Reactome and the Gene Ontology: digital convergence of data resources

Motivation: Gene Ontology Causal Activity Models (GO-CAMs) assemble individual associations of gene products with cellular components, molecular functions and biological processes into causally linked activity flow models. Pathway databases such as the Reactome Knowledgebase create detailed molecular process descriptions of reactions and assemble them, based on sharing of entities between individual reactions into pathway descriptions. Results: To convert the rich content of Reactome into GO-CAMs, we have developed a software tool, Pathways2GO, to convert the entire set of normal human Reactome pathways into GO-CAMs. This conversion yields standard GO annotations from Reactome content and supports enhanced quality control for both Reactome and GO, yielding a nearly seamless conversion between these two resources for the bioinformatics community.

Automated summary

GO-CAMs combine individual gene product associations with cellular components, molecular functions, and biological processes into causally linked activity flow models. The software tool Pathways2GO converts the entire set of Reactome pathways into GO-CAMs, providing standard GO annotations and quality control for the bioinformatics community. This conversion ensures a seamless integration between Reactome and GO resources.