EcoCyc: a comprehensive database of Escherichia coli biology

Ingrid M. Keseler, Julio Collado-Vides, Alberto Santos-Zavaleta, Martin Peralta-Gil, Socorro Gama-Castro, Luis Muniz-Rascado, César Bonavides-Martinez, Suzanne Paley, Markus Krummenacker, Tomer Altman, Pallavi Kaipa, Aaron Spaulding, John Pacheco, Mario Latendresse, Carol Fulcher, Malabika Sarker, Alexander G. Shearer, Amanda Mackie, Ian Paulsen, Robert P. GunsalusPeter D. Karp

    Research output: Contribution to journalArticlepeer-review

    362 Citations (Scopus)
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    EcoCyc ( is a comprehensive model organism database for Escherichia coli K-12 MG1655. From the scientific literature, EcoCyc captures the functions of individual E. coli gene products; their regulation at the transcriptional, post-transcriptional and protein level; and their organization into operons, complexes and pathways. EcoCyc users can search and browse the information in multiple ways. Recent improvements to the EcoCyc Web interface include combined gene/ protein pages and a Regulation Summary Diagram displaying a graphical overview of all known regulatory inputs to gene expression and protein activity. The graphical representation of signal transduction pathways has been updated, and the cellular and regulatory overviews were enhanced with new functionality. A specialized undergraduate teaching resource using EcoCyc is being developed.

    Original languageEnglish
    Pages (from-to)D583–D590
    Number of pages8
    JournalNucleic Acids Research
    Issue numberSUPPL. 1
    Publication statusPublished - Jan 2011

    Bibliographical note

    This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (
    by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.


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