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Comparative interactomics with Funcoup 2.0
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- Alexeyenko, Andrey (author)
- Stockholms universitet,KTH,Genteknologi,Science for Life Laboratory, SciLifeLab,Institutionen för biokemi och biofysik,Science for Life Laboratory (SciLifeLab)
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- Schmitt, Thomas (author)
- Stockholms universitet,Institutionen för biokemi och biofysik,Science for Life Laboratory (SciLifeLab)
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- Tjärnberg, Andreas (author)
- Stockholms universitet,Institutionen för biokemi och biofysik,Science for Life Laboratory (SciLifeLab)
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- (creator_code:org_t)
- 2011-11-21
- 2012
- English.
- In: Nucleic Acids Research. - : Oxford University Press (OUP). - 0305-1048 .- 1362-4962. ; 40:D1, s. D821-D828
- Journal article (peer-reviewed)
Abstract
Subject headings
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- FunCoup (http://FunCoup.sbc.su.se) is a database that maintains and visualizes global gene/protein networks of functional coupling that have been constructed by Bayesian integration of diverse high-throughput data. FunCoup achieves high coverage by orthology-based integration of data sources from different model organisms and from different platforms. We here present release 2.0 in which the data sources have been updated and the methodology has been refined. It contains a new data type Genetic Interaction, and three new species: chicken, dog and zebra fish. As FunCoup extensively transfers functional coupling information between species, the new input datasets have considerably improved both coverage and quality of the networks. The number of high-confidence network links has increased dramatically. For instance, the human network has more than eight times as many links above confidence 0.5 as the previous release. FunCoup provides facilities for analysing the conservation of subnetworks in multiple species. We here explain how to do comparative interactomics on the FunCoup website.
Subject headings
- NATURVETENSKAP -- Biologi -- Biokemi och molekylärbiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Biochemistry and Molecular Biology (hsv//eng)
- NATURVETENSKAP -- Biologi -- Bioinformatik och systembiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Bioinformatics and Systems Biology (hsv//eng)
Keyword
- Functional Interaction Networks
- Protein Networks
- Gene Ontology
- Database
- Alignment
- Unification
- Integration
- Server
- Tool
- biokemi, inriktning teoretisk kemi
Publication and Content Type
- ref (subject category)
- art (subject category)
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