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Nucleic Acids Research, Vol 25, Issue 1 43-51, Copyright © 1997 by Oxford University Press

ARTICLES

EcoCyc: Enyclopedia of Escherichia coli Genes and Metabolism

PD Karp, M Riley, SM Paley, A Pellegrini-Toole and M Krummenacker
Artificial Intelligence Center, SRI International, 333 Ravenswood Avenue, Menlo Park, CA 94025, USA. pkarp@ai.sri.com

The Encyclopedia of Genes and Metabolism (EcoCyc) is a database that combines information about the genome and the intermediary metabolism of Escherichia coli. It describes 2970 genes of E.coli, 547 enzymes encoded by these genes, 702 metabolic reactions that occur in E.coli and the organization of these reactions into 107 metabolic pathways. The EcoCyc graphical user interface allows scientists to query and explore the EcoCyc database using visualization tools such as genomic- map browsers and automatic layouts of metabolic pathways. EcoCyc spans the space from sequence to function to allow scientists to investigate an unusually broad range of questions. EcoCyc can be thought of as both an electronic review article because of its copious references to the primary literature, and as an in silicio model of E.coli metabolism that can be probed and analyzed through computational means.
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