Literature DB >> 34236665

Databases for Protein-Protein Interactions.

Natsu Nakajima1, Tatsuya Akutsu2, Ryuichiro Nakato3.   

Abstract

Protein-protein interaction networks have a crucial role in biological processes. Proteins perform multiple functions in forming physical and functional interactions in cellular systems. Information concerning an enormous number of protein interactions in a wide range of species has accumulated and has been integrated into various resources for molecular biology and systems biology. This chapter provides a review of the representative databases and the major computational methods used for protein-protein interactions.

Entities:  

Keywords:  Computational methods; Molecular interactions; Protein interaction networks; Protein structures; Protein–protein interactions

Mesh:

Substances:

Year:  2021        PMID: 34236665     DOI: 10.1007/978-1-0716-1641-3_14

Source DB:  PubMed          Journal:  Methods Mol Biol        ISSN: 1064-3745


  71 in total

1.  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

2.  Struct2Net: a web service to predict protein-protein interactions using a structure-based approach.

Authors:  Rohit Singh; Daniel Park; Jinbo Xu; Raghavendra Hosur; Bonnie Berger
Journal:  Nucleic Acids Res       Date:  2010-05-31       Impact factor: 16.971

3.  The IntAct molecular interaction database in 2012.

Authors:  Samuel Kerrien; Bruno Aranda; Lionel Breuza; Alan Bridge; Fiona Broackes-Carter; Carol Chen; Margaret Duesbury; Marine Dumousseau; Marc Feuermann; Ursula Hinz; Christine Jandrasits; Rafael C Jimenez; Jyoti Khadake; Usha Mahadevan; Patrick Masson; Ivo Pedruzzi; Eric Pfeiffenberger; Pablo Porras; Arathi Raghunath; Bernd Roechert; Sandra Orchard; Henning Hermjakob
Journal:  Nucleic Acids Res       Date:  2011-11-24       Impact factor: 16.971

4.  MINT, the molecular interaction database: 2012 update.

Authors:  Luana Licata; Leonardo Briganti; Daniele Peluso; Livia Perfetto; Marta Iannuccelli; Eugenia Galeota; Francesca Sacco; Anita Palma; Aurelio Pio Nardozza; Elena Santonico; Luisa Castagnoli; Gianni Cesareni
Journal:  Nucleic Acids Res       Date:  2011-11-16       Impact factor: 16.971

5.  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

6.  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

7.  HOMCOS: a server to predict interacting protein pairs and interacting sites by homology modeling of complex structures.

Authors:  Naoshi Fukuhara; Takeshi Kawabata
Journal:  Nucleic Acids Res       Date:  2008-04-28       Impact factor: 16.971

8.  The BioGRID interaction database: 2019 update.

Authors:  Rose Oughtred; Chris Stark; Bobby-Joe Breitkreutz; Jennifer Rust; Lorrie Boucher; Christie Chang; Nadine Kolas; Lara O'Donnell; Genie Leung; Rochelle McAdam; Frederick Zhang; Sonam Dolma; Andrew Willems; Jasmin Coulombe-Huntington; Andrew Chatr-Aryamontri; Kara Dolinski; Mike Tyers
Journal:  Nucleic Acids Res       Date:  2019-01-08       Impact factor: 16.971

9.  Human Protein Reference Database--2009 update.

Authors:  T S Keshava Prasad; Renu Goel; Kumaran Kandasamy; Shivakumar Keerthikumar; Sameer Kumar; Suresh Mathivanan; Deepthi Telikicherla; Rajesh Raju; Beema Shafreen; Abhilash Venugopal; Lavanya Balakrishnan; Arivusudar Marimuthu; Sutopa Banerjee; Devi S Somanathan; Aimy Sebastian; Sandhya Rani; Somak Ray; C J Harrys Kishore; Sashi Kanth; Mukhtar Ahmed; Manoj K Kashyap; Riaz Mohmood; Y L Ramachandra; V Krishna; B Abdul Rahiman; Sujatha Mohan; Prathibha Ranganathan; Subhashri Ramabadran; Raghothama Chaerkady; Akhilesh Pandey
Journal:  Nucleic Acids Res       Date:  2008-11-06       Impact factor: 16.971

10.  Unequal evolutionary conservation of human protein interactions in interologous networks.

Authors:  Kevin R Brown; Igor Jurisica
Journal:  Genome Biol       Date:  2007       Impact factor: 13.583

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