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

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Standard

Advantages of combined transmembrane topology and signal peptide prediction--the Phobius web server. / Käll, Lukas; Krogh, Anders; Sonnhammer, Erik L L.

I: Nucleic Acids Research, Bind 35, Nr. Web Server issue, 2007, s. W429-32.

Publikation: Bidrag til tidsskrift › Tidsskriftartikel › Forskning › fagfællebedømt

Harvard

Käll, L, Krogh, A & Sonnhammer, ELL 2007, 'Advantages of combined transmembrane topology and signal peptide prediction--the Phobius web server.', Nucleic Acids Research, bind 35, nr. Web Server issue, s. W429-32. https://doi.org/10.1093/nar/gkm256

APA

Käll, L., Krogh, A., & Sonnhammer, E. L. L. (2007). Advantages of combined transmembrane topology and signal peptide prediction--the Phobius web server. Nucleic Acids Research, 35(Web Server issue), W429-32. https://doi.org/10.1093/nar/gkm256

Vancouver

Käll L, Krogh A, Sonnhammer ELL. Advantages of combined transmembrane topology and signal peptide prediction--the Phobius web server. Nucleic Acids Research. 2007;35(Web Server issue):W429-32. https://doi.org/10.1093/nar/gkm256

Author

Käll, Lukas ; Krogh, Anders ; Sonnhammer, Erik L L. / Advantages of combined transmembrane topology and signal peptide prediction--the Phobius web server. I: Nucleic Acids Research. 2007 ; Bind 35, Nr. Web Server issue. s. W429-32.

Bibtex

@article{69dc23c0dadb11dcbee902004c4f4f50,
title = "Advantages of combined transmembrane topology and signal peptide prediction--the Phobius web server.",
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. Udgivelsesdato: 2007-Jul",
author = "Lukas K{\"a}ll and Anders Krogh and Sonnhammer, {Erik L L}",
note = "Keywords: Computational Biology; Computer Simulation; Cytoplasm; Internet; Membrane Proteins; Models, Molecular; Models, Theoretical; Programming Languages; Protein Conformation; Protein Sorting Signals; Protein Structure, Secondary; Proteomics; Software",
year = "2007",
doi = "10.1093/nar/gkm256",
language = "English",
volume = "35",
pages = "W429--32",
journal = "Nucleic Acids Research",
issn = "0305-1048",
publisher = "Oxford University Press",
number = "Web Server issue",

}

RIS

TY - JOUR

T1 - Advantages of combined transmembrane topology and signal peptide prediction--the Phobius web server.

AU - Käll, Lukas

AU - Krogh, Anders

AU - Sonnhammer, Erik L L

N1 - Keywords: Computational Biology; Computer Simulation; Cytoplasm; Internet; Membrane Proteins; Models, Molecular; Models, Theoretical; Programming Languages; Protein Conformation; Protein Sorting Signals; Protein Structure, Secondary; Proteomics; Software

PY - 2007

Y1 - 2007

N2 - 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. Udgivelsesdato: 2007-Jul

AB - 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. Udgivelsesdato: 2007-Jul

U2 - 10.1093/nar/gkm256

DO - 10.1093/nar/gkm256

M3 - Journal article

C2 - 17483518

VL - 35

SP - W429-32

JO - Nucleic Acids Research

JF - Nucleic Acids Research

SN - 0305-1048

IS - Web Server issue

ER -

ID: 2736997