Normal	Chrom	Pos	Ref	Alt	Gene	Transcript	RNA	CDS	Protein	Type	Effect	CancerGene	Description	DRIVER_CATEGORY	Age	pCR_vs_RD	PreTxTumorSizeClinOrRad	Tumor_size_surgery(cm)	Grade	group	Ki67_biopsy	NumPosLn	ANTHRACYCLINE	TAXANE	geneRef	DEPTH_PD9694e	TUM_PILEUP_MUTS_PD9694e	Pileup_MtAlpct_PD9694e	ID.2	DEPTH_PD9694f	TUM_PILEUP_MUTS_PD9694f	Pileup_MtAlpct_PD9694f	ID.3	DEPTH_PD9694g	TUM_PILEUP_MUTS_PD9694g	Pileup_MtAlpct_PD9694g	ID.4	DEPTH_PD9694h	TUM_PILEUP_MUTS_PD9694h	Pileup_MtAlpct_PD9694h	ID.5	DEPTH_PD9694i	TUM_PILEUP_MUTS_PD9694i	Pileup_MtAlpct_PD9694i	ID.6	DEPTH_PD9694j	TUM_PILEUP_MUTS_PD9694j	Pileup_MtAlpct_PD9694j	ID.7	DEPTH_PD9694k	TUM_PILEUP_MUTS_PD9694k	Pileup_MtAlpct_PD9694k	ID.8	DEPTH_PD9694l	TUM_PILEUP_MUTS_PD9694l	Pileup_MtAlpct_PD9694l	ID.9	DEPTH_PD9694m	TUM_PILEUP_MUTS_PD9694m	Pileup_MtAlpct_PD9694m	ID.10	DEPTH_PD9694n	TUM_PILEUP_MUTS_PD9694n	Pileup_MtAlpct_PD9694n	ID.11	DEPTH_PD9694o	TUM_PILEUP_MUTS_PD9694o	Pileup_MtAlpct_PD9694o	ID.12	DEPTH_PD9694p	TUM_PILEUP_MUTS_PD9694p	Pileup_MtAlpct_PD9694p	ID.13	DEPTH_PD9694q	TUM_PILEUP_MUTS_PD9694q	Pileup_MtAlpct_PD9694q	ID.14	DEPTH_PD9694r	TUM_PILEUP_MUTS_PD9694r	Pileup_MtAlpct_PD9694r	ID.15	DEPTH_PD9694s	TUM_PILEUP_MUTS_PD9694s	Pileup_MtAlpct_PD9694s	ID.16	DEPTH_PD9694t	TUM_PILEUP_MUTS_PD9694t	Pileup_MtAlpct_PD9694t	ID.17	DEPTH_PD9694u	TUM_PILEUP_MUTS_PD9694u	Pileup_MtAlpct_PD9694u
PD9694b	10	89692911	G	A	PTEN	ENST00000371953	r.1752g>a	c.395G>A	p.G132D	Sub	missense	1	ONCOGENIC_BCA_GENE	ONCOGENIC	37	pS	2.6	2.6	2	3	NA	1	YES	YES	PTEN:p.G132D	307	35	11.4	10:89692911	328	78	23.8	10:89692911	259	4	1.5	10:89692911	187	0	0	10:89692911	287	0	0	10:89692911	61	8	13.1	10:89692911	180	13	7.2	10:89692911	83	0	0	10:89692911	491	0	0	10:89692911	292	1	0.3	10:89692911	203	0	0	10:89692911	217	0	0	10:89692911	245	0	0	10:89692911	187	0	0	10:89692911	225	0	0	10:89692911	214	31	14.5	10:89692911	217	37	17.1
PD9694b	3	47108598	C	T	SETD2	CCDS2749.2	r.6114g>a	c.6071G>A	p.R2024Q	Sub	missense	1	UNKNOWN_BCA	UNKNOWN	37	pS	2.6	2.6	2	3	NA	1	YES	YES	SETD2:p.R2024Q	137	1	0.7	3:47108598	189	0	0	3:47108598	149	0	0	3:47108598	53	0	0	3:47108598	161	10	6.2	3:47108598	26	0	0	3:47108598	21	0	0	3:47108598	16	0	0	3:47108598	260	0	0	3:47108598	155	1	0.6	3:47108598	99	0	0	3:47108598	98	0	0	3:47108598	110	0	0	3:47108598	146	0	0	3:47108598	129	0	0	3:47108598	145	0	0	3:47108598	114	0	0
PD9694b	16	3820624	G	A	CREBBP	CCDS10509.1	r.3632c>u	c.2827C>T	p.Q943*	Sub	nonsense	2	DAMAGING_BCA_GENE	ONCOGENIC	37	pS	2.6	2.6	2	3	NA	1	YES	YES	CREBBP:p.Q943*	129	27	20.9	16:3820624	161	42	26.1	16:3820624	119	14	11.8	16:3820624	160	26	16.2	16:3820624	115	19	16.5	16:3820624	276	41	14.9	16:3820624	203	35	17.2	16:3820624	342	85	24.9	16:3820624	170	16	9.4	16:3820624	137	32	23.4	16:3820624	82	17	20.7	16:3820624	135	29	21.5	16:3820624	140	21	15	16:3820624	141	33	23.4	16:3820624	147	28	19	16:3820624	96	16	16.7	16:3820624	124	23	18.5
PD9694b	2	198266834	T	C	SF3B1	CCDS33356.1	r.2190a>g	c.2098A>G	p.K700E	Sub	missense	1	CANONICAL_ONCOGENIC_BCA_GENE	ONCOGENIC	37	pS	2.6	2.6	2	3	NA	1	YES	YES	SF3B1:p.K700E	194	53	27.3	2:198266834	236	46	19.5	2:198266834	191	39	20.4	2:198266834	228	48	21.1	2:198266834	195	48	24.6	2:198266834	225	58	25.8	2:198266834	226	63	27.9	2:198266834	360	109	30.3	2:198266834	294	30	10.2	2:198266834	203	56	27.6	2:198266834	142	36	25.4	2:198266834	168	50	29.8	2:198266834	210	48	22.9	2:198266834	206	64	31.1	2:198266834	198	47	23.7	2:198266834	181	41	22.7	2:198266834	252	65	25.8
PD9694b	10	89692904	C	T	PTEN	ENST00000371953	r.1745c>u	c.388C>T	p.R130*	Sub	nonsense	1	DAMAGING_IN_BCA_GENE	ONCOGENIC	37	pS	2.6	2.6	2	3	NA	1	YES	YES	PTEN:p.R130*	322	0	0	10:89692904	341	0	0	10:89692904	267	0	0	10:89692904	191	0	0	10:89692904	293	27	9.2	10:89692904	62	0	0	10:89692904	175	1	0.6	10:89692904	84	0	0	10:89692904	525	0	0	10:89692904	299	1	0.3	10:89692904	206	0	0	10:89692904	224	0	0	10:89692904	257	3	1.2	10:89692904	194	1	0.5	10:89692904	245	0	0	10:89692904	220	0	0	10:89692904	230	0	0