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_PD9773a2	TUM_PILEUP_MUTS_PD9773a2	Pileup_MtAlpct_PD9773a2	ID.2	DEPTH_PD9773c	TUM_PILEUP_MUTS_PD9773c	Pileup_MtAlpct_PD9773c	ID.3	DEPTH_PD9773d	TUM_PILEUP_MUTS_PD9773d	Pileup_MtAlpct_PD9773d
PD9773b	11	118344656	A	T	MLL	CCDS31686.1	r.2805a>u	c.2782A>T	p.K928*	Sub	nonsense	1	UNKNOWN_EFFECT_BCA_GENE	UNKNOWN	49	pCR	2.3	0	3	1	60	0	YES	YES	MLL:p.K928*	161	0	0	11:118344656	176	0	0	11:118344656	59	7	11.9
PD9773b	6	157099486	C	T	ARID1B	CCDS5251.1	r.401c>u	c.249C>T	p.G83G	Sub	silent	2	SILENT	SILENT	49	pCR	2.3	0	3	1	60	0	YES	YES	ARID1B:p.G83G	101	4	4	6:157099486	129	13	10.1	6:157099486	21	7	33.3
PD9773b	17	65908646	T	C	BPTF	CCDS11673.1	r.4847u>c	c.4646T>C	p.I1549T	Sub	missense	3	UNCERTAIN_CANCER_GENE_STATUS_IN_BCA	UNKNOWN	49	pCR	2.3	0	3	1	60	0	YES	YES	BPTF:p.I1549T	135	6	4.4	17:65908646	137	15	10.9	17:65908646	52	12	23.1
PD9773b	17	7577538	C	T	TP53	CCDS11118.1	r.933g>a	c.743G>A	p.R248Q	Sub	missense	1	CANONICAL_ONCOGENIC_BCA_GENE	ONCOGENIC	49	pCR	2.3	0	3	1	60	0	YES	YES	TP53:p.R248Q	137	7	5.1	17:7577538	176	17	9.7	17:7577538	39	9	23.1