bcm.edu	hg19	20	58487429	58487429	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SYCP2	NM_014258	exon12	c.A875G	p.E292G	TTTACCTCATATT	.	85.0	4.0	77.0	0.0	.	204	.	.	Atlas-SNP
ZNF512B	57473	hgsc.bcm.edu	hg19	20	62594753	62594753	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ZNF512B	NM_020713	exon11	c.A1739G	p.E580G	TCGCGCTCCTCCT	.	50.0	4.0	39.0	0.0	.	72	.	.	Atlas-SNP
GRIK1	2897	hgsc.bcm.edu	hg19	21	30949468	30949468	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GRIK1	NM_000830	exon14	c.G1946A	p.R649K	ACTATTCTGGTCG	.	138.0	6.0	169.0	0.0	.	293	.	.	Atlas-SNP
BRWD1	54014	hgsc.bcm.edu	hg19	21	40571299	40571299	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	BRWD1	NM_018963	exon40	c.A5043G	p.E1681E	GCTCTGTTCATCT	.	84.0	4.0	72.0	0.0	.	325	.	.	Atlas-SNP
KRTAP10-12	386685	hgsc.bcm.edu	hg19	21	46117817	46117817	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	KRTAP10-12	NM_198699	exon1	c.T701C	p.L234P	GGTCCCTCCTCTG	.	79.0	5.0	81.0	0.0	.	21	.	.	Atlas-SNP
PCBP3	54039	hgsc.bcm.edu	hg19	21	47330925	47330925	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PCBP3	NM_001130141	exon7	c.T581C	p.I194T	AGCAGATCTGTGT	.	82.0	4.0	98.0	0.0	.	82	.	.	Atlas-SNP
COL6A1	1291	hgsc.bcm.edu	hg19	21	47421253	47421253	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	COL6A1	NM_001848	exon30	c.T1909C	p.F637L	AAGGACTTCGTCG	.	44.0	4.0	55.0	0.0	.	101	.	.	Atlas-SNP
LSS	4047	hgsc.bcm.edu	hg19	21	47636415	47636415	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	LSS	NM_001001438	exon7	c.C671T	p.A224V	GGGTGTGCCGGTG	.	93.0	4.0	107.0	0.0	.	50	.	.	Atlas-SNP
THAP7	80764	hgsc.bcm.edu	hg19	22	21354223	21354223	+	Silent	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	THAP7	NM_030573	exon4	c.T876C	p.T292T	CTTCAGAGTCTGG	.	140.0	6.0	143.0	0.0	.	15	.	.	Atlas-SNP
HPS4	89781	hgsc.bcm.edu	hg19	22	26860271	26860271	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	HPS4	NM_022081	exon11	c.A1325G	p.Q442R	TCGAGCTGCTCTT	.	98.0	4.0	89.0	0.0	.	123	.	.	Atlas-SNP
EMID1	129080	hgsc.bcm.edu	hg19	22	29611591	29611591	+	Silent	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	EMID1	NM_001267895	exon3	c.T291C	p.P97P	CTGCCCTGGGCAC	.	100.0	4.0	91.0	0.0	.	33	.	.	Atlas-SNP
GCAT	23464	hgsc.bcm.edu	hg19	22	38204108	38204108	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	GCAT	NM_001171690	exon1	c.A134G	p.K45R	CTTGGAAGAGTGA	.	77.0	4.0	118.0	0.0	.	27	.	.	Atlas-SNP
SCUBE1	80274	hgsc.bcm.edu	hg19	22	43627876	43627876	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SCUBE1	NM_173050	exon8	c.A850G	p.N284D	ACTCGTTGATGTC	.	77.0	4.0	207.0	0.0	.	105	.	.	Atlas-SNP
SHANK3	85358	hgsc.bcm.edu	hg19	22	51143468	51143468	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SHANK3	NM_033517	exon16	c.T1931C	p.V644A	GCCTCGTCATGAA	.	61.0	5.0	149.0	0.0	.	96	.	.	Atlas-SNP
NLGN4X	57502	hgsc.bcm.edu	hg19	X	6069292	6069292	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NLGN4X	NM_181332	exon2	c.G216T	p.Q72H	TAAGTACTGCTCC	.	304.0	139.0	378.0	0.0	.	191	.	.	Atlas-SNP
TCEANC	170082	hgsc.bcm.edu	hg19	X	13681572	13681572	+	Silent	SNP	T	T	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TCEANC	NM_152634	exon4	c.T1035A	p.L345L	AACACTTTTCCTT	.	144.0	72.0	156.0	0.0	.	29	.	.	Atlas-SNP
RPS6KA3	6197	hgsc.bcm.edu	hg19	X	20194413	20194413	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	RPS6KA3	NM_004586	exon13	c.G1057T	p.D353Y	ATGTATCTTCAGG	.	353.0	146.0	314.0	0.0	.	110	.	.	Atlas-SNP
ZNF157	7712	hgsc.bcm.edu	hg19	X	47272506	47272506	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ZNF157	NM_003446	exon4	c.T1034C	p.L345P	TGACTCTCAATAA	.	107.0	5.0	97.0	0.0	.	46	.	.	Atlas-SNP
WNK3	65267	hgsc.bcm.edu	hg19	X	54265313	54265313	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	WNK3	NM_020922	exon18	c.A3871G	p.K1291E	GGACTTTTGATCT	.	95.0	4.0	84.0	0.0	.	218	.	.	Atlas-SNP
DCAF12L2	340578	hgsc.bcm.edu	hg19	X	125299293	125299293	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	DCAF12L2	NM_001013628	exon1	c.C615A	p.D205E	TACGGTGTCACTC	.	246.0	49.0	266.0	0.0	.	157	.	.	Atlas-SNP
MAGEC2	51438	hgsc.bcm.edu	hg19	X	141291446	141291446	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MAGEC2	NM_016249	exon3	c.A328G	p.S110G	ATGAGCTCCATGA	.	91.0	4.0	68.0	0.0	.	102	.	.	Atlas-SNP
SLITRK4	139065	hgsc.bcm.edu	hg19	X	142717432	142717432	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SLITRK4	NM_001184750	exon2	c.T1493C	p.L498S	CTAGCTAAGGGTG	.	244.0	113.0	273.0	0.0	.	162	.	.	Atlas-SNP
PNMA3	29944	hgsc.bcm.edu	hg19	X	152226392	152226392	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PNMA3	NM_013364	exon2	c.T980C	p.V327A	CCCTGGTGAAGCT	.	91.0	4.0	126.0	0.0	.	81	.	.	Atlas-SNP
UBR1	197131	hgsc.bcm.edu	hg19	15	43363075	43363075	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	UBR1	NM_174916	exon5	c.578delT	p.I193fs	.	.	130.0	12.0	74.0	0.0	.	124	.	.	Atlas-INDEL
TNRC18	84629	hgsc.bcm.edu	hg19	7	5410486	5410486	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	TNRC18	NM_001080495	exon11	c.3740delT	p.V1247fs	.	.	144.0	10.0	168.0	0.0	.	311	.	.	Atlas-INDEL
SCAMP5	192683	hgsc.bcm.edu	hg19	15	75308993	75308993	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	SCAMP5	NM_001178111	exon5	c.195delC	p.G65fs	.	.	155.0	10.0	123.0	0.0	.	34	.	.	Atlas-INDEL
NOL10	79954	hgsc.bcm.edu	hg19	2	10729763	10729763	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NOL10	NM_024894	exon18	c.1538delT	p.I513fs	.	.	140.0	10.0	120.0	0.0	.	22	.	.	Atlas-INDEL
ARID1B	57492	hgsc.bcm.edu	hg19	6	157528676	157528676	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ARID1B	NM_020732	exon20	c.6400delC	p.L2134fs	.	.	153.0	10.0	123.0	0.0	.	320	.	.	Atlas-INDEL
RFX5	5993	hgsc.bcm.edu	hg19	1	151318753	151318753	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	RFX5	NM_000449	exon3	c.45delA	p.G15fs	.	.	247.0	16.0	118.0	0.0	.	69	.	.	Atlas-INDEL
QARS	5859	hgsc.bcm.edu	hg19	3	49140816	49140816	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	QARS	NM_005051	exon5	c.479delC	p.A160fs	.	.	140.0	12.0	122.0	0.0	.	55	.	.	Atlas-INDEL
KIAA1551	55196	hgsc.bcm.edu	hg19	12	32138119	32138119	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	.	NM_018169	exon4	c.4229delC	p.S1410fs	.	.	161.0	10.0	153.0	0.0	.	.	.	.	Atlas-INDEL
CDC123	8872	hgsc.bcm.edu	hg19	10	12259467	12259470	+	Frame_Shift_Del	DEL	GTAA	GTAA	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	GTAA	GTAA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	CDC123	NM_006023	exon6	c.440_440del	p.147_147del	.	.	73.0	24.0	107.0	0.0	.	34	.	.	Atlas-Indel,Pindel
HNRNPK	3190	hgsc.bcm.edu	hg19	9	86591918	86591918	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	HNRNPK	NM_031263	exon5	c.206delG	p.R69fs	.	.	136.0	10.0	100.0	0.0	.	49	.	.	Atlas-INDEL
HNRNPH3	3189	hgsc.bcm.edu	hg19	10	70101436	70101436	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	HNRNPH3	NM_012207	exon8	c.869delT	p.M290fs	.	.	115.0	10.0	132.0	0.0	.	33	.	.	Atlas-INDEL
MAP1B	4131	hgsc.bcm.edu	hg19	5	71493243	71493243	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	MAP1B	NM_005909	exon5	c.4060delG	p.E1354fs	.	.	139.0	10.0	133.0	0.0	.	243	.	.	Atlas-INDEL
WDR70	55100	hgsc.bcm.edu	hg19	5	37752658	37752658	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	WDR70	NM_018034	exon18	c.1947delG	p.W649X	.	.	180.0	11.0	83.0	0.0	.	76	.	.	Atlas-INDEL
RHBDF2	79651	hgsc.bcm.edu	hg19	17	74473785	74473787	+	In_Frame_Del	DEL	TCC	TCC	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	TCC	TCC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	RHBDF2	NM_024599	exon7	c.841_843del	p.281_281del	.	.	38.0	28.0	88.0	0.0	.	57	.	.	Atlas-Indel,Pindel
ARHGEF17	9828	hgsc.bcm.edu	hg19	11	73020687	73020687	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ARHGEF17	NM_014786	exon1	c.1003delG	p.A335fs	.	.	133.0	10.0	97.0	0.0	.	117	.	.	Atlas-INDEL
NFASC	23114	hgsc.bcm.edu	hg19	1	204971735	204971735	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	NFASC	NM_001005388	exon27	c.3147delG	p.T1049fs	.	.	212.0	16.0	112.0	0.0	.	396	.	.	Atlas-INDEL
ACSS1	84532	hgsc.bcm.edu	hg19	20	25002140	25002140	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ACSS1	NM_001252677	exon6	c.994delG	p.G332fs	.	.	166.0	10.0	176.0	0.0	.	46	.	.	Atlas-INDEL
C9orf72	203228	hgsc.bcm.edu	hg19	9	27566850	27566850	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	C9orf72	NM_018325	exon2	c.270delG	p.K90fs	.	.	179.0	13.0	182.0	0.0	.	48	.	.	Atlas-INDEL
C10orf107	219621	hgsc.bcm.edu	hg19	10	63441027	63441027	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	C10orf107	NM_173554	exon2	c.26delC	p.S9X	.	.	102.0	10.0	75.0	0.0	.	24	.	.	Atlas-INDEL
PRDM1	639	hgsc.bcm.edu	hg19	6	106553568	106553568	+	Frame_Shift_Del	DEL	C	C	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	PRDM1	NM_001198	exon5	c.1532delG	p.S511fs	.	.	145.0	10.0	118.0	0.0	.	195	.	.	Atlas-INDEL
ZMIZ2	83637	hgsc.bcm.edu	hg19	7	44796547	44796547	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BC-A3KG-01A-11D-A20W-10	TCGA-BC-A3KG-10A-01D-A20W-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	3d178885-f113-42a2-b34d-d564960d9314	685e0c81-2971-413a-9a2e-de27a62de591	.	ZMIZ2	NM_174929	exon3	c.166delG	p.V56fs	.	.	151.0	10.0	165.0	0.0	.	82	.	.	Atlas-INDEL