Linked Life Data

17483518

Source:http://linkedlifedata.com/resource/pubmed/id/17483518

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pubmed-article:17483518pubmed:issueWeb Server issuelld:pubmed
pubmed-article:17483518pubmed:dateCreated2007-7-16lld:pubmed
pubmed-article:17483518pubmed:abstractTextWhen 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.lld:pubmed
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pubmed-article:17483518pubmed:authorpubmed-author:KroghAndersAlld:pubmed
pubmed-article:17483518pubmed:authorpubmed-author:KällLukasLlld:pubmed
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pubmed-article:17483518pubmed:dateRevised2009-11-18lld:pubmed
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pubmed-article:17483518pubmed:year2007lld:pubmed
pubmed-article:17483518pubmed:articleTitleAdvantages of combined transmembrane topology and signal peptide prediction--the Phobius web server.lld:pubmed
pubmed-article:17483518pubmed:affiliationCenter for Genomics and Bioinformatics, Karolinska Institutet, S-17177 Stockholm, Sweden. lukall@u.washington.edulld:pubmed
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