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Nucleic Acids Res. 2012 Jan;40(Database issue):D821-8. doi: 10.1093/nar/gkr1062. Epub 2011 Nov 21.

Comparative interactomics with Funcoup 2.0.

Author information

1
School of Biotechnology, Royal Institute of Technology, Science for Life Laboratory, Box 1031, SE-17121 Solna, Sweden.

Abstract

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.

PMID:
22110034
PMCID:
PMC3245127
DOI:
10.1093/nar/gkr1062
[Indexed for MEDLINE]
Free PMC Article

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