Table 1

Statistically significant associations between annotated complexes and known regulons

Only the most statistically significant associations (E-value ≤ 0.01) between complexes and regulons are listed (see Additional data file 1 (Figure S2a-b) for a complete list). Each line lists the association detected between a multiprotein complex denoted by its CYGD name (column 2) and a regulon denoted by its common name (column 3). Column 4 lists the number of genes in the complex and column 5 lists the number of genes in the regulon. Column 6 lists the number of common genes between the regulon and complex, and column 7 lists the statistical significance criterion (E-value) for the detected overlap (see Materials and methods). The far right column lists the total number of genes in the complex that are common between it and all the regulons that map into it. Complexes have been subdivided into three categories, 'permanent', 'transient' or 'others', as indicated in column 1, and described in Materials and methods. When a smaller complex is completely included within a larger one and detected associations map into it, only the smaller complex is listed. For example, the larger assembly 'Cyclin-CDK complexes' is not listed because the detected association is with one of its components the 'Cdc28p complexes' only. When associations are detected with more than one complex of a larger assembly, as is the case for the small and large subunits of the cytoplasmic ribosomes, the name of the larger assembly is given first, with no details of the identified associations. But those are listed for each of the component complexes. Information on the annotated regulons in (a) was obtained from the TRANSFAC and aMAZE databases, from the list compiled by Young and colleagues [16,48] and from the recent literature.

Simonis et al. Genome Biology 2004 5:R33