Advantages of combined transmembrane topology and signal peptide prediction--the Phobius web server

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ID: 291779
2007
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Abstract
When using conventional transmembrane topology and signal peptide predictors, such as TMHMM and SignalP, there is a substantial overlap between these two types of predictions. Applying these methods to five complete proteomes, we found that 30-65% of all predicted signal peptides and 25-35% of all predicted transmembrane topologies overlap. This impairs predictions of 5-10% of the proteome, hence this is an important issue in protein annotation. To address this problem, we previously designed a hidden Markov model, Phobius, that combines transmembrane topology and signal peptide predictions. The method makes an optimal choice between transmembrane segments and signal peptides, and also allows constrained and homology-enriched predictions. We here present a web interface (http://phobius.cgb.ki.se and http://phobius.binf.ku.dk) to access Phobius.
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openalex_W2124088653 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Lukas Käll, Anders Krogh, Erik L. L. Sonnhammer
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Journal Nucleic Acids Research
Year 2007
DOI
10.1093/nar/gkm256
URL
https://academic.oup.com/nar/article-pdf/35/suppl_2/W429/9584189/gkm256.pdf
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