title: EcoCyc: a comprehensive database of Escherichia coli biology.
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.
authors.affiliation: SRI International, 333 Ravenswood Ave., Menlo Park, CA 94025, USA. keseler@ai.sri.com
authors.forename: Ingrid M
authors.initials: IM
authors.lastname: Keseler
authors.forename: Julio
authors.initials: J
authors.lastname: Collado-Vides
authors.forename: Alberto
authors.initials: A
authors.lastname: Santos-Zavaleta
authors.forename: Martin
authors.initials: M
authors.lastname: Peralta-Gil
authors.forename: Socorro
authors.initials: S
authors.lastname: Gama-Castro
authors.forename: Luis
authors.initials: L
authors.lastname: Muñiz-Rascado
authors.forename: César
authors.initials: C
authors.lastname: Bonavides-Martinez
authors.forename: Suzanne
authors.initials: S
authors.lastname: Paley
authors.forename: Markus
authors.initials: M
authors.lastname: Krummenacker
authors.forename: Tomer
authors.initials: T
authors.lastname: Altman
authors.forename: Pallavi
authors.initials: P
authors.lastname: Kaipa
authors.forename: Aaron
authors.initials: A
authors.lastname: Spaulding
authors.forename: John
authors.initials: J
authors.lastname: Pacheco
authors.forename: Mario
authors.initials: M
authors.lastname: Latendresse
authors.forename: Carol
authors.initials: C
authors.lastname: Fulcher
authors.forename: Malabika
authors.initials: M
authors.lastname: Sarker
authors.forename: Alexander G
authors.initials: AG
authors.lastname: Shearer
authors.forename: Amanda
authors.initials: A
authors.lastname: Mackie
authors.forename: Ian
authors.initials: I
authors.lastname: Paulsen
authors.forename: Robert P
authors.initials: RP
authors.lastname: Gunsalus
authors.forename: Peter D
authors.initials: PD
authors.lastname: Karp
mesh_terms: D001665:Binding Sites; D030541:Databases, Genetic; D048168:Escherichia coli K12 / Q000235:genetics / Q000378:metabolism / Q000502:physiology*; D029968:Escherichia coli Proteins / Q000737:chemistry / Q000378:metabolism; D015964:Gene Expression Regulation, Bacterial; D015398:Signal Transduction; D012984:Software; D014157:Transcription Factors / Q000378:metabolism; D014158:Transcription, Genetic; D014584:User-Computer Interface
chemical_list: D029968:Escherichia coli Proteins; D014157:Transcription Factors