Dataset Information

Reactome and the Gene Ontology: Digital convergence of data resources.

ABSTRACT:

Motivation

GO 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.

Supplementary information

Supplementary material is available at Bioinformatics online.

SUBMITTER: Good BM

PROVIDER: S-EPMC8504636 | biostudies-literature | 2021 May

REPOSITORIES: biostudies-literature

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Publications

Reactome and the Gene Ontology: digital convergence of data resources.

Good Benjamin M BM Van Auken Kimberly K Hill David P DP Mi Huaiyu H Carbon Seth S Balhoff James P JP Albou Laurent-Philippe LP Thomas Paul D PD Mungall Christopher J CJ Blake Judith A JA D'Eustachio Peter P

Bioinformatics (Oxford, England) 20211001 19

<h4>Motivation</h4>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.<h4>Results</h4>To convert the rich content of Reactom ...[more]

PMID: 33964129

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