References
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TOPCONS: [Please cite this paper if you find TOPCONS useful in your research]
The TOPCONS web server for combined membrane protein topology and
signal peptide prediction.
Tsirigos KD*, Peters C*, Shu N*, Käll L and Elofsson A (2015) Nucleic
Acids Research 43 (Webserver issue), W401-W407. [PubMed]
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Old TOPCONS:
TOPCONS: consensus prediction of membrane protein topology.
Bernsel A*, Viklund H*, Hennerdal A and Elofsson A (2009) Nucleic
Acids Research 37 (Webserver issue), W465-8. [PubMed]
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OCTOPUS:
A method that improves topology prediction for transmembrane proteins
by using two-track ANN-based preference scores and an improved
topological grammar.
Viklund H and Elofsson A (2008) Bioinformatics. 24, 1662-1668.
[Pubmed]
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PHILIUS:
Transmembrane topology and signal peptide prediction using dynamic
bayesian networks.
Reynolds SM, Käll L, Riffle ME, Bilmes JA and Noble WS (2008) PLoS
Comput Biol. 11. [Pubmed]
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POLYPHOBIUS
An HMM posterior decoder for sequence feature prediction that includes
homology information.
Käll L, Krogh A and Sonnhammer EL (2005) Bioinformatics. 21,
i251-i257. [Pubmed]
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SCAMPI:
Prediction of membrane-protein topology from first principles.
Bernsel A, Viklund H, Falk J, Lindahl E, von Heijne G and Elofsson A
(2008) Proc. Natl. Acad. Sci. USA. 105, 7177-7181. [Pubmed]
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SPOCTOPUS:
SPOCTOPUS: a combined predictor of signal peptides and membrane
protein topology.
Viklund H, Bernsel A, Skwark M and Elofsson A. (2008) Bioinformatics.
24, 2928-2929. [Pubmed]
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ΔG-scale:
Molecular code for transmembrane-helix recognition by the Sec61
translocon.
Hessa T, Meindl-Beinker NM, Bernsel A, Kim H, Sato Y, Lerch-Bader M,
Nilsson I, White SH and von Heijne G. (2007) Nature 450, 1026-1030.
[PubMed]
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