Reactome

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Text from the NAR 2007 Database Issue (Database Summaries) by permission of Oxford University Press.

Reactome is NAR Database No. 612.

Contents

Database Description

Reactome is a curated database of biological processes in humans. It covers biological pathways ranging from the basic processes of metabolism to high-level processes such as hormonal signalling. While Reactome is targeted at human pathways, it also includes many individual biochemical reactions from non-human systems such as rat, mouse, fugu fish and zebra fish. This makes the database relevant to the large number of researchers who work on model organisms. All the information in Reactome is backed up by its provenance: either a literature citation or an electronic inference based on sequence similarity. Our ontology ensures that the various events are linked in an appropriate spatial and temporal context.

The basic information in Reactome is provided by bench biologists who are experts in that domain of biology. The information is then managed and edited by the Reactome staff at CSHL and the EBI, and entered into a relational database. They are then reviewed by other biological researchers for consistency and accuracy. Following peer-review, the information is published to the web. <P>Reactome supersedes an earlier project called The Genome Knowledgebase and incorporates all the information previously available in its predecessor. Reactome sports a radically redesigned user interface in which the entire set of human pathways known to the database are represented as a series of constellations in a "starry sky." The starry sky can be used to navigate through the universe of human reactions and is invaluable to visualize connections between pathways, some of which will be surprising to biologists who are not familiar with pathways outside their domain of research.

References

  1. Joshi-Tope G., Vastrik I., Gopinathrao G., Matthews L., Schmidt E., Gillespie M., D&apos;Eustachio P., Jassal B., Lewis S., Wu G., Birney E., and Stein L. 2003. The Genome Knowledgebase: A Resource for Biologists and Bioinformaticists. Cold Spring Harbor Symposia on Quantitative Biology. Volume LXVIII. 2003 Cold Spring Harbor laboratory Press 0-87969-709-1/04.

Authors

Joshi-Tope G.1, Vastrik I.2, Gopinathrao G.1, Wu G.1, Matthews L.1, Gillespie M.1,5, Arva A.1, D&apos;Eustachio P.1,3, Schmidt E.2, Jassal B.2, de Bono B.2, Lewis S.4, Birney E.2 and Stein L.D1

1Cold Spring Harbor Laboratory, Cold Spring Harbor NY, USA,
2European Bioinformatics Institute, Hinxton, Cambridge, UK,
3NYU School of Medicine, New York NY, USA,
4University of California, Berkeley CA, USA,
5St. Johns University, NY, USA


External Links

Contact Email

  • Missing

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See also; Reactome in Wikipedia.


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