| | TF | Number of co-regulated genes | Genes regulated by the TF |
| | Ste12 | 9 | YBR083, YCL055W, YFL027C, YJL170C, YLR452C, YML047C, YMR232W, YNL279W, YPL156C |
| | Gal4 | 10 | GAL2, GAL3, GAL1/10, GAL7, MTH1, FUR4, PCL10, GAL80, PGM2, GCY1 |
| | MET31 | 8 | YEL015W, YEL016C, STR3, MET16, NUT2, SSN8, YJL060W, YEL072W |
| | Mbp1 | 18 | YEL018W, MMS21, YCK2, MCD1, MCM2, RPS9A, MOT1, OPY2, CLB5, YER071C, VTC1, YJL045W, MSH6, YNR009W, HXT10, YER087C-A, TOF1, YNL274C |
| | Leu3 | 10 | YDR279W, LEU1, OAC1, YOR271C, YDL228C, YHR209W, YHR207C, BAT1, ILV2, RRP6 |
| | Cbf1 | 16 | YAL026C, YBR089C-A, YBR225W, YDR438W, YIL074C, YIL126W, YIL127C, YJL167W, YJL168C, YJL209W, YJR010W, YKL191W, YKL192C, YNL094W, YNL095C, YNL282W |
| | Ace2 | 1 | YLR286C |
| | Gcn4 | 6 | YBL103C, YDL170W, YKL015W, YLR451W, YML099C, YNL103W |
| | Abf1 | 15 | YAL038W, YBR248C, YCR012W, YFL038C, YFR031C, YGL234W, YGR059W, YHR174W, YIL160C, YJL166W, YKL112W, YLR203C, YLR204W, YOR116C, YPR110C |
| | Hap1 | 4 | YEL039C, YJR048W, YML054C, YOR065W |
| | Ino4 | 6 | YDR050C, YER026C, YGR157W, YHR123W, YMR084W, YNR016C |
| | Mcb | 6 | YDL102W, YDL164C, YJL194W, YMR199W, YNL102W, YOR074C |
| | Mse | 1 | YGR059W |
| | Nbf | 1 | YJL153C |
| | Pdr3 | 2 | YBL005W, YGR281W |
| | Pho4 | 2 | YDR481C, YGR233C |
| | Put3 | 1 | YHR037W |
| | Rap1 | 8 | YFL014W, YFR031C, YGL123W, YKL062W, YLR399C, YNL216W, YOL082W, YPR102C |
| | Swi5 | 2 | YDL227C, YNL327W |
| | Uasino | 1 | YJL153C |
| | Uasrad | 2 | YCR066W, YGL058W |
| | Adr1 | 2 | YDR256C, YMR303C |
| | Mig1 | 7 | YBR019C, YBR020W, YDR009W, YDR146C, YIL162W, YKL109W, YPL248C |
| | T4c | 2 | YJL106W, YJL153C |
| | Uasphr | 14 | YBR114W, YDL200C, YDR217C, YEL037C, YER095W, YER142C, YGL058W, YIL066C, YJL026W, YJR035W, YJR052W, YML032C, YNL250W, YPL022W |
| | Ap-1 | 1 | YGR209C |
| | Bas2 | 2 | YCL030C, YGL234W |
| | Csre | 2 | YER065C, YNL117W |
| | Mac1 | 11 | YDR058C, YDR075W, YER145C, YER146W, YGR136W, YJR049C, YJR050W, YNL250W, YNL251C, YPR110C, YPR111W |
| | Gcr1 | 2 | YAL038W, YGR215W |
| | Mcm1 | 17 | YAL040C, YBR160W, YBR202W, YDR146C, YDR403W, YER111C, YFL026W, YGL008C, YGR108W, YJL159W, YJL194W, YKL178C, YKL209C, YKR066C, YNL277W, YPR113W, YPR119W |
| | Reb1 | 12 | YCR012W, YDL164C, YDR007W, YDR050C, YDR146C, YER086W, YFL039C, YGL026C, YNL216W, YOL004W, YOL006C, YPL231W |
| | Rox1 | 2 | YDR044W, YPR065W |
| | Scb | 2 | YDL227C, YMR199W |
| | Sff | 3 | YDR146C, YGR108W, YPR119W- |
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