Table 3.

Breakdown of three example interaction networks into most represented gene ontology categories—see text for more details. The digit in the first column indicates the example network in Figure 13 that any given line refers to. The last two columns quote the number of predicted, and possible pairs for each GO term.

#	GO Term	Description	Pred.	Tot.
1	GO:0043285	Biopolymer catabolism	561	17020
1	GO:0006366	Transcription from RNA polymerase II promoter	341	36046
1	GO:0006412	Protein biosynthesis	281	299925
1	GO:0006260	DNA replication	196	5253
1	GO:0006461	Protein complex assembly	191	11175
1	GO:0016568	Chromatin modification	172	15400
1	GO:0006473	Protein amino acid acetylation	91	666
1	GO:0006360	Transcription from RNA polymerase I promoter	78	378
1	GO:0042592	Homeostasis	78	5778
2	GO:0043285	Biopolymer catabolism	631	17020
2	GO:0006366	Transcription from RNA polymerase II promoter	414	36046
2	GO:0016568	Chromatin modification	229	15400
2	GO:0006260	DNA replication	226	5253
2	GO:0006412	Protein biosynthesis	225	299925
2	GO:0045045	Secretory pathway	151	18915
2	GO:0006793	Phosphorus metabolism	134	17391
2	GO:0048193	Golgi vesicle transport	128	9180
2	GO:0006352	Transcription initiation	121	1540
3	GO:0006412	Protein biosynthesis	277	299925
3	GO:0006461	Protein complex assembly	190	11175
3	GO:0009889	Regulation of biosynthesis	28	990
3	GO:0051246	Regulation of protein metabolism	28	903
3	GO:0007046	Ribosome biogenesis	10	21528
3	GO:0006512	Ubiquitin cycle	3	2211