Literature DB >> 11752321

DIP, the Database of Interacting Proteins: a research tool for studying cellular networks of protein interactions.

Ioannis Xenarios1, Lukasz Salwínski, Xiaoqun Joyce Duan, Patrick Higney, Sul-Min Kim, David Eisenberg.   

Abstract

The Database of Interacting Proteins (DIP: http://dip.doe-mbi.ucla.edu) is a database that documents experimentally determined protein-protein interactions. It provides the scientific community with an integrated set of tools for browsing and extracting information about protein interaction networks. As of September 2001, the DIP catalogs approximately 11 000 unique interactions among 5900 proteins from >80 organisms; the vast majority from yeast, Helicobacter pylori and human. Tools have been developed that allow users to analyze, visualize and integrate their own experimental data with the information about protein-protein interactions available in the DIP database.

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Year:  2002        PMID: 11752321      PMCID: PMC99070          DOI: 10.1093/nar/30.1.303

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


  16 in total

1.  DIP: the database of interacting proteins.

Authors:  I Xenarios; D W Rice; L Salwinski; M K Baron; E M Marcotte; D Eisenberg
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

2.  BIND--The Biomolecular Interaction Network Database.

Authors:  G D Bader; I Donaldson; C Wolting; B F Ouellette; T Pawson; C W Hogue
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

3.  YPD, PombePD and WormPD: model organism volumes of the BioKnowledge library, an integrated resource for protein information.

Authors:  M C Costanzo; M E Crawford; J E Hirschman; J E Kranz; P Olsen; L S Robertson; M S Skrzypek; B R Braun; K L Hopkins; P Kondu; C Lengieza; J E Lew-Smith; M Tillberg; J I Garrels
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

4.  DIP: The Database of Interacting Proteins: 2001 update.

Authors:  I Xenarios; E Fernandez; L Salwinski; X J Duan; M J Thompson; E M Marcotte; D Eisenberg
Journal:  Nucleic Acids Res       Date:  2001-01-01       Impact factor: 16.971

5.  Toward a protein-protein interaction map of the budding yeast: A comprehensive system to examine two-hybrid interactions in all possible combinations between the yeast proteins.

Authors:  T Ito; K Tashiro; S Muta; R Ozawa; T Chiba; M Nishizawa; K Yamamoto; S Kuhara; Y Sakaki
Journal:  Proc Natl Acad Sci U S A       Date:  2000-02-01       Impact factor: 11.205

6.  A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae.

Authors:  P Uetz; L Giot; G Cagney; T A Mansfield; R S Judson; J R Knight; D Lockshon; V Narayan; M Srinivasan; P Pochart; A Qureshi-Emili; Y Li; B Godwin; D Conover; T Kalbfleisch; G Vijayadamodar; M Yang; M Johnston; S Fields; J M Rothberg
Journal:  Nature       Date:  2000-02-10       Impact factor: 49.962

7.  Genomic expression programs in the response of yeast cells to environmental changes.

Authors:  A P Gasch; P T Spellman; C M Kao; O Carmel-Harel; M B Eisen; G Storz; D Botstein; P O Brown
Journal:  Mol Biol Cell       Date:  2000-12       Impact factor: 4.138

8.  A computationally directed screen identifying interacting coiled coils from Saccharomyces cerevisiae.

Authors:  J R Newman; E Wolf; P S Kim
Journal:  Proc Natl Acad Sci U S A       Date:  2000-11-21       Impact factor: 11.205

9.  Zip3 provides a link between recombination enzymes and synaptonemal complex proteins.

Authors:  S Agarwal; G S Roeder
Journal:  Cell       Date:  2000-07-21       Impact factor: 41.582

10.  The Saccharomyces cerevisiae Start-specific transcription factor Swi4 interacts through the ankyrin repeats with the mitotic Clb2/Cdc28 kinase and through its conserved carboxy terminus with Swi6.

Authors:  R F Siegmund; K A Nasmyth
Journal:  Mol Cell Biol       Date:  1996-06       Impact factor: 4.272

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  501 in total

1.  Novel functions of the phosphatidylinositol metabolic pathway discovered by a chemical genomics screen with wortmannin.

Authors:  Amani Zewail; Michael W Xie; Yi Xing; Lan Lin; P Fred Zhang; Wei Zou; Jonathan P Saxe; Jing Huang
Journal:  Proc Natl Acad Sci U S A       Date:  2003-03-03       Impact factor: 11.205

2.  Visualization and interpretation of protein networks in Mycobacterium tuberculosis based on hierarchical clustering of genome-wide functional linkage maps.

Authors:  Michael Strong; Thomas G Graeber; Morgan Beeby; Matteo Pellegrini; Michael J Thompson; Todd O Yeates; David Eisenberg
Journal:  Nucleic Acids Res       Date:  2003-12-15       Impact factor: 16.971

3.  MitoProteome: mitochondrial protein sequence database and annotation system.

Authors:  Dawn Cotter; Purnima Guda; Eoin Fahy; Shankar Subramaniam
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

4.  IntAct: an open source molecular interaction database.

Authors:  Henning Hermjakob; Luisa Montecchi-Palazzi; Chris Lewington; Sugath Mudali; Samuel Kerrien; Sandra Orchard; Martin Vingron; Bernd Roechert; Peter Roepstorff; Alfonso Valencia; Hanah Margalit; John Armstrong; Amos Bairoch; Gianni Cesareni; David Sherman; Rolf Apweiler
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

5.  The Database of Interacting Proteins: 2004 update.

Authors:  Lukasz Salwinski; Christopher S Miller; Adam J Smith; Frank K Pettit; James U Bowie; David Eisenberg
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

6.  The aMAZE LightBench: a web interface to a relational database of cellular processes.

Authors:  Christian Lemer; Erick Antezana; Fabian Couche; Frédéric Fays; Xavier Santolaria; Rekin's Janky; Yves Deville; Jean Richelle; Shoshana J Wodak
Journal:  Nucleic Acids Res       Date:  2004-01-01       Impact factor: 16.971

7.  TopNet: a tool for comparing biological sub-networks, correlating protein properties with topological statistics.

Authors:  Haiyuan Yu; Xiaowei Zhu; Dov Greenbaum; John Karro; Mark Gerstein
Journal:  Nucleic Acids Res       Date:  2004-01-14       Impact factor: 16.971

8.  KDBI: Kinetic Data of Bio-molecular Interactions database.

Authors:  Z L Ji; X Chen; C J Zhen; L X Yao; L Y Han; W K Yeo; P C Chung; H S Puy; Y T Tay; A Muhammad; Y Z Chen
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

9.  TRANSPATH: an integrated database on signal transduction and a tool for array analysis.

Authors:  Mathias Krull; Nico Voss; Claudia Choi; Susanne Pistor; Anatolij Potapov; Edgar Wingender
Journal:  Nucleic Acids Res       Date:  2003-01-01       Impact factor: 16.971

10.  A complex-based reconstruction of the Saccharomyces cerevisiae interactome.

Authors:  Haidong Wang; Boyko Kakaradov; Sean R Collins; Lena Karotki; Dorothea Fiedler; Michael Shales; Kevan M Shokat; Tobias C Walther; Nevan J Krogan; Daphne Koller
Journal:  Mol Cell Proteomics       Date:  2009-01-27       Impact factor: 5.911

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