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.
Reference Key
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
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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