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PMID: 23143106 Published · ppublish English Journal Article Research Support, N.I.H., Extramural

EcoCyc: fusing model organism databases with systems biology.

Nucleic acids research ·Vol. 41 ·No. Database issue ·2013-01-00 ·Pages D605-12

Keseler IM, Mackie A, Peralta-Gil M, Santos-Zavaleta A, Gama-Castro S, Bonavides-Martínez C, Fulcher C, Huerta AM, Kothari A, Krummenacker M, Latendresse M, Muñiz-Rascado L, Ong Q, Paley S, Schröder I, Shearer AG, Subhraveti P, Travers M, Weerasinghe D, Weiss V, Collado-Vides J, Gunsalus RP, Paulsen I, Karp PD

Abstract

EcoCyc (http://EcoCyc.org) is a model organism database built on the genome sequence of Escherichia coli K-12 MG1655. Expert manual curation of the functions of individual E. coli gene products in EcoCyc has been based on information found in the experimental literature for E. coli K-12-derived strains. Updates to EcoCyc content continue to improve the comprehensive picture of E. coli biology. The utility of EcoCyc is enhanced by new tools available on the EcoCyc web site, and the development of EcoCyc as a teaching tool is increasing the impact of the knowledge collected in EcoCyc.

MeSH Terms
Binding Sites Databases, Genetic Escherichia coli K12/genetics,metabolism Escherichia coli Proteins/classification,metabolism Gene Expression Regulation, Bacterial Internet Membrane Transport Proteins/classification,metabolism Models, Genetic Molecular Sequence Annotation Phenotype Position-Specific Scoring Matrices Promoter Regions, Genetic Systems Biology Transcription Factors/metabolism Transcription, Genetic
Chemicals
Escherichia coli Proteins Membrane Transport Proteins Transcription Factors
Authors & Affiliations
24 authors, click to expand affiliations / ORCID
Keseler Ingrid M
SRI International, 333 Ravenswood Avenue, Menlo Park, CA 94025, USA. keseler@ai.sri.com
Mackie Amanda
Peralta-Gil Martin
Santos-Zavaleta Alberto
Gama-Castro Socorro
Bonavides-Martínez César
Fulcher Carol
Huerta Araceli M
Kothari Anamika
Krummenacker Markus
Latendresse Mario
Muñiz-Rascado Luis
Ong Quang
Paley Suzanne
Schröder Imke
Shearer Alexander G
Subhraveti Pallavi
Travers Mike
Weerasinghe Deepika
Weiss Verena
Collado-Vides Julio
Gunsalus Robert P
Paulsen Ian
Karp Peter D
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Article Info
Journal
Nucleic acids research
Abbr.
Nucleic Acids Res
ISSN
1362-4962
DOI
10.1093/nar/gks1027
Email
keseler@ai.sri.com
Published
2013-01-00
Epub
2012-00-09
Pages
D605-12
Language
English
Region
England
NLM ID
0411011
PMCID
PMC3531154
Subset
IM
Grants
NIGMS NIH HHS · GM071962 · United States
NIGMS NIH HHS · R01 GM071962 · United States
NIGMS NIH HHS · U24GM077678 · United States
NIGMS NIH HHS · GM088849 · United States
NIGMS NIH HHS · U24 GM077678 · United States
External Links
PubMed source DOI: 10.1093/nar/gks1027 PMC Full Text View journal details
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