A local search appproach for transmembrane segment and signal peptide discrimination
EvoBIO'10 Proceedings of the 8th European conference on Evolutionary Computation, Machine Learning and Data Mining in Bioinformatics
A genetic algorithm for scale-based translocon simulation
PRIB'12 Proceedings of the 7th IAPR international conference on Pattern Recognition in Bioinformatics
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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/ Contact: arne@bioinfo.se Supplementary information:Supplementary data are available at Bioinformatics online.