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Reactome: a knowledge base of biologic pathways and processes

Imre Vastrik1 email, Peter D'Eustachio2,3 email, Esther Schmidt1 email, Geeta Joshi-Tope2 email, Gopal Gopinath2 email, David Croft1 email, Bernard de Bono1 email, Marc Gillespie2,4 email, Bijay Jassal1 email, Suzanna Lewis5 email, Lisa Matthews2 email, Guanming Wu2 email, Ewan Birney1 email and Lincoln Stein2 email

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

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

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

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

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

author email corresponding author email

Genome Biology 2007, 8:R39doi:10.1186/gb-2007-8-3-r39

Published: 16 March 2007

Subject areas: Bioinformatics, Biochemistry and structural biology, Genome studies

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.


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