Literature DB >> 21552234

Interaction databases on the same page.

Andrei L Turinsky, Sabry Razick, Brian Turner, Ian M Donaldson, Shoshana J Wodak.   

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Year:  2011        PMID： 21552234     DOI： 10.1038/nbt.1867

Source DB:  PubMed          Journal:  Nat Biotechnol        ISSN： 1087-0156            Impact factor:   54.908


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  11 in total

1.  The FEBS Letters/BioCreative II.5 experiment: making biological information accessible.

Authors:  Florian Leitner; Andrew Chatr-aryamontri; Scott A Mardis; Arnaud Ceol; Martin Krallinger; Luana Licata; Lynette Hirschman; Gianni Cesareni; Alfonso Valencia
Journal:  Nat Biotechnol       Date:  2010-09       Impact factor: 54.908

2.  Submit your interaction data the IMEx way: a step by step guide to trouble-free deposition.

Authors:  Sandra Orchard; Samuel Kerrien; Philip Jones; Arnaud Ceol; Andrew Chatr-Aryamontri; Lukasz Salwinski; Jason Nerothin; Henning Hermjakob
Journal:  Proteomics       Date:  2007-09       Impact factor: 3.984

3.  iRefWeb: interactive analysis of consolidated protein interaction data and their supporting evidence.

Authors:  Brian Turner; Sabry Razick; Andrei L Turinsky; James Vlasblom; Edgard K Crowdy; Emerson Cho; Kyle Morrison; Ian M Donaldson; Shoshana J Wodak
Journal:  Database (Oxford)       Date:  2010-10-12       Impact factor: 3.451

4.  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

5.  Literature curation of protein interactions: measuring agreement across major public databases.

Authors:  Andrei L Turinsky; Sabry Razick; Brian Turner; Ian M Donaldson; Shoshana J Wodak
Journal:  Database (Oxford)       Date:  2010-12-22       Impact factor: 3.451

6.  APID: Agile Protein Interaction DataAnalyzer.

Authors:  Carlos Prieto; Javier De Las Rivas
Journal:  Nucleic Acids Res       Date:  2006-07-01       Impact factor: 16.971

7.  Literature-curated protein interaction datasets.

Authors:  Michael E Cusick; Haiyuan Yu; Alex Smolyar; Kavitha Venkatesan; Anne-Ruxandra Carvunis; Nicolas Simonis; Jean-François Rual; Heather Borick; Pascal Braun; Matija Dreze; Jean Vandenhaute; Mary Galli; Junshi Yazaki; David E Hill; Joseph R Ecker; Frederick P Roth; Marc Vidal
Journal:  Nat Methods       Date:  2009-01       Impact factor: 28.547

8.  Michigan molecular interactions r2: from interacting proteins to pathways.

Authors:  V Glenn Tarcea; Terry Weymouth; Alex Ade; Aaron Bookvich; Jing Gao; Vasudeva Mahavisno; Zach Wright; Adriane Chapman; Magesh Jayapandian; Arzucan Ozgür; Yuanyuan Tian; Jim Cavalcoli; Barbara Mirel; Jignesh Patel; Dragomir Radev; Brian Athey; David States; H V Jagadish
Journal:  Nucleic Acids Res       Date:  2008-10-31       Impact factor: 16.971

9.  UniHI 4: new tools for query, analysis and visualization of the human protein-protein interactome.

Authors:  Gautam Chaurasia; Soniya Malhotra; Jenny Russ; Sigrid Schnoegl; Christian Hänig; Erich E Wanker; Matthias E Futschik
Journal:  Nucleic Acids Res       Date:  2008-11-04       Impact factor: 16.971

10.  iRefIndex: a consolidated protein interaction database with provenance.

Authors:  Sabry Razick; George Magklaras; Ian M Donaldson
Journal:  BMC Bioinformatics       Date:  2008-09-30       Impact factor: 3.169
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  15 in total

1.  NetworkAnalyst for statistical, visual and network-based meta-analysis of gene expression data.

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

Review 2.  Methods, Tools and Current Perspectives in Proteogenomics.

Authors:  Kelly V Ruggles; Karsten Krug; Xiaojing Wang; Karl R Clauser; Jing Wang; Samuel H Payne; David Fenyö; Bing Zhang; D R Mani
Journal:  Mol Cell Proteomics       Date:  2017-04-29       Impact factor: 5.911

3.  Interactome3D: adding structural details to protein networks.

Authors:  Roberto Mosca; Arnaud Céol; Patrick Aloy
Journal:  Nat Methods       Date:  2012-12-16       Impact factor: 28.547

4.  iRefR: an R package to manipulate the iRefIndex consolidated protein interaction database.

Authors:  Antonio Mora; Ian M Donaldson
Journal:  BMC Bioinformatics       Date:  2011-11-24       Impact factor: 3.169

5.  iRefScape. A Cytoscape plug-in for visualization and data mining of protein interaction data from iRefIndex.

Authors:  Sabry Razick; Antonio Mora; Katerina Michalickova; Paul Boddie; Ian M Donaldson
Journal:  BMC Bioinformatics       Date:  2011-10-05       Impact factor: 3.169

6.  Swimming upstream: identifying proteomic signals that drive transcriptional changes using the interactome and multiple "-omics" datasets.

Authors:  Shao-shan Carol Huang; Ernest Fraenkel
Journal:  Methods Cell Biol       Date:  2012       Impact factor: 1.441

7.  Identification of Human Neuronal Protein Complexes Reveals Biochemical Activities and Convergent Mechanisms of Action in Autism Spectrum Disorders.

Authors:  Jingjing Li; Zhihai Ma; Minyi Shi; Ramy H Malty; Hiroyuki Aoki; Zoran Minic; Sadhna Phanse; Ke Jin; Dennis P Wall; Zhaolei Zhang; Alexander E Urban; Joachim Hallmayer; Mohan Babu; Michael Snyder
Journal:  Cell Syst       Date:  2015-11-25       Impact factor: 10.304

8.  GreedyPlus: An Algorithm for the Alignment of Interface Interaction Networks.

Authors:  Brian Law; Gary D Bader
Journal:  Sci Rep       Date:  2015-07-13       Impact factor: 4.379

Review 9.  A visual review of the interactome of LRRK2: Using deep-curated molecular interaction data to represent biology.

Authors:  Pablo Porras; Margaret Duesbury; Antonio Fabregat; Marius Ueffing; Sandra Orchard; Christian Johannes Gloeckner; Henning Hermjakob
Journal:  Proteomics       Date:  2015-03-21       Impact factor: 3.984

10.  Computational Phosphorylation Network Reconstruction: An Update on Methods and Resources.

Authors:  Min Zhang; Guangyou Duan
Journal:  Methods Mol Biol       Date:  2021
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