Interactome and Gene Ontology provide congruent yet subtly different views of a eukaryotic cell.
BACKGROUND
The characterization of the global functional structure of a cell is a major goal in bioinformatics and systems biology. Gene Ontology (GO) and the protein-protein interaction network offer alternative views of that structure.


RESULTS
This study presents a comparison of the global structures of the Gene Ontology and the interactome of Saccharomyces cerevisiae. Sensitive, unsupervised methods of clustering applied to a large fraction of the proteome led to establish a GO-interactome correlation value of +0.47 for a general dataset that contains both high and low-confidence interactions and +0.58 for a smaller, high-confidence dataset.


CONCLUSIONS
The structures of the yeast cell deduced from GO and interactome are substantially congruent. However, some significant differences were also detected, which may contribute to a better understanding of cell function and also to a refinement of the current ontologies.
Marco
Antonio
A
Instituto de Biomedicina de Valencia, Consejo Superior de Investigaciones Científicas (IBV-CSIC), Valencia, Spain. amarcoca@asu.edu
Marín
Ignacio
I
D030562:Databases, Protein; D025941:Protein Interaction Mapping; D020543:Proteome / Q000378:metabolism; D012261:Ribonucleoproteins / Q000378:metabolism; D012441:Saccharomyces cerevisiae / Q000166:cytology* / Q000378:metabolism*; D029701:Saccharomyces cerevisiae Proteins / Q000378:metabolism; D049490:Systems Biology
D020543:Proteome; D012261:Ribonucleoproteins; D029701:Saccharomyces cerevisiae Proteins