Reactome: a knowledge base of biologic pathways and processes

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

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.