Bioinformatics. 2008 Dec 15;24(24):2928-9. doi: 10.1093/bioinformatics/btn550. Epub 2008 Oct 22.

SPOCTOPUS: a combined predictor of signal peptides and membrane protein topology.

Viklund H, Bernsel A, Skwark M, Elofsson A.

Source

Department of Biochemistry and Biophysics, Center for Biomembrane Research, Stockholm Bioinformatics Center, The Arrhenius Laboratories for Natural Sciences, Stockholm University, SE-10691 Stockholm, Sweden.

Abstract

SUMMARY:

SPOCTOPUS is a method for combined prediction of signal peptides and membrane protein topology, suitable for genome-scale studies. Its objective is to minimize false predictions of transmembrane regions as signal peptides and vice versa. We provide a description of the SPOCTOPUS algorithm together with a performance evaluation where SPOCTOPUS compares favorably with state-of-the-art methods for signal peptide and topology predictions.

AVAILABILITY:

SPOCTOPUS is available as a web server and both the source code and benchmark data are available for download at http://octopus.cbr.su.se/

PMID:: 18945683; [PubMed - indexed for MEDLINE]

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SPOCTOPUS: a combined predictor of signal peptides and membrane protein topology.
Bioinformatics. 2008 Dec 15 ;24(24):2928-9. doi: 10.1093/bioinformatics/btn550. Epub 2008 Oct 22 .

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