Table 2.

GO Term Enrichment Among the Connected Components of the Protein Family Network (Identified at LLR >0.7)

ID	Description	Arabidopsis	Yeast	Rat	Mouse	Human
1	Ubiquitin-dependent protein catabolic process	<0.0001	<0.0001	<0.0001	<0.0001	<0.0001
2	Protein catabolic process	<0.0001	<0.0001	0.0097	0.02	1.0E-4
3	Translation	<0.0001	1.0E-4	0.6338	<0.0001	<0.0001
4	Regulation of cell cycle	<0.0001	0.0080	4.0E-4	<0.0001	<0.0001
5	Phosphorylation	<0.0001	1	0.9318	2.0E-4	0.01
6	Regulation of transcription, DNA-dependent	<0.0001	0.0035	0.9998	0.0014	<0.0001
7	DNA replication	0.13	0.0081	NA	0.09	3.0E-4
8	Protein folding	<0.0001	0.93	0.3797	<0.0001	<0.0001
9	DNA replication	0.1	0.23	0.0072	0.0033	0.07
10	Transcription	0.05	1	1.0	1	<0.0001
11	RNA splicing	<0.0001	0.04	0.9999	1.0E-4	<0.0001
13	Protein amino acid phosphorylation	0.02	1	0.0505	0.0047	2.0E-4
14	Mitotic metaphase/anaphase transition	0.12	0.0013	NA	0.31	<0.0001
15	Protein amino acid deacetylation	NA	0.85	NA	0.5	3.0E-4
16	MAPKKK cascade during cell wall biogenesis	NA	<0.0001	NA	NA	NA
17	Phosphorylation	NA	0.74	<0.0001	<0.0001	<0.0001
18	Mitotic spindle organization and biogenesis in nucleus	NA	0.0022	NA	NA	NA
19	Pentose-phosphate shunt, nonoxidative branch	<0.0001	NA	NA	0.03	0.03
20	Cell division	NA	0.0039	0.0033	<0.0001	<0.0001
21	DNA recombination	<0.0001	0.23	NA	0.4	0.38
22	Proline biosynthetic process	0.06	0.25	<0.0001	<0.0001	<0.0001
23	Fatty acid transport	NA	2.0E-4	NA	NA	0.33
25	Reproduction	<0.0001	NA	NA	NA	NA
26	Protein amino acid phosphorylation	0.62	0.98	0.9732	<0.0001	<0.0001

The p-values are reported for five of the seven species. At most one significant term is considered for each module. The p-values smaller than 0.01 are presented in bold. NA indicates missing annotation (see text in Section 3.4).