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Reactome: a knowledge base of biologic pathways and processes

Imre Vastrik1, Peter D'Eustachio23, Esther Schmidt1, Geeta Joshi-Tope2, Gopal Gopinath2, David Croft1, Bernard de Bono1, Marc Gillespie24, Bijay Jassal1, Suzanna Lewis5, Lisa Matthews2, Guanming Wu2, Ewan Birney1 and Lincoln Stein2*

Author affiliations

1 European Bioinformatics Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SD, UK

2 Cold Spring Harbor Laboratory, Bungtown Road, Cold Spring Harbor, NY 11724, USA

3 NYU School of Medicine, First Avenue, New York, NY 10016, USA

4 College of Pharmacy and Allied Health Professions, St. John's University, Utopia Parkway, Queens, NY 11439, USA

5 Lawrence Berkeley National Laboratory, Cyclotron Road 64R0121, Berkeley, CA 94720, USA

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Citation and License

Genome Biology 2007, 8:R39  doi:10.1186/gb-2007-8-3-r39

Published: 16 March 2007

Abstract

Reactome http://www.reactome.org webcite, an online curated resource for human pathway data, provides infrastructure for computation across the biologic reaction network. We use Reactome to infer equivalent reactions in multiple nonhuman species, and present data on the reliability of these inferred reactions for the distantly related eukaryote Saccharomyces cerevisiae. Finally, we describe the use of Reactome both as a learning resource and as a computational tool to aid in the interpretation of microarrays and similar large-scale datasets.