Using the Reactome database

Stein, L. D. (October 2004) Using the Reactome database. Curr Protoc Bioinformatics, Chapte. Unit 8.7.

DOI: 10.1002/0471250953.bi0807s7


There is considerable interest in the bioinformatics community in creating pathway databases. The Reactome project (a collaboration between Cold Spring Harbor Laboratory and the European Bioinformatics Institute) is one such pathway database and collects structured information on all the biological pathways in the human. It is a curated collection of well-documented molecular reactions that span the gamut from simple intermediate metabolism to complex cellular events. This information is supplemented with likely orthologous molecular reactions in mouse, rat, zebrafish, and other model organisms. This unit describes how to use the Reactome database to learn the steps of a biological pathway and see how one pathway interacts with another; navigate and browse through the Reactome database; identify the pathways in which a molecule of interest is involved; use the Pathfinder tool to search the database for possible connections within and between pathways.

Item Type: Paper
Subjects: bioinformatics > genomics and proteomics > databases > database construction
bioinformatics > genomics and proteomics > databases > database optimization
bioinformatics > genomics and proteomics > annotation > map annotation
bioinformatics > genomics and proteomics > databases > databases
CSHL Authors:
Communities: CSHL labs > Stein lab
Depositing User: CSHL Librarian
Date: October 2004
Date Deposited: 24 Jan 2012 19:11
Last Modified: 24 Jan 2012 19:11

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