Properly defining the targets of a transcription factor significantly improves the computational identification of cooperative transcription factor pairs in yeast

Table 1 Nine unique PCTFPs (among the 50 PCTFPs) which are predicted by the fourth proposed algorithm but not by any existing algorithms

Rank	PCTFP	Experimental evidence	The biological process in which both TFs are involved
1	Ifh1-Sfp1	Jorgensen et al. [25]	Regulation of ribosomal protein gene transcription
2	Ifh1-Rap1	Wade et al. [26]	Regulation of ribosomal protein gene transcription
16	Msn2-Ste12		Stress response
17	Msn2-Tec1		Stress response
20	Ifh1-Fhl1	Schawalder et al. [27]	Regulation of ribosomal protein gene transcription
30	Msn2-Pdr1		Stress response
42	Sok2-Ste12		Pseudohyphal growth
44	Rap1-Tup1	Roth [28]	Chromatin-mediated transcription regulation
46	Msn2-Rap1		Stress response

ISSN: 1471-2164