Using the MetaCyc pathway database and the BioCyc database collection
by Caspi R and Karp PD.
Curr Protoc Bioinformatics, vol. 20, pp. 1.17.1-1.17.51, 2007.
The MetaCyc database (http://metacyc.org) is a collection of more than a thousand metabolic pathways from a wide variety of organisms, collected from the literature by manual curation. BioCyc contains more than 370 Pathway/Genome Databases, each of which describes the genome and predicted metabolic pathways of a single organism, as computationally predicted from the annotated genomes, using MetaCyc data as a reference. The protocols in this unit introduce the user to the extensive data content available in MetaCyc and BioCyc, and to mechanisms for querying, visualizing, and analyzing these data using the Pathway Tools software.
| DOI 10.1002/0471250953.bi0117s20 |
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BioCyc Database CollectionThe BioCyc Database Collection is a collection of Pathway/Genome Databases. Each database in the BioCyc collection describes the genome and metabolic pathways of a single organism, with the exception of the MetaCyc database, which is a reference source on metabolic pathways from hundreds of organisms. |
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MetaCyc: Metabolic Pathway DatabaseThe MetaCyc metabolic pathway database contains pathways from over 150 different organisms. MetaCyc describes metabolic pathways, reactions, enzymes, and substrate compounds. The MetaCyc data were gathered from a variety of literature and on-line sources, and contain citations to the source of each pathway. |
| Name | Title | ||
|---|---|---|---|
| Caspi, Ron | Scientific Database Curator | ||
| Karp, Peter D | Director, Bioinformatics Research Group |
