Prolinks: a database of protein functional linkages derived from coevolution.

Genome biology ·Vol. 5 ·No. 5 ·2004-00-00 ·Pages R35

Bowers PM, Pellegrini M, Thompson MJ, Fierro J, Yeates TO, Eisenberg D

Abstract

The advent of whole-genome sequencing has led to methods that infer protein function and linkages. We have combined four such algorithms (phylogenetic profile, Rosetta Stone, gene neighbor and gene cluster) in a single database--Prolinks--that spans 83 organisms and includes 10 million high-confidence links. The Proteome Navigator tool allows users to browse predicted linkage networks interactively, providing accompanying annotation from public databases. The Prolinks database and the Proteome Navigator tool are available for use online at http://dip.doe-mbi.ucla.edu/pronav.

MeSH Terms

ATP Synthetase Complexes/genetics Animals Archaeal Proteins/genetics Bacterial Proteins/genetics Benchmarking/methods Caenorhabditis elegans Proteins/genetics Chemotaxis/physiology Contraindications Databases, Protein Drosophila Proteins/physiology Evolution, Molecular Genetic Linkage/genetics Lipopolysaccharides/biosynthesis Phylogeny Proteins/physiology Proteomics/methods Saccharomyces cerevisiae Proteins/physiology

Chemicals

Archaeal Proteins Bacterial Proteins Caenorhabditis elegans Proteins Drosophila Proteins Lipopolysaccharides Proteins Saccharomyces cerevisiae Proteins ATP Synthetase Complexes

Authors & Affiliations

6 authors, click to expand affiliations / ORCID

Bowers Peter M

Institute for Genomics and Proteomics, University of California, Los Angeles, CA 90095, USA.

Pellegrini Matteo

Thompson Mike J

Fierro Joe

Yeates Todd O

Eisenberg David

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Article Info

Journal

Genome biology

Abbr.

Genome Biol

ISSN

1474-760X

DOI

10.1186/gb-2004-5-5-r35

Published

2004-00-00

Epub

2004-00-16

Pages

R35

Language

English

Region

England

NLM ID

100960660

PMCID

PMC416471

Subset

External Links

PubMed source DOI: 10.1186/gb-2004-5-5-r35 PMC Full Text View journal details

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