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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.

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  • 1Department of Biochemistry and Biophysics, Center for Biomembrane Research, Stockholm Bioinformatics Center, The Arrhenius Laboratories for Natural Sciences, Stockholm University, SE-10691 Stockholm, Sweden.



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.


SPOCTOPUS is available as a web server and both the source code and benchmark data are available for download at

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