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Cited by 382

The DOI matches its Crossref record; 29 of the 29 references it cites were found in a registry or an index.

OCTOPUS: improving topology prediction by two-track ANN-based preference scores and an extended topological grammar

Open access
Viklund, Håkan, Elofsson, Arne·2008·Bioinformatics
DOI 10.1093/bioinformatics/btn221
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Abstract

Motivation: As α-helical transmembrane proteins constitute roughly 25% of a typical genome and are vital parts of many essential biological processes, structural knowledge of these proteins is necessary for increasing our understanding of such processes. Because structural knowledge of transmembrane proteins is difficult to attain experimentally, improved methods for prediction of structural features of these proteins are important. Results: OCTOPUS, a new method for predicting transmembrane protein topology is presented and benchmarked using a dataset of 124 sequences with known structures. Using a novel combination of hidden Markov models and artificial neural networks, OCTOPUS predicts the correct topology for 94% of the sequences. In particular, OCTOPUS is the first topology predictor to fully integrate modeling of reentrant/membrane-dipping regions and transmembrane hairpins in the topological grammar. Availability: OCTOPUS is available as a web server at http://octopus.cbr.su.se. Contact: arne@bioinfo.se Supplementary information: Supplementary data are available at Bioinformatics online.

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Metadata

Authors
Viklund, H., & Elofsson, A.
Venue
Bioinformatics
Publisher
Oxford University Press (OUP)
Published
2008-05-12
Volume
24
Issue
15
Pages
1662-1668
ISSN
  • 1367-4803 (ISSN-L)
  • 1367-4811
DOI
10.1093/bioinformatics/btn221
OpenAlex
W2151156268
Cited by
382
References
29
FWCI
7.07
Type
journal article
Language
en
Open access
bronze

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CoChat. (2026). Citation check: OCTOPUS: improving topology prediction by two-track ANN-based preference scores and an extended topological grammar. https://app.cochat.ai/papers/10.1093/bioinformatics/btn221
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Viklund, H., & Elofsson, A. (2008). OCTOPUS: improving topology prediction by two-track ANN-based preference scores and an extended topological grammar. Bioinformatics. https://doi.org/10.1093/bioinformatics/btn221

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