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
ZNF436	80818	hgsc.bcm.edu	hg19	1	23689653	23689653	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ZNF436	NM_001077195	exon4	c.A222G	p.Q74Q	CCCAAATTGTACA	.	279.0	121.0	120.0	0.0	.	49	.	.	Atlas-SNP
SLC1A7	6512	hgsc.bcm.edu	hg19	1	53555552	53555552	+	Silent	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	SLC1A7,NS,carcinoma,0,1	SLC1A7	NM_006671	exon9	c.C1281G	p.L427L	GGTGACGAGGCCG	.	173.0	76.0	90.0	0.0	.	65	.	.	Atlas-SNP
NTNG1	22854	hgsc.bcm.edu	hg19	1	107937923	107937923	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	NTNG1	NM_014917	exon4	c.C1035T	p.P345P	TCTCCCCATCCCC	.	125.0	54.0	48.0	0.0	.	274	.	.	Atlas-SNP
FCRL2	79368	hgsc.bcm.edu	hg19	1	157739786	157739786	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	FCRL2	NM_030764	exon4	c.C465T	p.G155G	GCTCCAGCCTGAC	.	393.0	223.0	94.0	0.0	.	104	.	.	Atlas-SNP
DCAF6	55827	hgsc.bcm.edu	hg19	1	168014320	168014320	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	DCAF6	NM_001198956	exon16	c.G2113C	p.E705Q	AATCCTGAGCCTC	.	389.0	225.0	134.0	0.0	.	99	.	.	Atlas-SNP
LAMC1	3915	hgsc.bcm.edu	hg19	1	183093943	183093943	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	LAMC1	NM_002293	exon14	c.A2579G	p.Y860C	GCTTCTATTGTGA	.	221.0	48.0	77.0	0.0	.	176	.	.	Atlas-SNP
OBSCN	84033	hgsc.bcm.edu	hg19	1	228529240	228529240	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	OBSCN	NM_001271223	exon85	c.C20830T	p.R6944W	CAGGCACGGACAG	.	84.0	25.0	33.0	0.0	.	2142	.	.	Atlas-SNP
OR2L13	284521	hgsc.bcm.edu	hg19	1	248262994	248262994	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	OR2L13	NM_175911	exon3	c.T317C	p.M106T	TGACCATGGCGTG	.	312.0	169.0	91.0	0.0	.	261	.	.	Atlas-SNP
OR2T4	127074	hgsc.bcm.edu	hg19	1	248525893	248525893	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	OR2T4	NM_001004696	exon1	c.A1011G	p.L337L	AATGTTAACAGTG	.	689.0	225.0	257.0	0.0	.	126	.	.	Atlas-SNP
OR2T27	403239	hgsc.bcm.edu	hg19	1	248813316	248813316	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	OR2T27	NM_001001824	exon1	c.C870A	p.Y290X	AAGGCTGTAAATG	.	573.0	83.0	197.0	0.0	.	52	.	.	Atlas-SNP
SH3YL1	26751	hgsc.bcm.edu	hg19	2	218860	218860	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	SH3YL1	NM_015677	exon10	c.T980G	p.L327R	CCTCGAAGTTTTC	.	152.0	75.0	48.0	0.0	.	49	.	.	Atlas-SNP
ALMS1	7840	hgsc.bcm.edu	hg19	2	73717941	73717941	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ALMS1	NM_015120	exon10	c.G8852C	p.G2951A	CTCAAGGTCAGGA	.	86.0	33.0	62.0	0.0	.	384	.	.	Atlas-SNP
KCMF1	56888	hgsc.bcm.edu	hg19	2	85255054	85255054	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	KCMF1	NM_020122	exon2	c.G59A	p.R20H	GAGGTCGCAGATA	.	258.0	103.0	166.0	0.0	.	38	.	.	Atlas-SNP
ZNF2	7549	hgsc.bcm.edu	hg19	2	95847630	95847630	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ZNF2	NM_021088	exon5	c.G1057T	p.D353Y	TTCTTTGACCGCT	.	119.0	54.0	54.0	0.0	.	21	.	.	Atlas-SNP
STK39	27347	hgsc.bcm.edu	hg19	2	169018309	169018309	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	STK39	NM_013233	exon5	c.G616T	p.V206L	TTTGTACTGAACC	.	348.0	126.0	195.0	0.0	.	95	.	.	Atlas-SNP
SPATA3	130560	hgsc.bcm.edu	hg19	2	231861082	231861082	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	SPATA3	NM_139073	exon1	c.C134G	p.T45R	AATCCACACCACA	.	111.0	9.0	65.0	0.0	.	52	.	.	Atlas-SNP
SPATA3	130560	hgsc.bcm.edu	hg19	2	231861109	231861109	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	SPATA3	NM_139073	exon1	c.C161G	p.T54R	AATCCACACCACA	.	114.0	39.0	70.0	0.0	.	52	.	.	Atlas-SNP
SCN10A	6336	hgsc.bcm.edu	hg19	3	38835301	38835301	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	SCN10A	NM_006514	exon1	c.T201C	p.Y67Y	CTCACCATAGAAC	.	335.0	149.0	122.0	0.0	.	359	.	.	Atlas-SNP
CTNNB1	1499	hgsc.bcm.edu	hg19	3	41266135	41266135	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	CTNNB1,NS,carcinoma,+2,1	CTNNB1	NM_001098209	exon3	c.T132C	p.P44P	AGCTCCTTCTCTG	.	231.0	72.0	105.0	0.0	.	4904	.	.	Atlas-SNP
CTNNB1	1499	hgsc.bcm.edu	hg19	3	41266137	41266137	+	Missense_Mutation	SNP	C	C	T	rs121913409	bycluster	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	CTNNB1,NS,carcinoma,+1,2	CTNNB1	NM_001098209	exon3	c.C134T	p.S45F	CTCCTTCTCTGAG	.	232.0	62.0	106.0	1.0	.	4904	.	.	Atlas-SNP
CTNNB1	1499	hgsc.bcm.edu	hg19	3	41266138	41266138	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	CTNNB1,NS,carcinoma,+2,4	CTNNB1	NM_001098209	exon3	c.T135C	p.S45S	TCCTTCTCTGAGT	.	227.0	93.0	103.0	0.0	.	4904	.	.	Atlas-SNP
CADPS	8618	hgsc.bcm.edu	hg19	3	62739120	62739120	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	CADPS	NM_003716	exon3	c.G884C	p.C295S	ACCTGGCAGGCAT	.	93.0	45.0	34.0	0.0	.	387	.	.	Atlas-SNP
CCDC14	64770	hgsc.bcm.edu	hg19	3	123650008	123650008	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	CCDC14	NM_022757	exon11	c.A1740G	p.I580M	CCCCAATATCTGG	.	340.0	125.0	217.0	0.0	.	97	.	.	Atlas-SNP
NEK11	79858	hgsc.bcm.edu	hg19	3	130748574	130748574	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	NEK11	NM_024800	exon3	c.G22T	p.A8S	GAGGCAGCTAAGT	.	188.0	89.0	79.0	0.0	.	76	.	.	Atlas-SNP
C3orf72	401089	hgsc.bcm.edu	hg19	3	138669225	138669225	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	C3orf72	NM_001040061	exon3	c.C339T	p.L113L	ACCACTCAGCTCG	.	26.0	9.0	34.0	0.0	.	13	.	.	Atlas-SNP
WDR49	151790	hgsc.bcm.edu	hg19	3	167246878	167246878	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	WDR49	NM_178824	exon10	c.G1312A	p.G438R	GATCTCCTGTGGT	.	273.0	93.0	140.0	0.0	.	188	.	.	Atlas-SNP
ZCCHC4	29063	hgsc.bcm.edu	hg19	4	25353268	25353268	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ZCCHC4	NM_024936	exon8	c.G968T	p.R323L	AATCCCGAATTTG	.	343.0	134.0	123.0	0.0	.	34	.	.	Atlas-SNP
RFC1	5981	hgsc.bcm.edu	hg19	4	39322038	39322038	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	RFC1	NM_002913	exon9	c.C1060G	p.P354A	TCTTAGGAGTTTT	.	267.0	108.0	166.0	0.0	.	114	.	.	Atlas-SNP
KCTD8	386617	hgsc.bcm.edu	hg19	4	44449751	44449751	+	Nonsense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	KCTD8	NM_198353	exon1	c.A790T	p.K264X	TGTACTTCTCCGG	.	55.0	16.0	53.0	0.0	.	96	.	.	Atlas-SNP
C4orf21	55345	hgsc.bcm.edu	hg19	4	113510881	113510881	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	C4orf21	NM_018392	exon11	c.G3126C	p.E1042D	ACTACCCTCCAAG	.	150.0	107.0	151.0	0.0	.	223	.	.	Atlas-SNP
TNIP3	79931	hgsc.bcm.edu	hg19	4	122085259	122085259	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	TNIP3	NM_001244764	exon4	c.A253G	p.T85A	TAGATGTGCCCTG	.	162.0	55.0	66.0	0.0	.	58	.	.	Atlas-SNP
PCDH10	57575	hgsc.bcm.edu	hg19	4	134071720	134071720	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	PCDH10	NM_032961	exon1	c.C425A	p.P142H	GCTTCCCCTTGGA	.	51.0	22.0	32.0	0.0	.	290	.	.	Atlas-SNP
IRF2	3660	hgsc.bcm.edu	hg19	4	185340688	185340688	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	IRF2,colon,carcinoma,0,1	IRF2	NM_002199	exon3	c.C122T	p.A41V	CTAGCCGCATGCA	.	61.0	12.0	33.0	0.0	.	53	.	.	Atlas-SNP
PLEKHG4B	153478	hgsc.bcm.edu	hg19	5	140645	140645	+	Missense_Mutation	SNP	C	C	T	rs369792305		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	PLEKHG4B	NM_052909	exon1	c.C223T	p.R75W	GCAGGGCGGACTC	.	153.0	67.0	100.0	0.0	.	167	.	.	Atlas-SNP
ZNF608	57507	hgsc.bcm.edu	hg19	5	123982848	123982848	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ZNF608	NM_020747	exon4	c.T3229A	p.S1077T	AAAGTGACTGAGC	.	291.0	111.0	148.0	0.0	.	117	.	.	Atlas-SNP
H2AFY	9555	hgsc.bcm.edu	hg19	5	134724771	134724771	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	H2AFY	NM_138610	exon2	c.G13A	p.G5S	TCCCACCGCGGCT	.	52.0	21.0	24.0	0.0	.	61	.	.	Atlas-SNP
SPOCK1	6695	hgsc.bcm.edu	hg19	5	136314376	136314376	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	SPOCK1	NM_004598	exon11	c.T1287C	p.D429D	TTTGTCATCATCC	.	304.0	131.0	123.0	0.0	.	58	.	.	Atlas-SNP
PCYOX1L	78991	hgsc.bcm.edu	hg19	5	148745666	148745666	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	PCYOX1L	NM_024028	exon4	c.C632G	p.A211G	TTTCTGCTGTCCT	.	73.0	28.0	31.0	0.0	.	32	.	.	Atlas-SNP
EIF4E1B	253314	hgsc.bcm.edu	hg19	5	176070173	176070173	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	EIF4E1B	NM_001099408	exon4	c.C106A	p.P36T	AAGTCTCCAAACT	.	185.0	72.0	113.0	0.0	.	24	.	.	Atlas-SNP
HIVEP1	3096	hgsc.bcm.edu	hg19	6	12162108	12162108	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	HIVEP1	NM_002114	exon8	c.G6924T	p.E2308D	CCCTGAGTCAGAA	.	346.0	81.0	85.0	0.0	.	242	.	.	Atlas-SNP
KDM1B	221656	hgsc.bcm.edu	hg19	6	18215297	18215297	+	Silent	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	KDM1B	NM_153042	exon16	c.C1473A	p.T491T	GAGGACCCTGGAT	.	141.0	30.0	51.0	0.0	.	58	.	.	Atlas-SNP
HIST1H4G	8369	hgsc.bcm.edu	hg19	6	26246995	26246995	+	Missense_Mutation	SNP	C	C	T	rs140916075		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	HIST1H4G	NM_003547	exon1	c.G211A	p.V71M	TGGTCACGGCGTA	.	223.0	120.0	82.0	0.0	.	18	.	C|1.000;T|0.000	Atlas-SNP
OR2H2	7932	hgsc.bcm.edu	hg19	6	29556264	29556264	+	Silent	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	OR2H2	NM_007160	exon1	c.T543C	p.A181A	CCCAGCTCTAATT	.	467.0	24.0	114.0	0.0	.	29	.	.	Atlas-SNP
DPCR1	135656	hgsc.bcm.edu	hg19	6	30917879	30917879	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	DPCR1	NM_080870	exon2	c.G1638A	p.R546R	AGAAAGGACAGCC	.	894.0	58.0	303.0	0.0	.	99	.	.	Atlas-SNP
DNAH8	1769	hgsc.bcm.edu	hg19	6	38810541	38810541	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	DNAH8	NM_001206927	exon35	c.G4707A	p.M1569I	AATGATGACCAAT	.	319.0	67.0	84.0	0.0	.	1239	.	.	Atlas-SNP
COL19A1	1310	hgsc.bcm.edu	hg19	6	70852682	70852682	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	COL19A1	NM_001858	exon23	c.C1596T	p.S532S	AGGCTCCATGGGA	.	78.0	30.0	54.0	0.0	.	232	.	.	Atlas-SNP
LPA	4018	hgsc.bcm.edu	hg19	6	161006134	161006134	+	Silent	SNP	A	A	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	LPA	NM_005577	exon27	c.T4233G	p.S1411S	CGACCAAGACTGA	.	216.0	66.0	91.0	0.0	.	237	.	.	Atlas-SNP
C6orf118	168090	hgsc.bcm.edu	hg19	6	165715292	165715292	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	C6orf118	NM_144980	exon2	c.G519T	p.R173S	TTCCCTCCTGCGC	.	42.0	19.0	27.0	0.0	.	116	.	.	Atlas-SNP
SNX13	23161	hgsc.bcm.edu	hg19	7	17908059	17908059	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	SNX13	NM_015132	exon9	c.G808C	p.D270H	TATAATCAGGATC	.	347.0	110.0	124.0	0.0	.	113	.	.	Atlas-SNP
MACC1	346389	hgsc.bcm.edu	hg19	7	20199410	20199410	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	MACC1	NM_182762	exon5	c.T574A	p.C192S	CAAGGCAGGAGCG	.	175.0	41.0	93.0	0.0	.	99	.	.	Atlas-SNP
ZNF679	168417	hgsc.bcm.edu	hg19	7	63726562	63726562	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ZNF679	NM_153363	exon5	c.T551G	p.F184C	AACATTTCAAATG	.	428.0	230.0	196.0	0.0	.	80	.	.	Atlas-SNP
TRRAP	8295	hgsc.bcm.edu	hg19	7	98506458	98506458	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	TRRAP	NM_001244580	exon14	c.A1223G	p.D408G	TCGACGATGAGTC	.	132.0	38.0	45.0	0.0	.	863	.	.	Atlas-SNP
COPS6	10980	hgsc.bcm.edu	hg19	7	99686935	99686935	+	Silent	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	COPS6	NM_006833	exon2	c.C99T	p.C33C	GGCCTGCGGAGTG	.	157.0	50.0	34.0	0.0	.	31	.	.	Atlas-SNP
MLL3	58508	hgsc.bcm.edu	hg19	7	151884488	151884488	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	MLL3	NM_170606	exon33	c.G4867T	p.E1623X	CTCCTTCCACAGT	.	212.0	112.0	94.0	0.0	.	1564	.	.	Atlas-SNP
EIF3E	3646	hgsc.bcm.edu	hg19	8	109229595	109229595	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	EIF3E	NM_001568	exon8	c.G817T	p.V273F	TTAGAACCTGCCG	.	47.0	12.0	18.0	0.0	.	73	.	.	Atlas-SNP
TG	7038	hgsc.bcm.edu	hg19	8	133925494	133925494	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	TG	NM_003235	exon20	c.G4362C	p.Q1454H	CAGTCAGGACGGA	.	148.0	53.0	52.0	0.0	.	416	.	.	Atlas-SNP
TTLL11	158135	hgsc.bcm.edu	hg19	9	124855337	124855337	+	Missense_Mutation	SNP	C	C	T	rs201124286		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	TTLL11	NM_001139442	exon1	c.G361A	p.E121K	TGGCCTCGGCCTC	.	5.0	4.0	11.0	0.0	.	67	.	.	Atlas-SNP
STXBP1	6812	hgsc.bcm.edu	hg19	9	130442485	130442485	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	STXBP1	NM_001032221	exon17	c.C1511T	p.T504I	TCTCTACCCGTTC	.	47.0	36.0	35.0	0.0	.	99	.	.	Atlas-SNP
FAM188A	80013	hgsc.bcm.edu	hg19	10	15858832	15858832	+	Splice_Site	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	FAM188A	NM_024948	exon11	c.882+2T>C	.	AAGCATACCTTGG	.	162.0	57.0	87.0	0.0	.	44	.	.	Atlas-SNP
COMMD3-BMI1	0	hgsc.bcm.edu	hg19	10	22618024	22618024	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	.	NM_001204062	exon13	c.A1047G	p.L349L	TACACTAATGGAT	.	172.0	56.0	115.0	0.0	.	.	.	.	Atlas-SNP
CHAT	1103	hgsc.bcm.edu	hg19	10	50827803	50827803	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	CHAT	NM_020549	exon3	c.G420C	p.Q140H	GCTGCAGCAGACC	.	31.0	13.0	27.0	0.0	.	162	.	.	Atlas-SNP
ALDH18A1	5832	hgsc.bcm.edu	hg19	10	97402774	97402774	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ALDH18A1	NM_001017423	exon3	c.G278A	p.G93E	AAGCGCCCCAGGG	.	73.0	32.0	41.0	0.0	.	63	.	.	Atlas-SNP
FANK1	92565	hgsc.bcm.edu	hg19	10	127684064	127684064	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	FANK1	NM_145235	exon4	c.G395C	p.G132A	TTCAAGGAGGGTG	.	521.0	210.0	254.0	0.0	.	46	.	.	Atlas-SNP
C10orf90	118611	hgsc.bcm.edu	hg19	10	128193357	128193357	+	Missense_Mutation	SNP	C	C	A	rs199676174	by1000genomes;alternate_allele	TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	C10orf90	NM_001004298	exon3	c.G412T	p.A138S	TGGATGCAAACCC	.	55.0	21.0	36.0	0.0	.	121	.	C|1.000;G|0.000	Atlas-SNP
KNDC1	85442	hgsc.bcm.edu	hg19	10	134981785	134981785	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	KNDC1	NM_152643	exon3	c.C329A	p.P110H	TTCCCCCCGAGTT	.	43.0	13.0	27.0	0.0	.	155	.	.	Atlas-SNP
MUC5B	727897	hgsc.bcm.edu	hg19	11	1280240	1280240	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	MUC5B	NM_002458	exon44	c.C16662A	p.D5554E	CCAGGACCCAACG	.	30.0	10.0	25.0	0.0	.	473	.	.	Atlas-SNP
OR51L1	119682	hgsc.bcm.edu	hg19	11	5020988	5020988	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	OR51L1	NM_001004755	exon1	c.G776A	p.G259E	TTATTGGGGTGTC	.	361.0	162.0	162.0	0.0	.	60	.	.	Atlas-SNP
OR52E2	119678	hgsc.bcm.edu	hg19	11	5079905	5079905	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	OR52E2	NM_001005164	exon1	c.A953T	p.E318V	AGGTACTCTTCCT	.	121.0	34.0	66.0	0.0	.	63	.	.	Atlas-SNP
OR52H1	390067	hgsc.bcm.edu	hg19	11	5566529	5566529	+	Silent	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	OR52H1	NM_001005289	exon1	c.C225A	p.A75A	AGTCATGGCCAGC	.	212.0	80.0	93.0	0.0	.	46	.	.	Atlas-SNP
USP47	55031	hgsc.bcm.edu	hg19	11	11964527	11964527	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	USP47	NM_017944	exon19	c.G2755T	p.D919Y	ACATGGGATACAG	.	152.0	62.0	88.0	0.0	.	91	.	.	Atlas-SNP
F2	2147	hgsc.bcm.edu	hg19	11	46747715	46747715	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	F2	NM_000506	exon7	c.A866G	p.N289S	ACCTCAACTATTG	.	27.0	12.0	24.0	0.0	.	75	.	.	Atlas-SNP
SLC22A8	9376	hgsc.bcm.edu	hg19	11	62761284	62761284	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	SLC22A8	NM_001184732	exon9	c.G1283A	p.C428Y	AAGAGGCAGCTGA	.	145.0	68.0	89.0	0.0	.	60	.	.	Atlas-SNP
MACROD1	28992	hgsc.bcm.edu	hg19	11	63918758	63918758	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	MACROD1	NM_014067	exon3	c.T470C	p.L157P	CTGCGGAGCAGGG	.	116.0	44.0	63.0	0.0	.	17	.	.	Atlas-SNP
GAL3ST3	89792	hgsc.bcm.edu	hg19	11	65810799	65810799	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	GAL3ST3	NM_033036	exon3	c.G475T	p.E159X	GCGACTCGAACAT	.	34.0	9.0	43.0	0.0	.	40	.	.	Atlas-SNP
NPAS4	266743	hgsc.bcm.edu	hg19	11	66191452	66191452	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	NPAS4	NM_178864	exon7	c.C1091T	p.T364I	TCTTCACCGCAGC	.	58.0	24.0	35.0	0.0	.	133	.	.	Atlas-SNP
SYT12	91683	hgsc.bcm.edu	hg19	11	66807408	66807408	+	Nonsense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	SYT12	NM_001177880	exon4	c.G355T	p.E119X	GGCCGGGAGTTGG	.	69.0	24.0	47.0	0.0	.	60	.	.	Atlas-SNP
SYT12	91683	hgsc.bcm.edu	hg19	11	66807409	66807409	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	SYT12	NM_001177880	exon4	c.A356C	p.E119A	GCCGGGAGTTGGA	.	73.0	24.0	47.0	0.0	.	60	.	.	Atlas-SNP
NAALAD2	10003	hgsc.bcm.edu	hg19	11	89924847	89924847	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	NAALAD2	NM_005467	exon19	c.A2155G	p.K719E	GAAGTAAAGAAAC	.	109.0	39.0	48.0	0.0	.	113	.	.	Atlas-SNP
FAT3	120114	hgsc.bcm.edu	hg19	11	92616349	92616349	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	FAT3	NM_001008781	exon23	c.A12727G	p.S4243G	TTCCAGAGTGACT	.	26.0	17.0	23.0	0.0	.	1822	.	.	Atlas-SNP
PARP11	57097	hgsc.bcm.edu	hg19	12	3939168	3939168	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	PARP11	NM_020367	exon2	c.C35G	p.A12G	TCTTCTGCTTTGT	.	178.0	77.0	126.0	0.0	.	39	.	.	Atlas-SNP
CHD4	1108	hgsc.bcm.edu	hg19	12	6710565	6710565	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	CHD4	NM_001273	exon6	c.C689T	p.A230V	GCTGCTGCCGCAG	.	74.0	25.0	53.0	0.0	.	539	.	.	Atlas-SNP
C2CD5	9847	hgsc.bcm.edu	hg19	12	22606893	22606893	+	Silent	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	.	NM_014802	exon24	c.G2808C	p.G936G	AGCATTCCCTCCT	.	220.0	83.0	91.0	0.0	.	.	.	.	Atlas-SNP
CCDC65	85478	hgsc.bcm.edu	hg19	12	49312509	49312509	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	CCDC65	NM_033124	exon6	c.C849A	p.S283R	ACACAGCCGTGAG	.	104.0	45.0	93.0	0.0	.	41	.	.	Atlas-SNP
MFSD5	84975	hgsc.bcm.edu	hg19	12	53647509	53647509	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	MFSD5	NM_001170790	exon2	c.C1211A	p.S404Y	GCTCTTCCCTGTA	.	141.0	52.0	62.0	0.0	.	40	.	.	Atlas-SNP
PTPRR	5801	hgsc.bcm.edu	hg19	12	71139795	71139795	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	PTPRR	NM_002849	exon6	c.C810T	p.H270H	CGATAGGTGGATC	.	697.0	276.0	302.0	0.0	.	109	.	.	Atlas-SNP
PLEKHG7	440107	hgsc.bcm.edu	hg19	12	93148009	93148009	+	Nonsense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	PLEKHG7	NM_001004330	exon6	c.C459G	p.Y153X	GATCTACTCCATC	.	111.0	40.0	63.0	0.0	.	38	.	.	Atlas-SNP
TMPO	7112	hgsc.bcm.edu	hg19	12	98938128	98938128	+	Splice_Site	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	TMPO	NM_001032283	exon5	c.783+1G>C	.	AAAAGGGTGATGC	.	140.0	51.0	65.0	0.0	.	111	.	.	Atlas-SNP
VPS33A	65082	hgsc.bcm.edu	hg19	12	122745969	122745969	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	VPS33A	NM_022916	exon4	c.G322C	p.D108H	GAAAATCTCTCGT	.	127.0	43.0	61.0	0.0	.	61	.	.	Atlas-SNP
SACS	26278	hgsc.bcm.edu	hg19	13	23905027	23905027	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	SACS	NM_014363	exon10	c.A12988G	p.R4330G	ACCGCCTAATAAT	.	271.0	14.0	139.0	0.0	.	871	.	.	Atlas-SNP
CCDC169-SOHLH2	100526761	hgsc.bcm.edu	hg19	13	36776092	36776092	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	.	NM_001198910	exon7	c.T418C	p.C140R	ATATGCAATCATC	.	130.0	49.0	56.0	0.0	.	.	.	.	Atlas-SNP
ARHGEF40	55701	hgsc.bcm.edu	hg19	14	21543017	21543017	+	Silent	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ARHGEF40	NM_018071	exon3	c.C1128G	p.G376G	AACAGGCAAAGGA	.	33.0	20.0	34.0	0.0	.	84	.	.	Atlas-SNP
NID2	22795	hgsc.bcm.edu	hg19	14	52509060	52509060	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	NID2	NM_007361	exon7	c.C1588A	p.H530N	CTCGGTGAGGTGC	.	68.0	34.0	23.0	0.0	.	201	.	.	Atlas-SNP
STON2	85439	hgsc.bcm.edu	hg19	14	81862242	81862242	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	STON2	NM_001256430	exon4	c.G369C	p.E123D	ACCTGTCTCAGCT	.	118.0	50.0	51.0	0.0	.	94	.	.	Atlas-SNP
GNB5	10681	hgsc.bcm.edu	hg19	15	52418147	52418147	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	GNB5	NM_016194	exon11	c.G1007T	p.S336I	TTACCACTGAGGG	.	213.0	79.0	76.0	0.0	.	28	.	.	Atlas-SNP
ATF7IP2	80063	hgsc.bcm.edu	hg19	16	10574815	10574815	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ATF7IP2	NM_001256160	exon11	c.A1562G	p.Q521R	AAATGCAGTCCAG	.	77.0	27.0	52.0	0.0	.	40	.	.	Atlas-SNP
SRCAP	10847	hgsc.bcm.edu	hg19	16	30724538	30724538	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	SRCAP	NM_006662	exon15	c.A2140T	p.K714X	TGGACCAAGCCCA	.	123.0	47.0	51.0	0.0	.	298	.	.	Atlas-SNP
TP53	7157	hgsc.bcm.edu	hg19	17	7578211	7578211	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	TP53_ENST00000545858,NS,adenocarcinoma,-1,1	TP53	NM_000546	exon6	c.G638A	p.R213Q	CTATGTCGAAAAG	.	90.0	57.0	76.0	0.0	.	33396	.	.	Atlas-SNP
TBC1D26	353149	hgsc.bcm.edu	hg19	17	15642108	15642108	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	TBC1D26	NM_178571	exon8	c.A461G	p.Q154R	CCCTGCAGAAACA	.	215.0	111.0	189.0	0.0	.	16	.	.	Atlas-SNP
ATAD5	79915	hgsc.bcm.edu	hg19	17	29162318	29162318	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ATAD5	NM_024857	exon2	c.T1219C	p.F407L	AAAGCATTTAGGC	.	152.0	55.0	103.0	0.0	.	150	.	.	Atlas-SNP
IGFBP4	3487	hgsc.bcm.edu	hg19	17	38600272	38600272	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	IGFBP4	NM_001552	exon1	c.C285A	p.H95Q	GATGCACGGGCAA	.	22.0	8.0	17.0	0.0	.	17	.	.	Atlas-SNP
ADAM11	4185	hgsc.bcm.edu	hg19	17	42855379	42855379	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ADAM11	NM_002390	exon24	c.T2130A	p.S710R	CTGCAGTATCCAT	.	62.0	29.0	40.0	0.0	.	118	.	.	Atlas-SNP
POTEC	388468	hgsc.bcm.edu	hg19	18	14542729	14542729	+	Silent	SNP	A	A	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	POTEC	NM_001137671	exon1	c.T417C	p.D139D	GTCCAGATCTTCT	.	906.0	360.0	327.0	0.0	.	129	.	.	Atlas-SNP
NEDD4L	23327	hgsc.bcm.edu	hg19	18	55996342	55996342	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	NEDD4L	NM_015277	exon10	c.G796C	p.G266R	TCGGAGGGCGGGG	.	63.0	28.0	57.0	0.0	.	126	.	.	Atlas-SNP
XAB2	56949	hgsc.bcm.edu	hg19	19	7687527	7687527	+	Silent	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	XAB2	NM_020196	exon11	c.C1392T	p.A464A	CCGGCGGGCAGGC	.	17.0	8.0	16.0	0.0	.	69	.	.	Atlas-SNP
ZNF700	90592	hgsc.bcm.edu	hg19	19	12059506	12059506	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ZNF700	NM_001271848	exon4	c.A676T	p.K226X	ACTTATAAATGTA	.	189.0	79.0	106.0	0.0	.	81	.	.	Atlas-SNP
ZNF208	7757	hgsc.bcm.edu	hg19	19	22156136	22156136	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ZNF208	NM_007153	exon4	c.C1700A	p.T567N	CTAAGGGTTGAGG	.	56.0	20.0	22.0	0.0	.	817	.	.	Atlas-SNP
SHKBP1	92799	hgsc.bcm.edu	hg19	19	41089323	41089323	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	SHKBP1	NM_138392	exon11	c.T980A	p.I327N	AGCCCATCACCAG	.	50.0	20.0	34.0	0.0	.	68	.	.	Atlas-SNP
CYP2A6	1548	hgsc.bcm.edu	hg19	19	41354534	41354534	+	Missense_Mutation	SNP	G	G	T	rs60563539		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	CYP2A6	NM_000762	exon3	c.C478A	p.L160I	CCCGGAGGGCGTC	.	63.0	7.0	56.0	0.0	.	69	.	.	Atlas-SNP
ZNF28	7576	hgsc.bcm.edu	hg19	19	53303182	53303182	+	Missense_Mutation	SNP	T	T	C	rs75548544		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ZNF28	NM_006969	exon4	c.A1916G	p.E639G	CCACACTCATTAC	.	249.0	11.0	99.0	0.0	.	191	.	.	Atlas-SNP
ZNF845	91664	hgsc.bcm.edu	hg19	19	53856410	53856410	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ZNF845	NM_138374	exon4	c.G2482A	p.E828K	AGTGGAGAGAAAC	.	197.0	96.0	109.0	0.0	.	101	.	.	Atlas-SNP
CST11	140880	hgsc.bcm.edu	hg19	20	23431159	23431159	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	CST11	NM_130794	exon3	c.G401C	p.S134T	CTGCAGCTTTTGT	.	148.0	64.0	91.0	0.0	.	27	.	.	Atlas-SNP
MYBL2	4605	hgsc.bcm.edu	hg19	20	42331511	42331511	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	MYBL2	NM_002466	exon8	c.C1333G	p.P445A	AGCACACCTGTTA	.	124.0	39.0	70.0	0.0	.	82	.	.	Atlas-SNP
PMEPA1	56937	hgsc.bcm.edu	hg19	20	56227217	56227217	+	Silent	SNP	C	C	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	PMEPA1	NM_020182	exon4	c.G756T	p.P252P	GGAGGGCGGCCCA	.	46.0	20.0	43.0	0.0	.	29	.	.	Atlas-SNP
CHDC2	286464	hgsc.bcm.edu	hg19	X	36122659	36122659	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	.	NM_173695	exon8	c.T896C	p.M299T	ATAATATGCCCCC	.	473.0	21.0	231.0	0.0	.	.	.	.	Atlas-SNP
ACRC	93953	hgsc.bcm.edu	hg19	X	70824010	70824010	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ACRC	NM_052957	exon8	c.T883C	p.S295P	GAAGCTTCCGACG	.	168.0	14.0	35.0	0.0	.	110	.	.	Atlas-SNP
DRP2	1821	hgsc.bcm.edu	hg19	X	100513348	100513348	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	DRP2	NM_001939	exon22	c.C2441G	p.A814G	AGGCAGCTGAGGC	.	221.0	135.0	51.0	0.0	.	98	.	.	Atlas-SNP
ACTRT1	139741	hgsc.bcm.edu	hg19	X	127185963	127185963	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ACTRT1	NM_138289	exon1	c.G223A	p.E75K	CACGCTCAATGGG	.	322.0	215.0	56.0	0.0	.	92	.	.	Atlas-SNP
BRCC3	79184	hgsc.bcm.edu	hg19	X	154299926	154299926	+	Splice_Site	SNP	G	G	A	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	BRCC3	NM_001018055	exon1	c.123+1G>A	.	GGGGAGGTGAGTA	.	146.0	42.0	18.0	0.0	.	44	.	.	Atlas-SNP
PHKA1	5255	hgsc.bcm.edu	hg19	X	71800935	71800936	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	PHKA1	NM_002637	exon32	c.3589_3590insG	p.F1197fs	.	.	263.0	26.0	57.0	0.0	.	129	.	.	Atlas-INDEL
CTNNB1	1499	hgsc.bcm.edu	hg19	3	41266132	41266133	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	CTNNB1,NS,carcinoma,+1,1	CTNNB1	NM_001098210	exon3	c.129_130insC	p.A43fs	.	.	229.0	29.0	102.0	0.0	.	4904	.	.	Atlas-INDEL
VIM	7431	hgsc.bcm.edu	hg19	10	17277290	17277291	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	VIM,NS,carcinoma,0,1	VIM	NM_003380	exon7	c.1131_1132insC	p.A377fs	.	.	127.0	10.0	63.0	0.0	.	71	.	.	Atlas-INDEL
FAM160B1	57700	hgsc.bcm.edu	hg19	10	116595358	116595359	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	FAM160B1	NM_020940	exon4	c.357_358insC	p.R119fs	.	.	91.0	10.0	53.0	0.0	.	107	.	.	Atlas-INDEL
SFPQ	6421	hgsc.bcm.edu	hg19	1	35654866	35654867	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	SFPQ	NM_005066	exon5	c.1533_1534insA	p.N511fs	.	.	711.0	262.0	262.0	0.0	.	51	.	.	Atlas-Indel,Pindel
ANK1	286	hgsc.bcm.edu	hg19	8	41573290	41573290	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ANK1	NM_001142446	exon14	c.1582delA	p.N528fs	.	.	144.0	68.0	69.0	0.0	.	497	.	.	Atlas-Indel,Pindel
TTN	7273	hgsc.bcm.edu	hg19	2	179633434	179633435	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	TTN	NM_001256850	exon38	c.9129_9130insG	p.G3043fs	.	.	258.0	27.0	93.0	0.0	.	18412	.	.	Atlas-INDEL
DCAF4L2	138009	hgsc.bcm.edu	hg19	8	88885245	88885246	+	Frame_Shift_Del	DEL	GT	GT	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	GT	GT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	DCAF4L2	NM_152418	exon1	c.955_956del	p.319_319del	.	.	213.0	27.0	113.0	0.0	.	187	.	.	Atlas-INDEL
ITIH2	3698	hgsc.bcm.edu	hg19	10	7773850	7773850	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ITIH2	NM_002216	exon13	c.1537delG	p.V513fs	.	.	81.0	39.0	53.0	0.0	.	144	.	.	Atlas-Indel,Pindel
ABHD10	55347	hgsc.bcm.edu	hg19	3	111710276	111710279	+	Frame_Shift_Del	DEL	CTGA	CTGA	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	CTGA	CTGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ABHD10	NM_018394	exon5	c.628_631del	p.210_211del	.	.	208.0	83.0	96.0	0.0	.	20	.	.	Atlas-Indel,Pindel
ZNF536	9745	hgsc.bcm.edu	hg19	19	30936253	30936254	+	Frame_Shift_Ins	INS	-	-	AAGT	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ZNF536	NM_014717	exon2	c.1784_1785insAAGT	p.P595fs	.	.	70.0	12.0	52.0	0.0	.	424	.	.	Atlas-Indel,Pindel
MLL2	8085	hgsc.bcm.edu	hg19	12	49449093	49449100	+	Frame_Shift_Del	DEL	CTTCTGGC	CTTCTGGC	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	CTTCTGGC	CTTCTGGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	MLL2	NM_003482	exon1	c.9_16del	p.3_6del	.	.	80.0	26.0	93.0	0.0	.	1173	.	.	Atlas-INDEL
SYT12	91683	hgsc.bcm.edu	hg19	11	66807406	66807406	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	SYT12,NS,carcinoma,0,1	SYT12	NM_177963	exon4	c.352delC	p.R118fs	.	.	66.0	21.0	46.0	0.0	.	60	.	.	Atlas-INDEL
APLN	8862	hgsc.bcm.edu	hg19	X	128782634	128782635	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	APLN	NM_017413	exon2	c.203_204insC	p.R68fs	.	.	267.0	19.0	40.0	0.0	.	1	.	.	Atlas-INDEL
DCAF4L2	138009	hgsc.bcm.edu	hg19	8	88885240	88885242	+	In_Frame_Del	DEL	CAC	CAC	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	CAC	CAC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	DCAF4L2	NM_152418	exon1	c.959_961del	p.320_321del	.	.	198.0	26.0	110.0	0.0	.	187	.	.	Atlas-INDEL
ZFX	7543	hgsc.bcm.edu	hg19	X	24227055	24227104	+	Frame_Shift_Del	DEL	GCAAGTGCCCTCTTGCACATAGATGAGTCTGCTGGCCTCGGCAGACTGGC	GCAAGTGCCCTCTTGCACATAGATGAGTCTGCTGGCCTCGGCAGACTGGC	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	GCAAGTGCCCTCTTGCACATAGATGAGTCTGCTGGCCTCGGCAGACTGGC	GCAAGTGCCCTCTTGCACATAGATGAGTCTGCTGGCCTCGGCAGACTGGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ZFX	NM_003410	exon9	c.1131_1180del	p.377_394del	.	.	45.0	18.0	106.0	0.0	.	61	.	.	Atlas-Indel,Pindel
NUDT14	256281	hgsc.bcm.edu	hg19	14	105643003	105643004	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	NUDT14	NM_177533	exon4	c.296_297insG	p.V99fs	.	.	48.0	18.0	48.0	0.0	.	24	.	.	Atlas-Indel,Pindel
TRIM13	10206	hgsc.bcm.edu	hg19	13	50589145	50589146	+	RNA	INS	-	-	T	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	TRIM13	.	.	.	.	.	.	53.0	18.0	28.0	0.0	.	30	.	.	Atlas-Indel,Pindel
KANK4	163782	hgsc.bcm.edu	hg19	1	62718788	62718789	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	KANK4	NM_181712	exon8	c.2633_2634insG	p.V878fs	.	.	154.0	10.0	55.0	0.0	.	135	.	.	Atlas-INDEL
C7orf61	402573	hgsc.bcm.edu	hg19	7	100054424	100054425	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	C7orf61	NM_001004323	exon3	c.572_573insC	p.R191fs	.	.	96.0	19.0	29.0	0.0	.	12	.	.	Atlas-Indel,Pindel
PIEZO2	63895	hgsc.bcm.edu	hg19	18	10696431	10696440	+	Frame_Shift_Del	DEL	CAGTGTCAGC	CAGTGTCAGC	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	CAGTGTCAGC	CAGTGTCAGC	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	.	NM_022068	exon42	c.6587_6596del	p.2196_2199del	.	.	96.0	19.0	67.0	0.0	.	.	.	.	Atlas-Indel,Pindel
ZNF142	7701	hgsc.bcm.edu	hg19	2	219509578	219509579	+	Frame_Shift_Ins	INS	-	-	GG	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	ZNF142	NM_001105537	exon8	c.1661_1662insCC	p.R554fs	.	.	231.0	19.0	119.0	0.0	.	190	.	.	Atlas-INDEL
SYT12	91683	hgsc.bcm.edu	hg19	11	66807407	66807409	+	In_Frame_Del	DEL	GGA	GGA	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	GGA	GGA	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	SYT12	NM_177963	exon4	c.353_355del	p.118_119del	.	.	70.0	20.0	47.0	0.0	.	60	.	.	Pindel
DCAF4L2	138009	hgsc.bcm.edu	hg19	8	88885237	88885246	+	Frame_Shift_Del	DEL	ATGCACGGGT	ATGCACGGGT	-	novel		TCGA-BC-A10U-01A-11D-A12Z-10	TCGA-BC-A10U-11A-11D-A12Z-10	ATGCACGGGT	ATGCACGGGT	.	.	.	.	Unknown	Untested	Somatic	PhaseI	WXS	none	.	.	Illumina HiSeq	a85cabff-e8dc-440a-90f5-4fca51c33dd9	33582c29-22ba-4b6d-b59e-89d662e0486d	.	DCAF4L2	NM_152418	exon1	c.955_964del	p.319_322del	.	.	209.0	22.0	111.0	0.0	.	187	.	.	Pindel