A novel method to identify cooperative functional modules: study of module coordination in the Saccharomyces cerevisiae cell cycle

Table 3 Regulators of each phase.

Phase	Transcriptional Factors	CDC28/cyclins/CDC genes	Modules containing these factors (ID)
G1	SWI4, MBP1, STB1, SWI6, ACE2, SKN7	CLN3, FUS3, FAR1, CDC36, CDC39, CLN2, CDC37, CDC28, CLN1	0, 1, 14, 30, 32, 42, 44, 66, 79
S	SWI4, MBP1, NDD1, SWI6, SKN7	CDC24, CDC7, CDC8, CDC21	0, 12, 14, 30, 66, 77
G2	FKH1, FKH2, NDD1, MCM1	CDC11, CLB2, CDC15, CLB4, CDC28, CDC3, CDC5, CDC14, CLB1, CLB3	1, 3, 14, 30, 32, 42, 44, 79
M	MCM1, SWI5, ACE2	CDC28, CLB1, CLB2, CLB3, CLB4	0, 1, 3, 14, 30, 32, 42, 44, 79,

Essential regulators, including Cdc28, cyclins, CDC genes, and phase-specific transcription factors are listed for each phase. Relationship graphs of each phase were constructed via cooperative interactions through regulators of the phase (Figure 6,7,8,9, and 10). To trace regulators that mediate crosstalk between cooperative modules, the IDs of modules that contain these regulators are also listed in the final column.

ISSN: 1471-2105