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Literature DB >> 22453911

Protein interaction data curation: the International Molecular Exchange (IMEx) consortium.

Sandra Orchard¹, Samuel Kerrien, Sara Abbani, Bruno Aranda, Jignesh Bhate, Shelby Bidwell, Alan Bridge, Leonardo Briganti, Fiona S L Brinkman, Fiona Brinkman, Gianni Cesareni, Andrew Chatr-aryamontri, Emilie Chautard, Carol Chen, Marine Dumousseau, Johannes Goll, Robert E W Hancock, Robert Hancock, Linda I Hannick, Igor Jurisica, Jyoti Khadake, David J Lynn, Usha Mahadevan, Livia Perfetto, Arathi Raghunath, Sylvie Ricard-Blum, Bernd Roechert, Lukasz Salwinski, Volker Stümpflen, Mike Tyers, Peter Uetz, Ioannis Xenarios, Henning Hermjakob.

Abstract

The International Molecular Exchange (IMEx) consortium is an international collaboration between major public interaction data providers to share literature-curation efforts and make a nonredundant set of protein interactions available in a single search interface on a common website (http://www.imexconsortium.org/). Common curation rules have been developed, and a central registry is used to manage the selection of articles to enter into the dataset. We discuss the advantages of such a service to the user, our quality-control measures and our data-distribution practices.

Entities: Chemical Disease Gene Species

Mesh：

Substances：
Proteins

Year: 2012 PMID： 22453911 PMCID： PMC3703241 DOI： 10.1038/nmeth.1931

Source DB: PubMed Journal: Nat Methods ISSN： 1548-7091 Impact factor: 28.547

33 in total

1. Towards a proteome-scale map of the human protein-protein interaction network.

Authors: Jean-François Rual; Kavitha Venkatesan; Tong Hao; Tomoko Hirozane-Kishikawa; Amélie Dricot; Ning Li; Gabriel F Berriz; Francis D Gibbons; Matija Dreze; Nono Ayivi-Guedehoussou; Niels Klitgord; Christophe Simon; Mike Boxem; Stuart Milstein; Jennifer Rosenberg; Debra S Goldberg; Lan V Zhang; Sharyl L Wong; Giovanni Franklin; Siming Li; Joanna S Albala; Janghoo Lim; Carlene Fraughton; Estelle Llamosas; Sebiha Cevik; Camille Bex; Philippe Lamesch; Robert S Sikorski; Jean Vandenhaute; Huda Y Zoghbi; Alex Smolyar; Stephanie Bosak; Reynaldo Sequerra; Lynn Doucette-Stamm; Michael E Cusick; David E Hill; Frederick P Roth; Marc Vidal
Journal: Nature Date: 2005-09-28 Impact factor: 49.962

2. A human protein-protein interaction network: a resource for annotating the proteome.

Authors: Ulrich Stelzl; Uwe Worm; Maciej Lalowski; Christian Haenig; Felix H Brembeck; Heike Goehler; Martin Stroedicke; Martina Zenkner; Anke Schoenherr; Susanne Koeppen; Jan Timm; Sascha Mintzlaff; Claudia Abraham; Nicole Bock; Silvia Kietzmann; Astrid Goedde; Engin Toksöz; Anja Droege; Sylvia Krobitsch; Bernhard Korn; Walter Birchmeier; Hans Lehrach; Erich E Wanker
Journal: Cell Date: 2005-09-23 Impact factor: 41.582

3. The HUPO proteomics standards initiative--easing communication and minimizing data loss in a changing world.

Authors: Sandra Orchard; Henning Hermjakob
Journal: Brief Bioinform Date: 2007-12-07 Impact factor: 11.622

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

Authors: Ioannis Xenarios; Lukasz Salwínski; Xiaoqun Joyce Duan; Patrick Higney; Sul-Min Kim; David Eisenberg
Journal: Nucleic Acids Res Date: 2002-01-01 Impact factor: 16.971

5. The protein-protein interaction map of Helicobacter pylori.

Authors: J C Rain; L Selig; H De Reuse; V Battaglia; C Reverdy; S Simon; G Lenzen; F Petel; J Wojcik; V Schächter; Y Chemama; A Labigne; P Legrain
Journal: Nature Date: 2001-01-11 Impact factor: 49.962

6. MPIDB: the microbial protein interaction database.

Authors: Johannes Goll; Seesandra V Rajagopala; Shen C Shiau; Hank Wu; Brian T Lamb; Peter Uetz
Journal: Bioinformatics Date: 2008-06-13 Impact factor: 6.937

7. A protein interaction map of Drosophila melanogaster.

Authors: L Giot; J S Bader; C Brouwer; A Chaudhuri; B Kuang; Y Li; Y L Hao; C E Ooi; B Godwin; E Vitols; G Vijayadamodar; P Pochart; H Machineni; M Welsh; Y Kong; B Zerhusen; R Malcolm; Z Varrone; A Collis; M Minto; S Burgess; L McDaniel; E Stimpson; F Spriggs; J Williams; K Neurath; N Ioime; M Agee; E Voss; K Furtak; R Renzulli; N Aanensen; S Carrolla; E Bickelhaupt; Y Lazovatsky; A DaSilva; J Zhong; C A Stanyon; R L Finley; K P White; M Braverman; T Jarvie; S Gold; M Leach; J Knight; R A Shimkets; M P McKenna; J Chant; J M Rothberg
Journal: Science Date: 2003-11-06 Impact factor: 47.728

8. The HUPO PSI's molecular interaction format--a community standard for the representation of protein interaction data.

Authors: Henning Hermjakob; Luisa Montecchi-Palazzi; Gary Bader; Jérôme Wojcik; Lukasz Salwinski; Arnaud Ceol; Susan Moore; Sandra Orchard; Ugis Sarkans; Christian von Mering; Bernd Roechert; Sylvain Poux; Eva Jung; Henning Mersch; Paul Kersey; Michael Lappe; Yixue Li; Rong Zeng; Debashis Rana; Macha Nikolski; Holger Husi; Christine Brun; K Shanker; Seth G N Grant; Chris Sander; Peer Bork; Weimin Zhu; Akhilesh Pandey; Alvis Brazma; Bernard Jacq; Marc Vidal; David Sherman; Pierre Legrain; Gianni Cesareni; Ioannis Xenarios; David Eisenberg; Boris Steipe; Chris Hogue; Rolf Apweiler
Journal: Nat Biotechnol Date: 2004-02 Impact factor: 54.908

9. MPact: the MIPS protein interaction resource on yeast.

Authors: Ulrich Güldener; Martin Münsterkötter; Matthias Oesterheld; Philipp Pagel; Andreas Ruepp; Hans-Werner Mewes; Volker Stümpflen
Journal: Nucleic Acids Res Date: 2006-01-01 Impact factor: 16.971

10. The Biomolecular Interaction Network Database and related tools 2005 update.

Authors: C Alfarano; C E Andrade; K Anthony; N Bahroos; M Bajec; K Bantoft; D Betel; B Bobechko; K Boutilier; E Burgess; K Buzadzija; R Cavero; C D'Abreo; I Donaldson; D Dorairajoo; M J Dumontier; M R Dumontier; V Earles; R Farrall; H Feldman; E Garderman; Y Gong; R Gonzaga; V Grytsan; E Gryz; V Gu; E Haldorsen; A Halupa; R Haw; A Hrvojic; L Hurrell; R Isserlin; F Jack; F Juma; A Khan; T Kon; S Konopinsky; V Le; E Lee; S Ling; M Magidin; J Moniakis; J Montojo; S Moore; B Muskat; I Ng; J P Paraiso; B Parker; G Pintilie; R Pirone; J J Salama; S Sgro; T Shan; Y Shu; J Siew; D Skinner; K Snyder; R Stasiuk; D Strumpf; B Tuekam; S Tao; Z Wang; M White; R Willis; C Wolting; S Wong; A Wrong; C Xin; R Yao; B Yates; S Zhang; K Zheng; T Pawson; B F F Ouellette; C W V Hogue
Journal: Nucleic Acids Res Date: 2005-01-01 Impact factor: 16.971

217 in total

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Authors: Jianguo Xia; Erin E Gill; Robert E W Hancock
Journal: Nat Protoc Date: 2015-05-07 Impact factor: 13.491

2. mentha: a resource for browsing integrated protein-interaction networks.

Authors: Alberto Calderone; Luisa Castagnoli; Gianni Cesareni
Journal: Nat Methods Date: 2013-08 Impact factor: 28.547

Review 3. Protein Bioinformatics Databases and Resources.

Authors: Chuming Chen; Hongzhan Huang; Cathy H Wu
Journal: Methods Mol Biol Date: 2017

Review 4. Network Medicine in Pathobiology.

Authors: Laurel Yong-Hwa Lee; Joseph Loscalzo
Journal: Am J Pathol Date: 2019-04-20 Impact factor: 4.307

Review 5. Glycosaminoglycanomics: where we are.

Authors: Sylvie Ricard-Blum; Frédérique Lisacek
Journal: Glycoconj J Date: 2016-11-30 Impact factor: 2.916

Review 6. Popular computational methods to assess multiprotein complexes derived from label-free affinity purification and mass spectrometry (AP-MS) experiments.

Authors: Irina M Armean; Kathryn S Lilley; Matthew W B Trotter
Journal: Mol Cell Proteomics Date: 2012-10-15 Impact factor: 5.911