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
RBL2	5934	hgsc.bcm.edu	37	16	53513829	53513830	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RBL2	NM_005611	exon19	c.2807_2808insA	p.R936fs	.	.	151.0	10.0	269.0	0.0	.	.	.	.	.
CEP85L	387119	hgsc.bcm.edu	37	6	118886846	118886847	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_001178035	exon4	c.875_876insT	p.P292fs	.	.	300.0	27.0	287.0	0.0	.	.	.	.	.
CMTM1	113540	hgsc.bcm.edu	37	16	66600574	66600575	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CMTM1	NM_181268	exon1	c.158_159insC	p.H53fs	.	.	139.0	10.0	209.0	0.0	.	.	.	.	.
MLL2	8085	hgsc.bcm.edu	37	12	49425625	49425626	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	MLL2	NM_003482	exon39	c.12863_12864insC	p.R4288fs	.	.	165.0	11.0	239.0	0.0	.	.	.	.	.
FAM160A2	84067	hgsc.bcm.edu	37	11	6238840	6238841	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	FAM160A2	NM_032127	exon9	c.2018_2019insG	p.E673fs	.	.	157.0	11.0	297.0	0.0	.	.	.	.	.
TERF1	7013	hgsc.bcm.edu	37	8	73951354	73951355	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	TERF1	NM_017489	exon9	c.1043_1044insA	p.T348fs	.	.	135.0	11.0	102.0	0.0	.	.	.	.	.
PRPF39	55015	hgsc.bcm.edu	37	14	45564691	45564692	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PRPF39	NM_017922	exon2	c.249_250insT	p.K83fs	.	.	166.0	10.0	176.0	0.0	.	.	.	.	.
GLA	2717	hgsc.bcm.edu	37	X	100655664	100655678	+	In_Frame_Del	DEL	GGCCACATATAAAGA	GGCCACATATAAAGA	-	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	GGCCACATATAAAGA	GGCCACATATAAAGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	GLA	NM_000169	exon4	c.616_630del	p.206_210del	.	.	110.0	11.0	115.0	0.0	.	.	.	.	.
APEX1	328	hgsc.bcm.edu	37	14	20925388	20925389	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	APEX1	NM_080648	exon5	c.678_679insA	p.N226fs	.	.	169.0	12.0	206.0	0.0	.	.	.	.	.
DDX3X	1654	hgsc.bcm.edu	37	X	41205635	41205636	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	DDX3X	NM_001193416	exon13	c.1469_1470insA	p.G490fs	.	.	177.0	11.0	153.0	0.0	.	.	.	.	.
GP6	51206	hgsc.bcm.edu	37	19	55539031	55539040	+	Frame_Shift_Del	DEL	GCTGTGGGCG	GCTGTGGGCG	-	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	GCTGTGGGCG	GCTGTGGGCG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	GP6	NM_016363	exon4	c.517_526del	p.173_176del	.	.	82.0	11.0	108.0	0.0	.	.	.	.	.
JAK2	3717	hgsc.bcm.edu	37	9	5069192	5069193	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	JAK2	NM_004972	exon11	c.1497_1498insC	p.C499fs	.	.	178.0	12.0	195.0	0.0	.	.	.	.	.
PCNT	5116	hgsc.bcm.edu	37	21	47819683	47819684	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PCNT	NM_006031	exon25	c.4764_4765insA	p.Q1588fs	.	.	207.0	13.0	237.0	0.0	.	.	.	.	.
RP1	6101	hgsc.bcm.edu	37	8	55542461	55542462	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RP1	NM_006269	exon4	c.6019_6020insA	p.Q2007fs	.	.	188.0	13.0	208.0	0.0	.	.	.	.	.
PLCH1	23007	hgsc.bcm.edu	37	3	155200477	155200478	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PLCH1	NM_001130960	exon23	c.3362_3363insA	p.S1121fs	.	.	183.0	11.0	210.0	0.0	.	.	.	.	.
KCNN3	3782	hgsc.bcm.edu	37	1	154842187	154842188	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	KCNN3	NM_001204087	exon1	c.254_255insC	p.L85fs	.	.	149.0	10.0	66.0	0.0	.	.	.	.	.
CCDC168	643677	hgsc.bcm.edu	37	13	103396690	103396691	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_001146197	exon4	c.6357_6358insA	p.N2119fs	.	.	155.0	10.0	177.0	0.0	.	.	.	.	.
PRAMEF9	343070	hgsc.bcm.edu	37	1	13427643	13427644	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_001010890	exon4	c.1221_1222insA	p.L407fs	.	.	133.0	10.0	233.0	0.0	.	.	.	.	.
ARHGAP32	9743	hgsc.bcm.edu	37	11	128842442	128842443	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ARHGAP32	NM_001142685	exon21	c.3917_3918insC	p.L1306fs	.	.	169.0	10.0	227.0	0.0	.	.	.	.	.
SLC38A10	124565	hgsc.bcm.edu	37	17	79226065	79226066	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SLC38A10	NM_001037984	exon13	c.1875_1876insA	p.K625fs	.	.	132.0	11.0	114.0	0.0	.	.	.	.	.
ADH1A	124	hgsc.bcm.edu	37	4	100205756	100205757	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ADH1A	NM_000667	exon5	c.367_368insG	p.T123fs	.	.	181.0	11.0	210.0	0.0	.	.	.	.	.
TCP10	6953	hgsc.bcm.edu	37	6	167790069	167790070	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	TCP10	NM_004610	exon5	c.541_542insC	p.G181fs	.	.	336.0	22.0	294.0	0.0	.	.	.	.	.
IL6R	3570	hgsc.bcm.edu	37	1	154437759	154437760	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	IL6R	NM_000565	exon10	c.1310_1311insG	p.L437fs	.	.	172.0	11.0	158.0	0.0	.	.	.	.	.
PDZD2	23037	hgsc.bcm.edu	37	5	32058103	32058104	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PDZD2	NM_178140	exon11	c.2094_2095insG	p.S698fs	.	.	201.0	13.0	223.0	0.0	.	.	.	.	.
ARID2	196528	hgsc.bcm.edu	37	12	46246025	46246026	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ARID2	NM_152641	exon15	c.4119_4120insA	p.S1373fs	.	.	198.0	12.0	165.0	0.0	.	.	.	.	.
CCDC168	643677	hgsc.bcm.edu	37	13	103393521	103393522	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_001146197	exon4	c.9526_9527insA	p.L3176fs	.	.	127.0	11.0	120.0	0.0	.	.	.	.	.
EBLN2	55096	hgsc.bcm.edu	37	3	73111508	73111509	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_018029	exon1	c.276_277insC	p.E92fs	.	.	148.0	10.0	151.0	0.0	.	.	.	.	.
CBX4	8535	hgsc.bcm.edu	37	17	77808830	77808831	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CBX4	NM_003655	exon5	c.611_612insG	p.A204fs	.	.	206.0	12.0	78.0	0.0	.	.	.	.	.
POTEM	641455	hgsc.bcm.edu	37	14	20019862	20019863	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_001145442	exon1	c.359_360insT	p.W120fs	.	.	119.0	22.0	138.0	0.0	.	.	.	.	.
FSIP2	401024	hgsc.bcm.edu	37	2	186673386	186673387	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	FSIP2	NM_173651	exon17	c.19620_19621insA	p.P6540fs	.	.	167.0	11.0	132.0	0.0	.	.	.	.	.
MIR122	406906	hgsc.bcm.edu	37	18	56118310	56118312	+	RNA	DEL	AGC	AGC	-	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	AGC	AGC	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	.	.	.	.	.	.	69.0	39.0	130.0	0.0	.	.	.	.	.
TRIM13	10206	hgsc.bcm.edu	37	13	50591338	50591339	+	RNA	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	TRIM13	.	.	.	.	.	.	145.0	14.0	138.0	0.0	.	.	.	.	.
PRDX2	7001	hgsc.bcm.edu	37	19	12911099	12911100	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PRDX2	NM_005809	exon4	c.272_273insC	p.I91fs	.	.	184.0	11.0	212.0	0.0	.	.	.	.	.
UNKL	64718	hgsc.bcm.edu	37	16	1417771	1417772	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	UNKL	NM_001193388	exon13	c.1674_1675insC	p.P558fs	.	.	185.0	11.0	196.0	0.0	.	.	.	.	.
CPNE5	57699	hgsc.bcm.edu	37	6	36710124	36710124	+	Frame_Shift_Del	DEL	G	G	-	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CPNE5	NM_020939	exon21	c.1704delA	p.P568fs	.	.	91.0	23.0	110.0	0.0	.	.	.	.	.
NUDT17	200035	hgsc.bcm.edu	37	1	145587383	145587384	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	NUDT17	NM_001012758	exon6	c.697_698insC	p.G233fs	.	.	127.0	10.0	97.0	0.0	.	.	.	.	.
PI4KAP2	375133	hgsc.bcm.edu	37	22	21838338	21838339	+	RNA	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PI4KAP2	.	.	.	.	.	.	138.0	12.0	115.0	0.0	.	.	.	.	.
KIAA1755	85449	hgsc.bcm.edu	37	20	36869926	36869927	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	KIAA1755	NM_001029864	exon3	c.607_608insG	p.P203fs	.	.	181.0	12.0	198.0	0.0	.	.	.	.	.
ABCD2	225	hgsc.bcm.edu	37	12	40013265	40013266	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ABCD2	NM_005164	exon1	c.153_154insA	p.K51fs	.	.	166.0	10.0	163.0	0.0	.	.	.	.	.
EBLN2	55096	hgsc.bcm.edu	37	3	73111541	73111542	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_018029	exon1	c.309_310insA	p.I103fs	.	.	195.0	13.0	231.0	0.0	.	.	.	.	.
CYLC2	1539	hgsc.bcm.edu	37	9	105767323	105767324	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CYLC2	NM_001340	exon5	c.410_411insA	p.G137fs	.	.	208.0	13.0	244.0	0.0	.	.	.	.	.
CASP8AP2	9994	hgsc.bcm.edu	37	6	90577003	90577004	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CASP8AP2	NM_001137667	exon8	c.3994_3995insA	p.E1332fs	.	.	168.0	10.0	145.0	0.0	.	.	.	.	.
PLEKHA5	54477	hgsc.bcm.edu	37	12	19427544	19427545	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PLEKHA5	NM_001256470	exon11	c.940_941insA	p.Q314fs	.	.	145.0	10.0	133.0	0.0	.	.	.	.	.
KAT6B	23522	hgsc.bcm.edu	37	10	76735587	76735588	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_012330	exon8	c.1492_1493insC	p.T498fs	.	.	118.0	10.0	130.0	0.0	.	.	.	.	.
B4GALT3	8703	hgsc.bcm.edu	37	1	161143503	161143504	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	B4GALT3	NM_003779	exon6	c.695_696insC	p.Q232fs	.	.	147.0	11.0	130.0	0.0	.	.	.	.	.
OR6X1	390260	hgsc.bcm.edu	37	11	123624382	123624383	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	OR6X1	NM_001005188	exon1	c.845_846insC	p.L282fs	.	.	144.0	10.0	168.0	0.0	.	.	.	.	.
TTC40	54777	hgsc.bcm.edu	37	10	134726617	134726618	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_001200049	exon18	c.2266_2267insG	p.R756fs	.	.	126.0	10.0	166.0	0.0	.	.	.	.	.
CELSR1	9620	hgsc.bcm.edu	37	22	46930690	46930691	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CELSR1	NM_014246	exon1	c.2378_2379insC	p.H793fs	.	.	167.0	10.0	139.0	0.0	.	.	.	.	.
HIVEP2	3097	hgsc.bcm.edu	37	6	143094744	143094745	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	HIVEP2	NM_006734	exon5	c.1132_1133insA	p.G378fs	.	.	299.0	18.0	284.0	0.0	.	.	.	.	.
SAMD15	161394	hgsc.bcm.edu	37	14	77844867	77844868	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SAMD15	NM_001010860	exon1	c.1106_1107insG	p.E369fs	.	.	215.0	17.0	222.0	0.0	.	.	.	.	.
ERI2	112479	hgsc.bcm.edu	37	16	20809480	20809481	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ERI2	NM_001142725	exon9	c.1642_1643insA	p.Q548fs	.	.	155.0	10.0	114.0	0.0	.	.	.	.	.
MIR92B	693235	hgsc.bcm.edu	37	1	155165011	155165012	+	RNA	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	.	.	.	.	.	.	263.0	16.0	46.0	0.0	.	.	.	.	.
NANOGNB	360030	hgsc.bcm.edu	37	12	7922711	7922712	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_001145465	exon2	c.235_236insA	p.E79fs	.	.	163.0	10.0	156.0	0.0	.	.	.	.	.
ETV3L	440695	hgsc.bcm.edu	37	1	157067713	157067714	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ETV3L	NM_001004341	exon4	c.554_555insC	p.R185fs	.	.	184.0	12.0	169.0	0.0	.	.	.	.	.
RAD51	5888	hgsc.bcm.edu	37	15	41022163	41022164	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RAD51	NM_133487	exon9	c.890_891insA	p.S297fs	.	.	164.0	10.0	185.0	0.0	.	.	.	.	.
RRP12	23223	hgsc.bcm.edu	37	10	99116875	99116876	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RRP12	NM_015179	exon34	c.3870_3871insA	p.N1290fs	.	.	118.0	10.0	104.0	0.0	.	.	.	.	.
FCGBP	8857	hgsc.bcm.edu	37	19	40400622	40400623	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	FCGBP	NM_003890	exon12	c.5467_5468insC	p.N1823fs	.	.	226.0	14.0	256.0	0.0	.	.	.	.	.
ATP6V1D	51382	hgsc.bcm.edu	37	14	67819690	67819691	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ATP6V1D	NM_015994	exon2	c.109_110insA	p.S37fs	.	.	184.0	11.0	202.0	0.0	.	.	.	.	.
FILIP1L	11259	hgsc.bcm.edu	37	3	99568989	99568990	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	FILIP1L	NM_182909	exon5	c.1531_1532insA	p.L511fs	.	.	232.0	15.0	276.0	0.0	.	.	.	.	.
WDTC1	23038	hgsc.bcm.edu	37	1	27622887	27622888	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	WDTC1	NM_015023	exon10	c.944_945insG	p.S315fs	.	.	237.0	17.0	415.0	0.0	.	.	.	.	.
RNU6-71	100873774	hgsc.bcm.edu	37	6	56472828	56472829	+	RNA	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	.	.	.	.	.	.	191.0	13.0	153.0	0.0	.	.	.	.	.
OR2A12	346525	hgsc.bcm.edu	37	7	143792820	143792821	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	OR2A12	NM_001004135	exon1	c.620_621insG	p.V207fs	.	.	143.0	10.0	133.0	0.0	.	.	.	.	.
BMPR2	659	hgsc.bcm.edu	37	2	203420129	203420130	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	BMPR2	NM_001204	exon12	c.1741_1742insA	p.E581fs	.	.	184.0	12.0	178.0	0.0	.	.	.	.	.
THRAP3	9967	hgsc.bcm.edu	37	1	36755000	36755001	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	THRAP3	NM_005119	exon5	c.1380_1381insA	p.N460fs	.	.	128.0	10.0	126.0	0.0	.	.	.	.	.
SLCO1A2	6579	hgsc.bcm.edu	37	12	21453394	21453395	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SLCO1A2	NM_134431	exon9	c.798_799insT	p.L266fs	.	.	214.0	13.0	188.0	0.0	.	.	.	.	.
ANKRD12	23253	hgsc.bcm.edu	37	18	9255075	9255076	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ANKRD12	NM_015208	exon9	c.1810_1811insA	p.E604fs	.	.	198.0	14.0	280.0	0.0	.	.	.	.	.
CYLC1	1538	hgsc.bcm.edu	37	X	83128980	83128981	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	CYLC1,NS,malignant_melanoma,0	CYLC1	NM_021118	exon4	c.1264_1265insA	p.E422fs	.	.	149.0	10.0	136.0	0.0	.	.	.	.	.
DOPEY1	23033	hgsc.bcm.edu	37	6	83847672	83847673	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	DOPEY1	NM_015018	exon21	c.3911_3912insA	p.R1304fs	.	.	144.0	11.0	132.0	0.0	.	.	.	.	.
DLK2	65989	hgsc.bcm.edu	37	6	43418412	43418413	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	DLK2	NM_023932	exon6	c.1017_1018insC	p.P339fs	.	.	143.0	12.0	182.0	0.0	.	.	.	.	.
PSMD13	5719	hgsc.bcm.edu	37	11	244104	244105	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PSMD13	NM_175932	exon2	c.159_160insG	p.F53fs	.	.	154.0	10.0	180.0	0.0	.	.	.	.	.
C11orf86	254439	hgsc.bcm.edu	37	11	66742903	66742904	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	C11orf86	NM_001136485	exon1	c.70_71insG	p.W24fs	.	.	178.0	11.0	125.0	0.0	.	.	.	.	.
TMED9	54732	hgsc.bcm.edu	37	5	177019352	177019354	+	In_Frame_Del	DEL	AGA	AGA	-	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	AGA	AGA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	TMED9	NM_017510	exon1	c.136_138del	p.46_46del	.	.	246.0	34.0	280.0	0.0	.	.	.	.	.
LCE1C	353133	hgsc.bcm.edu	37	1	152777757	152777758	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	LCE1C	NM_178351	exon2	c.198_199insG	p.G66fs	.	.	161.0	10.0	150.0	0.0	.	.	.	.	.
TTF1	7270	hgsc.bcm.edu	37	9	135277201	135277202	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	TTF1	NM_007344	exon2	c.1008_1009insA	p.K336fs	.	.	151.0	10.0	164.0	0.0	.	.	.	.	.
AUTS2	26053	hgsc.bcm.edu	37	7	70255627	70255627	+	Frame_Shift_Del	DEL	A	A	-	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	AUTS2	NM_015570	exon19	c.3424delG	p.E1142fs	.	.	58.0	13.0	64.0	0.0	.	.	.	.	.
NAPA	8775	hgsc.bcm.edu	37	19	47995348	47995349	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	NAPA	NM_003827	exon8	c.590_591insC	p.L197fs	.	.	158.0	13.0	145.0	0.0	.	.	.	.	.
RXFP4	339403	hgsc.bcm.edu	37	1	155912224	155912225	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RXFP4	NM_181885	exon1	c.724_725insG	p.R242fs	.	.	158.0	10.0	149.0	0.0	.	.	.	.	.
ANKRD26	22852	hgsc.bcm.edu	37	10	27324037	27324038	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ANKRD26	NM_014915	exon24	c.3342_3343insA	p.K1114fs	.	.	178.0	12.0	159.0	0.0	.	.	.	.	.
XIRP2	129446	hgsc.bcm.edu	37	2	168104502	168104503	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	XIRP2	NM_152381	exon9	c.6600_6601insA	p.K2200fs	.	.	172.0	11.0	153.0	0.0	.	.	.	.	.
KCTD4	386618	hgsc.bcm.edu	37	13	45768382	45768383	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	KCTD4	NM_198404	exon2	c.321_322insA	p.N107fs	.	.	175.0	11.0	241.0	0.0	.	.	.	.	.
ERMAP	114625	hgsc.bcm.edu	37	1	43304572	43304573	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ERMAP	NM_018538	exon7	c.617_618insA	p.G206fs	.	.	182.0	11.0	186.0	0.0	.	.	.	.	.
C11orf57	55216	hgsc.bcm.edu	37	11	111953315	111953316	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	C11orf57	NM_001082969	exon6	c.501_502insA	p.H167fs	.	.	242.0	15.0	305.0	0.0	.	.	.	.	.
PLEKHA8P1	51054	hgsc.bcm.edu	37	12	45567240	45567241	+	RNA	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PLEKHA8P1	.	.	.	.	.	.	163.0	10.0	180.0	0.0	.	.	.	.	.
NBR1	4077	hgsc.bcm.edu	37	17	41352494	41352495	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	NBR1	NM_031862	exon17	c.2337_2338insG	p.A779fs	.	.	93.0	10.0	76.0	0.0	.	.	.	.	.
POP1	10940	hgsc.bcm.edu	37	8	99148886	99148887	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	POP1	NM_001145860	exon8	c.1188_1189insA	p.I396fs	.	.	149.0	12.0	139.0	0.0	.	.	.	.	.
CCDC168	643677	hgsc.bcm.edu	37	13	103397069	103397070	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_001146197	exon4	c.5978_5979insA	p.M1993fs	.	.	188.0	15.0	220.0	0.0	.	.	.	.	.
ZNF217	7764	hgsc.bcm.edu	37	20	52199201	52199202	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ZNF217	NM_006526	exon1	c.165_166insA	p.N55fs	.	.	155.0	10.0	151.0	0.0	.	.	.	.	.
KRTAP5-1	387264	hgsc.bcm.edu	37	11	1605983	1605984	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	KRTAP5-1	NM_001005922	exon1	c.497_498insG	p.A166fs	.	.	135.0	10.0	248.0	0.0	.	.	.	.	.
LRP12	29967	hgsc.bcm.edu	37	8	105509428	105509429	+	Frame_Shift_Ins	INS	-	-	A	rs35928649		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	LRP12	NM_013437	exon5	c.1352_1353insT	p.C451fs	.	.	156.0	12.0	208.0	0.0	.	.	.	.	.
TPRX1	284355	hgsc.bcm.edu	37	19	48305271	48305272	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	TPRX1	NM_198479	exon2	c.997_998insC	p.L333fs	.	.	160.0	10.0	122.0	0.0	.	.	.	.	.
HELLS	3070	hgsc.bcm.edu	37	10	96322576	96322577	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	HELLS	NM_018063	exon6	c.378_379insA	p.R126fs	.	.	271.0	19.0	240.0	0.0	.	.	.	.	.
C6orf62	81688	hgsc.bcm.edu	37	6	24706479	24706480	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	C6orf62	NM_030939	exon5	c.576_577insA	p.N192fs	.	.	179.0	11.0	129.0	0.0	.	.	.	.	.
TSHR	7253	hgsc.bcm.edu	37	14	81609512	81609513	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	TSHR	NM_000369	exon10	c.1110_1111insA	p.L370fs	.	.	188.0	12.0	213.0	0.0	.	.	.	.	.
WARS	7453	hgsc.bcm.edu	37	14	100808872	100808873	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	WARS	NM_004184	exon9	c.976_977insC	p.R326fs	.	.	208.0	15.0	249.0	0.0	.	.	.	.	.
IPO7	10527	hgsc.bcm.edu	37	11	9463685	9463693	+	In_Frame_Del	DEL	AACAAAGAA	AACAAAGAA	-	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	AACAAAGAA	AACAAAGAA	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	IPO7	NM_006391	exon24	c.2959_2967del	p.987_989del	.	.	311.0	21.0	361.0	0.0	.	.	.	.	.
HFM1	164045	hgsc.bcm.edu	37	1	91742600	91742600	+	Frame_Shift_Del	DEL	T	T	-	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	HFM1	NM_001017975	exon31	c.3412delC	p.P1138fs	.	.	310.0	77.0	313.0	0.0	.	.	.	.	.
OR6C4	341418	hgsc.bcm.edu	37	12	55945306	55945307	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	OR6C4	NM_001005494	exon1	c.296_297insT	p.Y99fs	.	.	218.0	18.0	206.0	0.0	.	.	.	.	.
PTEN	5728	hgsc.bcm.edu	37	10	89720665	89720666	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	PTEN,NS,carcinoma,+2	PTEN	NM_000314	exon8	c.816_817insT	p.H272fs	.	.	218.0	15.0	139.0	0.0	.	.	.	.	.
NLRP1	22861	hgsc.bcm.edu	37	17	5462267	5462268	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	NLRP1	NM_033007	exon4	c.1749_1750insA	p.K583fs	.	.	158.0	10.0	219.0	0.0	.	.	.	.	.
SVOPL	136306	hgsc.bcm.edu	37	7	138312995	138312996	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SVOPL	NM_001139456	exon10	c.977_978insG	p.D326fs	.	.	131.0	12.0	139.0	0.0	.	.	.	.	.
AXDND1	126859	hgsc.bcm.edu	37	1	179437688	179437689	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	AXDND1	NM_144696	exon17	c.1909_1910insA	p.E637fs	.	.	221.0	15.0	149.0	0.0	.	.	.	.	.
AGXT2L2	85007	hgsc.bcm.edu	37	5	177642304	177642305	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	AGXT2L2	NM_153373	exon9	c.1055_1056insA	p.I352fs	.	.	246.0	16.0	215.0	0.0	.	.	.	.	.
ELF1	1997	hgsc.bcm.edu	37	13	41507921	41507922	+	Frame_Shift_Ins	INS	-	-	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ELF1	NM_172373	exon9	c.1500_1501insG	p.G500fs	.	.	179.0	11.0	207.0	0.0	.	.	.	.	.
AGTPBP1	23287	hgsc.bcm.edu	37	9	88247814	88247815	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	AGTPBP1	NM_015239	exon14	c.1658_1659insT	p.C553fs	.	.	163.0	12.0	199.0	0.0	.	.	.	.	.
ERAP1	51752	hgsc.bcm.edu	37	5	96132948	96132949	+	In_Frame_Ins	INS	-	-	TCATCTTCA	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ERAP1	NM_001198541	exon4	c.728_729insTGAAGATGA	p.S243delinsMKMS	.	.	239.0	20.0	281.0	0.0	.	.	.	.	.
PJA1	64219	hgsc.bcm.edu	37	X	68382256	68382257	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PJA1	NM_145119	exon2	c.826_827insT	p.D276_T277delinsX	.	.	152.0	10.0	127.0	0.0	.	.	.	.	.
RAPGEF1	2889	hgsc.bcm.edu	37	9	134501450	134501451	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RAPGEF1	NM_198679	exon10	c.1564_1565insC	p.Y522fs	.	.	157.0	10.0	199.0	0.0	.	.	.	.	.
LCE1D	353134	hgsc.bcm.edu	37	1	152770450	152770451	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	LCE1D	NM_178352	exon2	c.180_181insG	p.S60fs	.	.	128.0	11.0	131.0	0.0	.	.	.	.	.
THRB	7068	hgsc.bcm.edu	37	3	24164402	24164403	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	THRB	NM_000461	exon10	c.1359_1360insC	p.P453fs	.	.	119.0	10.0	162.0	0.0	.	.	.	.	.
ADAM15	8751	hgsc.bcm.edu	37	1	155029712	155029713	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ADAM15	NM_001261464	exon12	c.1227_1228insA	p.E409fs	.	.	157.0	11.0	76.0	0.0	.	.	.	.	.
SPTY2D1	144108	hgsc.bcm.edu	37	11	18637172	18637173	+	Frame_Shift_Ins	INS	-	-	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SPTY2D1	NM_194285	exon3	c.649_650insA	p.L217fs	.	.	253.0	16.0	294.0	0.0	.	.	.	.	.
DCHS2	54798	hgsc.bcm.edu	37	4	155157446	155157447	+	Frame_Shift_Del	DEL	AG	AG	-	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	AG	AG	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	DCHS2	NM_017639	exon25	c.6993_6994del	p.2331_2332del	.	.	225.0	74.0	191.0	0.0	.	.	.	.	.
APBB1	322	hgsc.bcm.edu	37	11	6423899	6423900	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	APBB1	NM_001164	exon7	c.1161_1162insC	p.P387fs	.	.	185.0	11.0	275.0	0.0	.	.	.	.	.
RPL36A-HNRNPH2	0	hgsc.bcm.edu	37	X	100646804	100646805	+	Frame_Shift_Ins	INS	-	-	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_001199973	exon3	c.279_280insA	p.R93fs	.	.	153.0	10.0	196.0	0.0	.	.	.	.	.
STON1	11037	hgsc.bcm.edu	37	2	48809580	48809581	+	Frame_Shift_Ins	INS	-	-	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	-	-	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	STON1	NM_001198595	exon3	c.1808_1809insG	p.L603fs	.	.	164.0	11.0	151.0	0.0	.	.	.	.	.
SYNE4	163183	hgsc.bcm.edu	37	19	36496296	36496296	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_001039876	exon6	c.G911A	p.G304D	CCGAGGCCAGACT	.	197.0	33.0	172.0	0.0	.	.	.	.	.
ORC1	4998	hgsc.bcm.edu	37	1	52859445	52859445	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ORC1	NM_004153	exon6	c.C752A	p.T251N	CATGAAGTCTGCT	.	104.0	39.0	70.0	0.0	.	.	.	.	.
NPSR1	387129	hgsc.bcm.edu	37	7	34888202	34888202	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	NPSR1	NM_207172	exon8	c.C952A	p.L318M	CAGAACCTGCCAG	.	223.0	81.0	263.0	0.0	.	.	.	.	.
USP31	57478	hgsc.bcm.edu	37	16	23093878	23093878	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	USP31	NM_020718	exon12	c.C1831G	p.L611V	GGGCAAGCTGAAA	.	168.0	30.0	133.0	0.0	.	.	.	.	.
FAM107B	83641	hgsc.bcm.edu	37	10	14563197	14563197	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	FAM107B	NM_031453	exon5	c.G913T	p.E305X	AGGACTCCTGGGC	.	140.0	30.0	200.0	0.0	.	.	.	.	.
KDR	3791	hgsc.bcm.edu	37	4	55976873	55976873	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	KDR	NM_002253	exon8	c.C1039T	p.R347C	TGACACGCTCCCC	.	267.0	116.0	333.0	0.0	.	.	.	.	.
ARHGEF28	64283	hgsc.bcm.edu	37	5	73153515	73153515	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_001080479	exon15	c.C1825A	p.P609T	ATCATACCTGCCA	.	340.0	113.0	300.0	0.0	.	.	.	.	.
ATXN3	4287	hgsc.bcm.edu	37	14	92548653	92548653	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ATXN3	NM_004993	exon8	c.A766C	p.S256R	GCATACTTAGCTG	.	149.0	28.0	169.0	0.0	.	.	.	.	.
COL7A1	1294	hgsc.bcm.edu	37	3	48608550	48608550	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	COL7A1	NM_000094	exon93	c.G7148A	p.G2383D	GGAGGGCCAGGAG	.	99.0	25.0	125.0	0.0	.	.	.	.	.
OR10A2	341276	hgsc.bcm.edu	37	11	6891840	6891840	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	OR10A2	NM_001004460	exon1	c.G855T	p.K285N	GGTGAAGAATGCC	.	127.0	49.0	202.0	0.0	.	.	.	.	.
ST8SIA6	338596	hgsc.bcm.edu	37	10	17365101	17365101	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ST8SIA6	NM_001004470	exon7	c.A691T	p.N231Y	CAAGATTTGTTTT	.	266.0	62.0	354.0	0.0	.	.	.	.	.
F8	2157	hgsc.bcm.edu	37	X	154158684	154158684	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	F8	NM_000132	exon14	c.G3381C	p.W1127C	TTGTATCCACCTT	.	165.0	28.0	149.0	0.0	.	.	.	.	.
PLEKHA4	57664	hgsc.bcm.edu	37	19	49364948	49364948	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PLEKHA4	NM_001161354	exon4	c.A194G	p.D65G	GAGCTGTCCTGGG	.	77.0	29.0	68.0	0.0	.	.	.	.	.
IL17C	27189	hgsc.bcm.edu	37	16	88705412	88705412	+	Silent	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	IL17C	NM_013278	exon2	c.G30A	p.L10L	GTTTCTGACCTGG	.	142.0	23.0	185.0	0.0	.	.	.	.	.
HIST1H4D	8360	hgsc.bcm.edu	37	6	26189253	26189253	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	HIST1H4D	NM_003539	exon1	c.C52T	p.R18C	GGTGACGCTTGGC	.	75.0	32.0	64.0	0.0	.	.	.	.	.
HFM1	164045	hgsc.bcm.edu	37	1	91742605	91742605	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	HFM1	NM_001017975	exon31	c.A3406C	p.K1136Q	GTTTTTTGCTGGC	.	296.0	13.0	300.0	0.0	.	.	.	.	.
PLCG1	5335	hgsc.bcm.edu	37	20	39794969	39794969	+	Silent	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PLCG1	NM_182811	exon17	c.C1935T	p.R645R	CCTGCGCTGTAAT	.	95.0	18.0	119.0	0.0	.	.	.	.	.
WDR44	54521	hgsc.bcm.edu	37	X	117528110	117528110	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	WDR44	NM_001184965	exon5	c.G919T	p.A307S	GATTTGGCAAGTG	.	148.0	108.0	190.0	0.0	.	.	.	.	.
CAPN3	825	hgsc.bcm.edu	37	15	42703132	42703132	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CAPN3	NM_000070	exon22	c.G2314A	p.D772N	TACGCAGACAAAC	.	204.0	51.0	240.0	0.0	.	.	.	.	.
JAG2	3714	hgsc.bcm.edu	37	14	105609430	105609430	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	JAG2	NM_002226	exon26	c.C3319T	p.R1107C	GCTTGCGTGTCCA	.	14.0	7.0	27.0	0.0	.	.	.	.	.
ACPT	93650	hgsc.bcm.edu	37	19	51298214	51298214	+	Silent	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ACPT	NM_033068	exon10	c.C1158T	p.I386I	TGCCATCCCCCCA	.	163.0	18.0	178.0	0.0	.	.	.	.	.
AP1B1	162	hgsc.bcm.edu	37	22	29736737	29736737	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	AP1B1	NM_001127	exon14	c.G1906C	p.D636H	CGAGGTCCAGGTT	.	97.0	11.0	92.0	0.0	.	.	.	.	.
FGD3	89846	hgsc.bcm.edu	37	9	95796931	95796931	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	FGD3	NM_001083536	exon17	c.C1894T	p.P632S	TCAGATCCCCAGG	.	73.0	22.0	112.0	0.0	.	.	.	.	.
UTP20	27340	hgsc.bcm.edu	37	12	101711355	101711355	+	Silent	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	UTP20	NM_014503	exon22	c.C2652T	p.A884A	ACCTGCCGCAGGA	.	141.0	34.0	138.0	0.0	.	.	.	.	.
RABGGTA	5875	hgsc.bcm.edu	37	14	24738189	24738189	+	Silent	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_004581	exon7	c.G726A	p.Q242Q	TGCATCCTGGGGG	.	128.0	29.0	150.0	0.0	.	.	.	.	.
TMEM186	25880	hgsc.bcm.edu	37	16	8890210	8890210	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	TMEM186	NM_015421	exon2	c.C241G	p.L81V	CTGTCAGGGCAGT	.	123.0	8.0	129.0	0.0	.	.	.	.	.
CUBN	8029	hgsc.bcm.edu	37	10	17169924	17169924	+	Splice_Site	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CUBN	NM_001081	exon4	c.253-1G>C	.	CTGGATCTAATTT	.	104.0	23.0	104.0	0.0	.	.	.	.	.
HCN3	57657	hgsc.bcm.edu	37	1	155255629	155255629	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	HCN3	NM_020897	exon6	c.C1351A	p.P451T	TTCCAGCCGGGGG	.	401.0	36.0	184.0	0.0	.	.	.	.	.
GUCY1A2	2977	hgsc.bcm.edu	37	11	106810544	106810544	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	GUCY1A2	NM_000855	exon4	c.C848A	p.P283Q	TTGCCTGGGTTTG	.	94.0	22.0	118.0	0.0	.	.	.	.	.
ZNF20	7568	hgsc.bcm.edu	37	19	12243428	12243428	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ZNF20	NM_021143	exon4	c.G1573C	p.E525Q	TTCTTTCATGTTC	.	192.0	67.0	145.0	0.0	.	.	.	.	.
PIK3CA	5290	hgsc.bcm.edu	37	3	178936091	178936091	+	Missense_Mutation	SNP	G	G	A	rs104886003	bycluster	TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	PIK3CA,bladder,carcinoma,0	PIK3CA	NM_006218	exon10	c.G1633A	p.E545K	ATCACTGAGCAGG	.	460.0	90.0	497.0	1.0	.	.	.	.	.
MTOR	2475	hgsc.bcm.edu	37	1	11303173	11303173	+	Silent	SNP	A	A	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	MTOR	NM_004958	exon9	c.T1410C	p.H470H	TTACTTATGGGCG	.	40.0	24.0	67.0	0.0	.	.	.	.	.
HFM1	164045	hgsc.bcm.edu	37	1	91742607	91742607	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	HFM1	NM_001017975	exon31	c.G3404C	p.S1135T	TTTTTGCTGGCAG	.	292.0	91.0	294.0	0.0	.	.	.	.	.
F13A1	2162	hgsc.bcm.edu	37	6	6145912	6145912	+	Silent	SNP	G	G	A	rs200672690		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	F13A1	NM_000129	exon15	c.C2139T	p.D713D	CAGGGAGTCACTG	.	144.0	61.0	171.0	0.0	G|0.999;A|0.001	.	.	.	.
DNAH5	1767	hgsc.bcm.edu	37	5	13727745	13727745	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	DNAH5	NM_001369	exon70	c.G11904A	p.M3968I	TTTCCACATTTTC	.	354.0	119.0	320.0	0.0	.	.	.	.	.
ZFYVE20	64145	hgsc.bcm.edu	37	3	15126258	15126258	+	Silent	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ZFYVE20	NM_022340	exon8	c.C582T	p.I194I	AAGGCTGATGAGC	.	125.0	66.0	142.0	0.0	.	.	.	.	.
RXFP3	51289	hgsc.bcm.edu	37	5	33937720	33937720	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RXFP3	NM_016568	exon1	c.G875A	p.R292H	TGGTGCGCTTCAT	.	151.0	67.0	117.0	0.0	.	.	.	.	.
DPY19L1	23333	hgsc.bcm.edu	37	7	35050986	35050986	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	DPY19L1	NM_015283	exon5	c.C407T	p.T136M	GTAACCGTCCAAC	.	368.0	69.0	364.0	0.0	.	.	.	.	.
NBAS	51594	hgsc.bcm.edu	37	2	15519748	15519748	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	NBAS	NM_015909	exon30	c.G3568T	p.D1190Y	AGCTATCAGTGAG	.	334.0	45.0	337.0	0.0	.	.	.	.	.
EPG5	57724	hgsc.bcm.edu	37	18	43458391	43458391	+	Silent	SNP	T	T	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	EPG5	NM_020964	exon34	c.A5892G	p.V1964V	AATGATTACTGAA	.	113.0	12.0	80.0	0.0	.	.	.	.	.
PARD3	56288	hgsc.bcm.edu	37	10	34400172	34400172	+	Silent	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PARD3	NM_019619	exon25	c.G3996A	p.V1332V	GGGGGGCACATCT	.	101.0	53.0	150.0	0.0	.	.	.	.	.
KNTC1	9735	hgsc.bcm.edu	37	12	123097712	123097712	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	KNTC1	NM_014708	exon54	c.T5676G	p.C1892W	TCAGTGTCTCTTC	.	177.0	63.0	158.0	0.0	.	.	.	.	.
ACTN2	88	hgsc.bcm.edu	37	1	236891012	236891012	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ACTN2	NM_001103	exon6	c.C571A	p.H191N	CTCATCCACCGAC	.	163.0	27.0	111.0	0.0	.	.	.	.	.
TMPRSS4	56649	hgsc.bcm.edu	37	11	117979580	117979580	+	Silent	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	TMPRSS4	NM_019894	exon7	c.C552T	p.L184L	CTGTCTCTCAGGC	.	76.0	40.0	107.0	0.0	.	.	.	.	.
DNAJC28	54943	hgsc.bcm.edu	37	21	34860757	34860757	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	DNAJC28	NM_001040192	exon2	c.A944T	p.N315I	ATTAAATTAAAAT	.	347.0	32.0	470.0	0.0	.	.	.	.	.
PYGM	5837	hgsc.bcm.edu	37	11	64517976	64517976	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PYGM	NM_005609	exon17	c.G2049A	p.M683I	GTTGAGCATGAAC	.	138.0	24.0	177.0	0.0	.	.	.	.	.
CYP2A7	1549	hgsc.bcm.edu	37	19	41387943	41387943	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CYP2A7	NM_000764	exon1	c.T173C	p.I58T	TTCATGATGGAGT	.	375.0	180.0	409.0	1.0	.	.	.	.	.
SWAP70	23075	hgsc.bcm.edu	37	11	9769515	9769515	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SWAP70	NM_015055	exon10	c.G1466A	p.R489H	ATCAGCGTGTCCT	.	96.0	17.0	125.0	0.0	.	.	.	.	.
AQPEP	0	hgsc.bcm.edu	37	5	115298764	115298764	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_173800	exon1	c.C450G	p.F150L	CCTCTTCCAGGAC	.	71.0	16.0	53.0	0.0	.	.	.	.	.
RGS4	5999	hgsc.bcm.edu	37	1	163039295	163039295	+	Silent	SNP	T	T	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RGS4	NM_001102445	exon2	c.T312A	p.G104G	TGCAGGTCTGCCG	.	146.0	23.0	140.0	0.0	.	.	.	.	.
TTC1	7265	hgsc.bcm.edu	37	5	159437629	159437629	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	TTC1	NM_003314	exon2	c.C94G	p.P32A	GGCCCTCCAGTTC	.	97.0	38.0	87.0	0.0	.	.	.	.	.
RPL10A	4736	hgsc.bcm.edu	37	6	35437288	35437288	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RPL10A	NM_007104	exon4	c.A292C	p.K98Q	AATAAAAAACTGG	.	72.0	26.0	71.0	0.0	.	.	.	.	.
SPEF2	79925	hgsc.bcm.edu	37	5	35807028	35807028	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SPEF2	NM_024867	exon35	c.C5230A	p.L1744I	AGCCACCTAAAGA	.	325.0	119.0	369.0	0.0	.	.	.	.	.
CMIP	80790	hgsc.bcm.edu	37	16	81736275	81736275	+	Splice_Site	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_198390	exon17	c.1944+1G>A	.	TCCACAGTGAGTT	.	724.0	376.0	934.0	2.0	.	.	.	.	.
OR5D13	390142	hgsc.bcm.edu	37	11	55541187	55541187	+	Nonsense_Mutation	SNP	A	A	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	OR5D13	NM_001001967	exon1	c.A274T	p.R92X	GAATACAGAACCA	.	525.0	111.0	637.0	0.0	.	.	.	.	.
ELN	2006	hgsc.bcm.edu	37	7	73459566	73459566	+	Missense_Mutation	SNP	G	G	T	rs139718810	alternate_allele	TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ELN	NM_001081753	exon10	c.G499T	p.G167C	TTCCCCGGTGTGG	.	59.0	23.0	48.0	0.0	G|1.000;A|0.000	.	.	.	.
ZBTB39	9880	hgsc.bcm.edu	37	12	57397205	57397205	+	Silent	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ZBTB39	NM_014830	exon2	c.G1497A	p.T499T	GGACAGCGTGTGC	.	63.0	14.0	63.0	0.0	.	.	.	.	.
COL14A1	7373	hgsc.bcm.edu	37	8	121326235	121326235	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	COL14A1	NM_021110	exon38	c.G4520A	p.G1507E	CTCAAGGACCAAG	.	204.0	86.0	263.0	1.0	.	.	.	.	.
CDK12	51755	hgsc.bcm.edu	37	17	37687306	37687306	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CDK12	NM_016507	exon14	c.C4210T	p.R1404C	GACCTCCGTTTTG	.	112.0	14.0	138.0	0.0	.	.	.	.	.
HSP90B1	7184	hgsc.bcm.edu	37	12	104341190	104341190	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	HSP90B1	NM_003299	exon17	c.A2364T	p.E788D	AGATGAAGAAGAA	.	264.0	13.0	186.0	0.0	.	.	.	.	.
ADORA3	140	hgsc.bcm.edu	37	1	112042806	112042806	+	Silent	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ADORA3	NM_000677	exon2	c.G723A	p.L241L	CCATGACAGAGCA	.	212.0	58.0	223.0	0.0	.	.	.	.	.
CCDC37	348807	hgsc.bcm.edu	37	3	126142435	126142435	+	Missense_Mutation	SNP	G	G	A	rs200815085		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CCDC37	NM_182628	exon13	c.G1234A	p.E412K	GAGACGGAGAAGA	.	9.0	8.0	0.0	0.0	.	.	.	.	.
LAMB4	22798	hgsc.bcm.edu	37	7	107763585	107763585	+	Silent	SNP	A	A	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	LAMB4	NM_007356	exon2	c.T25C	p.L9L	GGTGCAAAAAAAG	.	146.0	60.0	146.0	0.0	.	.	.	.	.
KLHL10	317719	hgsc.bcm.edu	37	17	40004434	40004434	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	KLHL10	NM_152467	exon5	c.A1702C	p.S568R	GCTCTGAGCTGCT	.	387.0	201.0	270.0	0.0	.	.	.	.	.
CDK12	51755	hgsc.bcm.edu	37	17	37627327	37627327	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CDK12	NM_016507	exon2	c.G1242C	p.K414N	AGCAAAGATGGAT	.	174.0	26.0	119.0	0.0	.	.	.	.	.
ANKRD6	22881	hgsc.bcm.edu	37	6	90333665	90333665	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ANKRD6	NM_001242809	exon12	c.T1107G	p.N369K	TCATAATCACCCT	.	175.0	19.0	226.0	0.0	.	.	.	.	.
MYPN	84665	hgsc.bcm.edu	37	10	69881741	69881741	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	MYPN	NM_032578	exon2	c.G546T	p.K182N	CCACAAGAGTAAA	.	85.0	22.0	111.0	0.0	.	.	.	.	.
NXPH1	30010	hgsc.bcm.edu	37	7	8791057	8791057	+	Silent	SNP	T	T	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	NXPH1	NM_152745	exon3	c.T474A	p.T158T	TTCAACTGGTCAA	.	144.0	42.0	128.0	0.0	.	.	.	.	.
PANK4	55229	hgsc.bcm.edu	37	1	2452651	2452651	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PANK4	NM_018216	exon3	c.G311C	p.C104S	TCCAGGCAGGCTT	.	312.0	54.0	299.0	0.0	.	.	.	.	.
ESCO1	114799	hgsc.bcm.edu	37	18	19112484	19112484	+	Silent	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ESCO1	NM_052911	exon11	c.C2325T	p.F775F	CATGCTGAATACC	.	229.0	155.0	285.0	0.0	.	.	.	.	.
GPSM2	29899	hgsc.bcm.edu	37	1	109465168	109465168	+	Missense_Mutation	SNP	T	T	A	rs201481482		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	GPSM2	NM_013296	exon13	c.T1570A	p.S524T	ACAACTTCTTCCA	.	62.0	20.0	5.0	0.0	.	.	.	.	.
DNAH2	146754	hgsc.bcm.edu	37	17	7701533	7701533	+	Silent	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	DNAH2	NM_020877	exon53	c.C8289T	p.I2763I	GGGTATCGGGGGC	.	46.0	30.0	86.0	0.0	.	.	.	.	.
GLI2	2736	hgsc.bcm.edu	37	2	121726367	121726367	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	GLI2	NM_005270	exon5	c.G721A	p.A241T	TCAGACGCCAGCC	.	94.0	14.0	132.0	0.0	.	.	.	.	.
BRD2	6046	hgsc.bcm.edu	37	6	32948467	32948467	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	BRD2	NM_001199455	exon13	c.C2483A	p.S828X	CGTCTTCAGACAC	.	93.0	27.0	136.0	0.0	.	.	.	.	.
SENP6	26054	hgsc.bcm.edu	37	6	76386875	76386875	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SENP6	NM_015571	exon14	c.C1751G	p.P584R	AAATTCCCTTTGA	.	514.0	165.0	399.0	1.0	.	.	.	.	.
PDLIM2	64236	hgsc.bcm.edu	37	8	22438952	22438952	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PDLIM2	NM_021630	exon3	c.A904G	p.I302V	GTGGCCATCAACG	.	82.0	25.0	261.0	0.0	.	.	.	.	.
KLHL11	55175	hgsc.bcm.edu	37	17	40010740	40010740	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	KLHL11	NM_018143	exon2	c.G1379A	p.G460E	CCATGTCCTCCAA	.	498.0	45.0	350.0	0.0	.	.	.	.	.
BICD1	636	hgsc.bcm.edu	37	12	32490708	32490708	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	BICD1	NM_001714	exon7	c.A2528T	p.Q843L	GCCCACAGACACC	.	105.0	18.0	98.0	0.0	.	.	.	.	.
MFF	56947	hgsc.bcm.edu	37	2	228220420	228220420	+	Silent	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	MFF	NM_020194	exon10	c.C840T	p.T280T	TACAACCATTGAA	.	372.0	127.0	350.0	0.0	.	.	.	.	.
ZEB2	9839	hgsc.bcm.edu	37	2	145187479	145187479	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ZEB2	NM_001171653	exon3	c.C188G	p.A63G	ACACTAGCTGGAC	.	252.0	97.0	282.0	0.0	.	.	.	.	.
SHOX2	6474	hgsc.bcm.edu	37	3	157823590	157823590	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SHOX2	NM_003030	exon1	c.G224T	p.G75V	CCTCCTCCGCCTC	.	19.0	13.0	21.0	0.0	.	.	.	.	.
SRL	6345	hgsc.bcm.edu	37	16	4242512	4242512	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SRL	NM_001098814	exon6	c.A1064T	p.K355M	TTGTCCTTGTAAG	.	263.0	44.0	233.0	0.0	.	.	.	.	.
ACACB	32	hgsc.bcm.edu	37	12	109617830	109617830	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ACACB	NM_001093	exon10	c.C1756T	p.Q586X	CGCTTGCAGGTGG	.	157.0	54.0	152.0	0.0	.	.	.	.	.
AHCYL1	10768	hgsc.bcm.edu	37	1	110561690	110561690	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	AHCYL1	NM_006621	exon14	c.G1335C	p.L445F	CAATTTGAGCTGC	.	154.0	71.0	176.0	0.0	.	.	.	.	.
TTC27	55622	hgsc.bcm.edu	37	2	33012108	33012108	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	TTC27	NM_017735	exon16	c.G1890T	p.Q630H	CTGGCAGATTTGG	.	153.0	24.0	187.0	0.0	.	.	.	.	.
PCDHGC3	5098	hgsc.bcm.edu	37	5	140855947	140855947	+	Silent	SNP	G	G	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PCDHGC3	NM_032402	exon1	c.G264C	p.V88V	GTTTGTGAACGAC	.	175.0	27.0	168.0	0.0	.	.	.	.	.
KCNH2	3757	hgsc.bcm.edu	37	7	150671893	150671893	+	Silent	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	KCNH2	NM_000238	exon2	c.G213T	p.G71G	GCGCGGCCCGTGC	.	61.0	17.0	21.0	0.0	.	.	.	.	.
PCDH15	65217	hgsc.bcm.edu	37	10	56128943	56128943	+	Silent	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PCDH15	NM_001142763	exon6	c.G426A	p.V142V	GTCTCTCACCACT	.	136.0	24.0	162.0	0.0	.	.	.	.	.
RIMS3	9783	hgsc.bcm.edu	37	1	41092203	41092203	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RIMS3	NM_014747	exon8	c.C913T	p.P305S	ATGAGGGGCTGGT	.	51.0	9.0	82.0	0.0	.	.	.	.	.
NT5C1B-RDH14	100526794	hgsc.bcm.edu	37	2	18736770	18736770	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_001199103	exon9	c.G1640A	p.R547H	AAGCGGCGGGCTA	.	187.0	33.0	146.0	0.0	.	.	.	.	.
SMNDC1	10285	hgsc.bcm.edu	37	10	112053908	112053908	+	Silent	SNP	T	T	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SMNDC1	NM_005871	exon6	c.A717G	p.X239X	TTCTGATTATTGA	.	132.0	54.0	159.0	0.0	.	.	.	.	.
PIAS4	51588	hgsc.bcm.edu	37	19	4037690	4037690	+	Silent	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PIAS4	NM_015897	exon11	c.C1350T	p.G450G	TGGCGGCGGCCCG	.	68.0	37.0	33.0	0.0	.	.	.	.	.
ZBTB49	166793	hgsc.bcm.edu	37	4	4303971	4303971	+	Silent	SNP	A	A	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ZBTB49	NM_145291	exon3	c.A408G	p.L136L	GTCTCTACAAAGC	.	98.0	48.0	114.0	0.0	.	.	.	.	.
NCOA1	8648	hgsc.bcm.edu	37	2	24991260	24991260	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	NCOA1	NM_003743	exon21	c.A4326T	p.X1442Y	TGAATAACCACTT	.	81.0	18.0	102.0	0.0	.	.	.	.	.
SCAP	22937	hgsc.bcm.edu	37	3	47476584	47476584	+	Nonsense_Mutation	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SCAP	NM_012235	exon3	c.G166T	p.E56X	TGAATTCCACAGG	.	108.0	25.0	167.0	0.0	.	.	.	.	.
AP3B1	8546	hgsc.bcm.edu	37	5	77412060	77412060	+	Splice_Site	SNP	T	T	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	AP3B1	NM_003664	exon19	c.1969-2A>G	.	TTTGCCTGTTTAA	.	208.0	22.0	155.0	0.0	.	.	.	.	.
BZRAP1	9256	hgsc.bcm.edu	37	17	56389687	56389687	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	BZRAP1	NM_004758	exon17	c.G2495A	p.R832Q	GCCTGTCGCAGCT	.	85.0	15.0	92.0	0.0	.	.	.	.	.
RANBP9	10048	hgsc.bcm.edu	37	6	13657454	13657454	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RANBP9	NM_005493	exon4	c.C791G	p.S264C	CCAGAAGAACAAA	.	211.0	23.0	223.0	0.0	.	.	.	.	.
AFAP1L2	84632	hgsc.bcm.edu	37	10	116060312	116060312	+	Silent	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	AFAP1L2	NM_032550	exon14	c.G1680T	p.P560P	CAACGTCGGGGAG	.	88.0	43.0	126.0	0.0	.	.	.	.	.
ST18	9705	hgsc.bcm.edu	37	8	53092714	53092714	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ST18	NM_014682	exon9	c.G245T	p.G82V	AAGGGGCCATCGT	.	260.0	47.0	355.0	0.0	.	.	.	.	.
HEPHL1	341208	hgsc.bcm.edu	37	11	93822053	93822053	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	HEPHL1	NM_001098672	exon12	c.C2213A	p.A738D	ACATCGCCGCTGA	.	83.0	17.0	106.0	0.0	.	.	.	.	.
CCDC141	285025	hgsc.bcm.edu	37	2	179702272	179702272	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CCDC141	NM_173648	exon23	c.C3674T	p.S1225F	AGAGGGGACTCAG	.	103.0	14.0	111.0	0.0	.	.	.	.	.
ZP4	57829	hgsc.bcm.edu	37	1	238053180	238053180	+	Silent	SNP	A	A	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ZP4	NM_021186	exon3	c.T387C	p.P129P	ATCCATAGGACAC	.	174.0	40.0	141.0	0.0	.	.	.	.	.
DRD5	1816	hgsc.bcm.edu	37	4	9784569	9784569	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	DRD5	NM_000798	exon1	c.G916A	p.V306M	GTCTTCGTGTGTT	.	49.0	8.0	66.0	0.0	.	.	.	.	.
BRCA1	672	hgsc.bcm.edu	37	17	41223109	41223109	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	BRCA1	NM_007300	exon16	c.G4885A	p.A1629T	ATTCTGCAACTTT	.	262.0	41.0	195.0	0.0	.	.	.	.	.
GUF1	60558	hgsc.bcm.edu	37	4	44692732	44692732	+	Splice_Site	SNP	A	A	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	GUF1	NM_021927	exon12	c.1336-2A>T	.	ATTTTTAGGAACA	.	239.0	104.0	248.0	0.0	.	.	.	.	.
RAD52	5893	hgsc.bcm.edu	37	12	1023279	1023279	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RAD52	NM_134424	exon11	c.G976C	p.E326Q	TGTCTTCAAGAGT	.	125.0	19.0	144.0	0.0	.	.	.	.	.
HSPB2	3316	hgsc.bcm.edu	37	11	111784239	111784239	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	HSPB2	NM_001541	exon2	c.G169A	p.G57R	CCAGCTGGGGAGG	.	50.0	10.0	54.0	0.0	.	.	.	.	.
OR2C1	4993	hgsc.bcm.edu	37	16	3406154	3406154	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	OR2C1	NM_012368	exon1	c.G214A	p.A72T	GACCTTGCTTTCG	.	520.0	34.0	292.0	0.0	.	.	.	.	.
ZNF521	25925	hgsc.bcm.edu	37	18	22804595	22804595	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ZNF521	NM_015461	exon4	c.G3287A	p.C1096Y	TTCACGCAGCCGG	.	104.0	75.0	135.0	0.0	.	.	.	.	.
ZNF714	148206	hgsc.bcm.edu	37	19	21299774	21299774	+	Missense_Mutation	SNP	T	T	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ZNF714	NM_182515	exon5	c.T304A	p.Y102N	AAAGGTTATGAAC	.	278.0	14.0	286.0	0.0	.	.	.	.	.
DGKG	1608	hgsc.bcm.edu	37	3	185969660	185969660	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	DGKG	NM_001346	exon19	c.G1649A	p.S550N	AAGGGGCTCTGCT	.	145.0	28.0	220.0	0.0	.	.	.	.	.
DOT1L	84444	hgsc.bcm.edu	37	19	2202716	2202716	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	DOT1L	NM_032482	exon9	c.A725G	p.N242S	TGAATAATTTTGC	.	287.0	203.0	346.0	0.0	.	.	.	.	.
MYL4	4635	hgsc.bcm.edu	37	17	45299202	45299202	+	Silent	SNP	G	G	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	MYL4	NM_001002841	exon5	c.G468C	p.R156R	GCTTCGGCACGTC	.	167.0	83.0	144.0	0.0	.	.	.	.	.
OR2W5	441932	hgsc.bcm.edu	37	1	247655276	247655276	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	OR2W5	NM_001004698	exon1	c.T847C	p.S283P	CGTCATTCCCAGC	.	291.0	12.0	224.0	0.0	.	.	.	.	.
POT1	25913	hgsc.bcm.edu	37	7	124464094	124464094	+	Silent	SNP	T	T	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	POT1	NM_015450	exon19	c.A1827G	p.S609S	ATTGTATGACTTG	.	304.0	115.0	262.0	0.0	.	.	.	.	.
CPEB3	22849	hgsc.bcm.edu	37	10	93999727	93999727	+	Silent	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CPEB3	NM_014912	exon2	c.C381T	p.I127I	TGGGGTGATCCCC	.	71.0	18.0	76.0	0.0	.	.	.	.	.
EZH1	2145	hgsc.bcm.edu	37	17	40871173	40871173	+	Silent	SNP	T	T	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	EZH1	NM_001991	exon8	c.A717G	p.A239A	GGCAATTGCACTG	.	325.0	45.0	266.0	0.0	.	.	.	.	.
NFATC3	4775	hgsc.bcm.edu	37	16	68224766	68224766	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	NFATC3	NM_173163	exon9	c.G2194C	p.D732H	TCCTCTGATTCAG	.	185.0	15.0	217.0	0.0	.	.	.	.	.
SCIN	85477	hgsc.bcm.edu	37	7	12666376	12666376	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SCIN	NM_001112706	exon8	c.G1149T	p.Q383H	TCCGCAGATGGCA	.	296.0	105.0	269.0	0.0	.	.	.	.	.
SOX14	8403	hgsc.bcm.edu	37	3	137483875	137483875	+	Silent	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SOX14	NM_004189	exon1	c.C249G	p.P83P	CAAGCCCAAGAAC	.	131.0	9.0	159.0	0.0	.	.	.	.	.
DNAH6	1768	hgsc.bcm.edu	37	2	84774640	84774640	+	Nonsense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	DNAH6	NM_001370	exon7	c.C1090T	p.R364X	GAATTTCGAAATG	.	359.0	149.0	353.0	1.0	.	.	.	.	.
ERI2	112479	hgsc.bcm.edu	37	16	20810230	20810230	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ERI2	NM_001142725	exon9	c.A892G	p.I298V	CACAAATTGACTT	.	605.0	190.0	427.0	0.0	.	.	.	.	.
OR5D16	390144	hgsc.bcm.edu	37	11	55606431	55606431	+	Silent	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	OR5D16	NM_001005496	exon1	c.C204A	p.L68L	CCACCTCTCCTTT	.	407.0	90.0	511.0	0.0	.	.	.	.	.
SRCRB4D	136853	hgsc.bcm.edu	37	7	76029631	76029631	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SRCRB4D	NM_080744	exon4	c.C447G	p.H149Q	CTCGTAGTGAAAG	.	147.0	51.0	184.0	0.0	.	.	.	.	.
HECW2	57520	hgsc.bcm.edu	37	2	197183465	197183465	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	HECW2	NM_020760	exon9	c.G2149C	p.D717H	CTTCATCCTCCCC	.	127.0	9.0	163.0	0.0	.	.	.	.	.
KIAA1147	57189	hgsc.bcm.edu	37	7	141362636	141362636	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	KIAA1147	NM_001080392	exon9	c.A1188C	p.Q396H	GTTGTTTTGTTCT	.	118.0	39.0	99.0	0.0	.	.	.	.	.
NGF	4803	hgsc.bcm.edu	37	1	115829018	115829018	+	Silent	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	NGF	NM_002506	exon3	c.C399T	p.F133F	CACCGAGAATTCG	.	143.0	60.0	158.0	0.0	.	.	.	.	.
C4BPA	722	hgsc.bcm.edu	37	1	207318042	207318042	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	C4BPA	NM_000715	exon12	c.A1774T	p.T592S	CAATCCACTTTGG	.	150.0	17.0	84.0	0.0	.	.	.	.	.
C2orf42	54980	hgsc.bcm.edu	37	2	70408519	70408519	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	C2orf42	NM_017880	exon3	c.G599A	p.S200N	CCCAAACTGTGCT	.	123.0	20.0	150.0	0.0	.	.	.	.	.
NPSR1	387129	hgsc.bcm.edu	37	7	34888201	34888201	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	NPSR1	NM_207172	exon8	c.C951A	p.N317K	TCAGAACCTGCCA	.	225.0	86.0	265.0	0.0	.	.	.	.	.
RING1	6015	hgsc.bcm.edu	37	6	33177781	33177781	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	RING1,NS,carcinoma,0	RING1	NM_002931	exon4	c.T329G	p.I110S	CTAAGATCTATCC	.	132.0	39.0	102.0	0.0	.	.	.	.	.
OR2B11	127623	hgsc.bcm.edu	37	1	247614658	247614658	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	OR2B11	NM_001004492	exon1	c.C627A	p.F209L	CACGAAGAAGGCC	.	111.0	34.0	93.0	0.0	.	.	.	.	.
PCDHGA10	56106	hgsc.bcm.edu	37	5	140793274	140793274	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_032090	exon1	c.C532T	p.P178S	CTCAGCCCCAATA	.	72.0	13.0	72.0	0.0	.	.	.	.	.
TUBA3C	7278	hgsc.bcm.edu	37	13	19751669	19751669	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	TUBA3C	NM_006001	exon4	c.C454G	p.L152V	TGAGCAGAGATGC	.	358.0	78.0	570.0	0.0	.	.	.	.	.
SUPT6H	6830	hgsc.bcm.edu	37	17	27001353	27001353	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SUPT6H	NM_003170	exon3	c.G162T	p.L54F	CAACTTGAAAGGC	.	284.0	31.0	192.0	0.0	.	.	.	.	.
LRP11	84918	hgsc.bcm.edu	37	6	150174142	150174142	+	Missense_Mutation	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	LRP11	NM_032832	exon2	c.G768A	p.M256I	TACCTTCATGTCC	.	146.0	57.0	199.0	0.0	.	.	.	.	.
LAMA3	3909	hgsc.bcm.edu	37	18	21331052	21331052	+	Silent	SNP	G	G	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	LAMA3	NM_001127717	exon5	c.G855T	p.R285R	TCGGCGGGTGAGT	.	111.0	28.0	161.0	0.0	.	.	.	.	.
FGD4	121512	hgsc.bcm.edu	37	12	32760995	32760995	+	Silent	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	FGD4	NM_139241	exon8	c.G1098A	p.L366L	GAAATTGCCTCCT	.	328.0	109.0	344.0	0.0	.	.	.	.	.
RTTN	25914	hgsc.bcm.edu	37	18	67794864	67794864	+	Missense_Mutation	SNP	C	C	A	rs199762299	alternate_allele	TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RTTN	NM_173630	exon25	c.G3257T	p.R1086M	ACTTCCCTGTGGG	.	71.0	55.0	94.0	0.0	C|0.999;G|0.000	.	.	.	.
RBMXL3	139804	hgsc.bcm.edu	37	X	114426299	114426299	+	Silent	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_001145346	exon1	c.C2295T	p.D765D	CCATGACAGTTCC	.	50.0	37.0	113.0	0.0	.	.	.	.	.
RTTN	25914	hgsc.bcm.edu	37	18	67794863	67794863	+	Missense_Mutation	SNP	C	C	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RTTN	NM_173630	exon25	c.G3258T	p.R1086S	AACTTCCCTGTGG	.	71.0	55.0	93.0	0.0	.	.	.	.	.
FUBP1	8880	hgsc.bcm.edu	37	1	78429797	78429797	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	FUBP1	NM_003902	exon12	c.C991T	p.R331X	GACATCGGTCTGG	.	602.0	221.0	645.0	0.0	.	.	.	.	.
CYFIP2	26999	hgsc.bcm.edu	37	5	156714055	156714055	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CYFIP2	NM_001037332	exon3	c.A145G	p.R49G	GAGGACAGGAATG	.	183.0	108.0	102.0	0.0	.	.	.	.	.
SLC25A3	5250	hgsc.bcm.edu	37	12	98991699	98991699	+	Silent	SNP	T	T	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SLC25A3	NM_005888	exon4	c.T348C	p.V116V	TGGTGTTCGTGGT	.	459.0	173.0	410.0	0.0	.	.	.	.	.
NLRP2	55655	hgsc.bcm.edu	37	19	55508705	55508705	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	NLRP2	NM_017852	exon12	c.C2900G	p.P967R	CCATCCCTCCGTT	.	320.0	96.0	313.0	0.0	.	.	.	.	.
HOXC10	3226	hgsc.bcm.edu	37	12	54382990	54382990	+	Silent	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	HOXC10	NM_017409	exon2	c.G789A	p.L263L	TTGGCTGACAGCA	.	200.0	25.0	220.0	0.0	.	.	.	.	.
HRC	3270	hgsc.bcm.edu	37	19	49657886	49657886	+	Silent	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	HRC	NM_002152	exon1	c.G609A	p.E203E	GGCCTCCTCTTCC	.	234.0	10.0	258.0	0.0	.	.	.	.	.
SLCO1B1	10599	hgsc.bcm.edu	37	12	21329794	21329794	+	Silent	SNP	A	A	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SLCO1B1	NM_006446	exon5	c.A444G	p.L148L	AATTTTATCACTC	.	266.0	80.0	274.0	0.0	.	.	.	.	.
RNF44	22838	hgsc.bcm.edu	37	5	175957958	175957958	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RNF44	NM_014901	exon5	c.C530A	p.S177Y	TCACTGGAGATGA	.	76.0	20.0	70.0	0.0	.	.	.	.	.
ADRA1B	147	hgsc.bcm.edu	37	5	159398905	159398905	+	Silent	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ADRA1B	NM_000679	exon2	c.G969A	p.L323L	CACCCTGAAGCCC	.	249.0	131.0	238.0	1.0	.	.	.	.	.
SPAG9	9043	hgsc.bcm.edu	37	17	49075937	49075937	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SPAG9	NM_001130528	exon15	c.A1706C	p.K569T	TCAGGCTTCTTAG	.	386.0	47.0	288.0	0.0	.	.	.	.	.
CDC37L1	55664	hgsc.bcm.edu	37	9	4706065	4706065	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CDC37L1	NM_017913	exon7	c.G967A	p.V323M	AACTCGGTGGTAC	.	269.0	58.0	291.0	0.0	.	.	.	.	.
CLECL1	160365	hgsc.bcm.edu	37	12	9885713	9885713	+	Missense_Mutation	SNP	A	A	T	rs200639830		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CLECL1	NM_001267701	exon1	c.T148A	p.Y50N	ATAAGTAAATTGA	.	144.0	7.0	145.0	0.0	.	.	.	.	.
RGS7	6000	hgsc.bcm.edu	37	1	240976967	240976967	+	Missense_Mutation	SNP	A	A	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RGS7	NM_002924	exon13	c.T907G	p.S303A	GGTTAGAAGGGTC	.	148.0	72.0	105.0	0.0	.	.	.	.	.
HIST1H2BM	8342	hgsc.bcm.edu	37	6	27782957	27782957	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	HIST1H2BM	NM_003521	exon1	c.C136G	p.L46V	AAGGTGCTGAAGC	.	192.0	76.0	266.0	0.0	.	.	.	.	.
CAND2	23066	hgsc.bcm.edu	37	3	12854821	12854821	+	Missense_Mutation	SNP	T	T	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	CAND2	NM_001162499	exon7	c.T940G	p.Y314D	CCCAACTACAACT	.	171.0	66.0	250.0	0.0	.	.	.	.	.
NELFE	7936	hgsc.bcm.edu	37	6	31921602	31921602	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	.	NM_002904	exon10	c.G949C	p.G317R	GGGTCCCGTTGAG	.	327.0	65.0	251.0	0.0	.	.	.	.	.
RNF166	115992	hgsc.bcm.edu	37	16	88766049	88766049	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RNF166	NM_178841	exon3	c.C404A	p.P135H	GATGTGGGCACCA	.	94.0	53.0	135.0	0.0	.	.	.	.	.
SSTR3	6753	hgsc.bcm.edu	37	22	37602710	37602710	+	Missense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SSTR3	NM_001051	exon2	c.C1133T	p.T378M	GGCTGCGTGATCT	.	82.0	5.0	104.0	0.0	.	.	.	.	.
RNF26	79102	hgsc.bcm.edu	37	11	119206969	119206969	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RNF26	NM_032015	exon1	c.G1137C	p.K379N	GAAGAAGTGTGTC	.	61.0	9.0	82.0	0.0	.	.	.	.	.
HOXC8	3224	hgsc.bcm.edu	37	12	54404963	54404963	+	Missense_Mutation	SNP	G	G	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	HOXC8	NM_022658	exon2	c.G527C	p.R176P	TGACACGAAAACG	.	116.0	20.0	105.0	0.0	.	.	.	.	.
SENP3	26168	hgsc.bcm.edu	37	17	7470288	7470288	+	Missense_Mutation	SNP	A	A	G	rs76586164		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SENP3	NM_015670	exon8	c.A1307G	p.K436R	TACCAAAGGGTTA	.	209.0	23.0	405.0	0.0	A|0.500;G|0.500	.	.	.	.
NLGN1	22871	hgsc.bcm.edu	37	3	173998709	173998709	+	Silent	SNP	C	C	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	NLGN1	NM_014932	exon7	c.C2088T	p.A696A	TGCAGCCCTGTAC	.	121.0	56.0	142.0	0.0	.	.	.	.	.
SFSWAP	6433	hgsc.bcm.edu	37	12	132204080	132204080	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SFSWAP	NM_001261411	exon4	c.A602T	p.E201V	ACGTGGAGTTGGT	.	362.0	81.0	215.0	0.0	.	.	.	.	.
MSLN	10232	hgsc.bcm.edu	37	16	812697	812697	+	Missense_Mutation	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	MSLN	NM_005823	exon3	c.C17G	p.A6G	CAACGGCTCGACC	.	159.0	29.0	131.0	0.0	.	.	.	.	.
ITGAV	3685	hgsc.bcm.edu	37	2	187540361	187540361	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ITGAV	NM_002210	exon27	c.G2737T	p.V913F	AAGATTGTCTGCC	.	291.0	88.0	253.0	0.0	.	.	.	.	.
PRPF40A	55660	hgsc.bcm.edu	37	2	153529052	153529052	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PRPF40A	NM_017892	exon13	c.T1291A	p.S431T	ACTTTGATCTTGC	.	259.0	90.0	247.0	0.0	.	.	.	.	.
LARP7	51574	hgsc.bcm.edu	37	4	113568542	113568542	+	Missense_Mutation	SNP	A	A	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	LARP7	NM_001267039	exon9	c.A855T	p.K285N	GAAAAAACGGGAC	.	248.0	121.0	273.0	0.0	.	.	.	.	.
PTPN21	11099	hgsc.bcm.edu	37	14	88938677	88938677	+	Nonsense_Mutation	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	PTPN21	NM_007039	exon15	c.C2782T	p.Q928X	CATCTTGGAATCG	.	284.0	51.0	358.0	0.0	.	.	.	.	.
VCX	26609	hgsc.bcm.edu	37	X	7811709	7811709	+	Silent	SNP	G	G	C	rs139507263	byfrequency;alternate_allele	TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	VCX	NM_013452	exon3	c.G273C	p.P91P	GCCGCCGGAGGAG	.	83.0	28.0	81.0	0.0	G|0.999;A|0.001	.	.	.	.
SPATA2L	124044	hgsc.bcm.edu	37	16	89764069	89764069	+	Silent	SNP	C	C	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	C	C	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	SPATA2L	NM_152339	exon3	c.G948C	p.L316L	CCTACTCAGCTCA	.	91.0	18.0	65.0	0.0	.	.	.	.	.
MYO10	4651	hgsc.bcm.edu	37	5	16701663	16701663	+	Silent	SNP	G	G	A	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	MYO10	NM_012334	exon25	c.C2841T	p.F947F	CTCGTCGAAATTG	.	83.0	33.0	114.0	0.0	.	.	.	.	.
RAD50	10111	hgsc.bcm.edu	37	5	131924503	131924503	+	Missense_Mutation	SNP	G	G	T	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	RAD50	NM_005732	exon8	c.G1176T	p.Q392H	AAGACAGATTAAA	.	524.0	47.0	400.0	0.0	.	.	.	.	.
DCAF5	8816	hgsc.bcm.edu	37	14	69584924	69584924	+	Missense_Mutation	SNP	T	T	C	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	T	T	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	DCAF5	NM_003861	exon4	c.A467G	p.N156S	AAAATGTTGTCAT	.	90.0	16.0	125.0	0.0	.	.	.	.	.
ZNF675	171392	hgsc.bcm.edu	37	19	23836432	23836432	+	Nonsense_Mutation	SNP	G	G	A	rs199957959		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	G	G	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	ZNF675	NM_138330	exon4	c.C1303T	p.R435X	AGGATCGGTTAAA	.	70.0	6.0	82.0	0.0	G|0.999;A|0.001	.	.	.	.
AK5	26289	hgsc.bcm.edu	37	1	77763544	77763544	+	Missense_Mutation	SNP	A	A	G	novel		TCGA-BC-A112-01A-11D-A12Z-10	TCGA-BC-A112-11A-11D-A12Z-10	A	A	.	.	.	.	Unknown	Untested	Somatic	Phase_I	WXS	none	.	.	Illumina HiSeq	b3d19f75-db62-42cc-8a6f-7685ab1f3b9b	bb1973b9-7ab8-4bbc-beb1-9448f91ad7ef	.	AK5	NM_174858	exon5	c.A611G	p.Q204R	TAAAGCAAAAATT	.	154.0	51.0	156.0	0.0	.	.	.	.	.