Literature DB >> 11752253

The EcoCyc Database.

Peter D Karp1, Monica Riley, Milton Saier, Ian T Paulsen, Julio Collado-Vides, Suzanne M Paley, Alida Pellegrini-Toole, César Bonavides, Socorro Gama-Castro.   

Abstract

EcoCyc is an organism-specific pathway/genome database that describes the metabolic and signal-transduction pathways of Escherichia coli, its enzymes, its transport proteins and its mechanisms of transcriptional control of gene expression. EcoCyc is queried using the Pathway Tools graphical user interface, which provides a wide variety of query operations and visualization tools. EcoCyc is available at http://ecocyc.org/.

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Year:  2002        PMID： 11752253      PMCID： PMC99147          DOI： 10.1093/nar/30.1.56

Source DB:  PubMed          Journal:  Nucleic Acids Res        ISSN： 0305-1048            Impact factor:   16.971


  5 in total

1.  RegulonDB (version 3.2): transcriptional regulation and operon organization in Escherichia coli K-12.

Authors:  H Salgado; A Santos-Zavaleta; S Gama-Castro; D Millán-Zárate; E Díaz-Peredo; F Sánchez-Solano; E Pérez-Rueda; C Bonavides-Martínez; J Collado-Vides
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

2.  Integrated pathway-genome databases and their role in drug discovery.

Authors:  P D Karp; M Krummenacker; S Paley; J Wagg
Journal:  Trends Biotechnol       Date:  1999-07       Impact factor: 19.536

3.  Pathway databases: a case study in computational symbolic theories.

Authors:  P D Karp
Journal:  Science       Date:  2001-09-14       Impact factor: 47.728

4.  Integrated access to metabolic and genomic data.

Authors:  P D Karp; S Paley
Journal:  J Comput Biol       Date:  1996       Impact factor: 1.479

5.  The repertoire of DNA-binding transcriptional regulators in Escherichia coli K-12.

Authors:  E Pérez-Rueda; J Collado-Vides
Journal:  Nucleic Acids Res       Date:  2000-04-15       Impact factor: 16.971
  5 in total
  137 in total

Review 1.  Thirteen years of building constraint-based in silico models of Escherichia coli.

Authors:  Jennifer L Reed; Bernhard Ø Palsson
Journal:  J Bacteriol       Date:  2003-05       Impact factor: 3.490

2.  GeneCensus: genome comparisons in terms of metabolic pathway activity and protein family sharing.

Authors:  J Lin; J Qian; D Greenbaum; P Bertone; R Das; N Echols; A Senes; B Stenger; M Gerstein
Journal:  Nucleic Acids Res       Date:  2002-10-15       Impact factor: 16.971

3.  A knowledge framework for computational molecular-disease relationships in cancer.

Authors:  Michael N Cantor; Yves A Lussier
Journal:  Proc AMIA Symp       Date:  2002

Review 4.  Network genomics--a novel approach for the analysis of biological systems in the post-genomic era.

Authors:  Christian V Forst
Journal:  Mol Biol Rep       Date:  2002-09       Impact factor: 2.316

5.  Enzyme-specific profiles for genome annotation: PRIAM.

Authors:  Clotilde Claudel-Renard; Claude Chevalet; Thomas Faraut; Daniel Kahn
Journal:  Nucleic Acids Res       Date:  2003-11-15       Impact factor: 16.971

6.  Genome evolution reveals biochemical networks and functional modules.

Authors:  Christian von Mering; Evgeny M Zdobnov; Sophia Tsoka; Francesca D Ciccarelli; Jose B Pereira-Leal; Christos A Ouzounis; Peer Bork
Journal:  Proc Natl Acad Sci U S A       Date:  2003-12-12       Impact factor: 11.205

7.  The metabolic world of Escherichia coli is not small.

Authors:  Masanori Arita
Journal:  Proc Natl Acad Sci U S A       Date:  2004-02-02       Impact factor: 11.205

8.  The CyberCell Database (CCDB): a comprehensive, self-updating, relational database to coordinate and facilitate in silico modeling of Escherichia coli.

Authors:  Shan Sundararaj; Anchi Guo; Bahram Habibi-Nazhad; Melania Rouani; Paul Stothard; Michael Ellison; David S Wishart
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

9.  coliBASE: an online database for Escherichia coli, Shigella and Salmonella comparative genomics.

Authors:  Roy R Chaudhuri; Arshad M Khan; Mark J Pallen
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

10.  GenProtEC: an updated and improved analysis of functions of Escherichia coli K-12 proteins.

Authors:  Margrethe H Serres; Sulip Goswami; Monica Riley
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971
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