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EcoCyc: a comprehensive database of Escherichia coli biology.

  • Author(s): Keseler, Ingrid M
  • Collado-Vides, Julio
  • Santos-Zavaleta, Alberto
  • Peralta-Gil, Martin
  • Gama-Castro, Socorro
  • Muñiz-Rascado, Luis
  • Bonavides-Martinez, César
  • Paley, Suzanne
  • Krummenacker, Markus
  • Altman, Tomer
  • Kaipa, Pallavi
  • Spaulding, Aaron
  • Pacheco, John
  • Latendresse, Mario
  • Fulcher, Carol
  • Sarker, Malabika
  • Shearer, Alexander G
  • Mackie, Amanda
  • Paulsen, Ian
  • Gunsalus, Robert P
  • Karp, Peter D
  • et al.
Abstract

EcoCyc (http://EcoCyc.org) 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.

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