Table 3.

TFBS pairs, which were identified as significant by original PC-TraFF algorithm for all five BRC-subtypes but were determined as specific only in certain subtypes.

TFBS pair	Specific for subtype(s)	Pairs documentation
V$CETS1P54_01 - V$ETS_Q4	ErbB2 over-expressing, Luminal A	BioGRID, TransCompel®
V$MYCMAX_B - V$E2F_Q3_01	Basal-like	TransCompel®
V$CEBPB_02 - V$STAT6_01	Luminal A, Luminal B, Basal-like	TransCompel®
V$STAT6_01 - V$HMGIY_Q6	Normal-like	-
V$CETS1P54_01 - V$NFKB_Q6	Luminal A, Normal-like, Basal-like	TransCompel®
V$AP1_Q2_01 - V$AP1_Q4_01	Luminal A, Luminal B, ErbB2 over-expressing	BioGRID, TransCompel®

The last column indicates the databases that document the evidence for these pairs. For this purpose, we used TRANSCompel® (Kel-Margoulis et al., 2002) and BioGRID interaction database (Chatr-aryamontri et al., 2014), which contain experimentally proven pairs.