The use of Gene Ontology terms for predicting highly-connected 'hub' nodes in protein-protein interaction networks

Table 1 A summary of protein interaction and GO annotation data used in the training and testing of the hub classifiers.

Training/Testing set	E. coli	S. cerevisiae	D. melanogaster	H. sapiens	total of 4 species
# of proteins	2860	5397	6935	6592	21784
# of hubs (10% of total proteins)	286	535	628	620	2069
# of non-hubs (90% of total proteins)	2574	4862	6307	5972	19715
# of protein interactions	13888	37167	19994	19115	90164
minimum # of interactions per hub	20	33	16	13
# of proteins with at least one GO term	1378	4738	5931	5097	17144
# of proteins without any GO term	1482	659	1004	1495	4640
% of proteins with at least one GO term	48.18%	87.79%	85.52%	77.32%	78.70%
# of different GO terms – process	30	41	48	49	50
# of different GO terms – function	21	37	38	37	40
# of different GO terms – component	4	27	31	29	35
# of different GO terms – total	55	105	117	115	125

The top table lists the protein interactions and hubs in each of the four species, and the bottom part of the table lists the number of unique GO terms for each annotation category.

ISSN: 1752-0509