Evaluation of methods for the prediction of membrane spanning regions

• Published in: Bioinformatics Vol. 17; no. 7; pp. 646 - 653
• Main Authors: Möller, Steffen, Croning, Michael D. R., Apweiler, Rolf
• Format: Journal Article
• Language: English
• Published: Oxford Oxford University Press 01.07.2001; Oxford Publishing Limited (England)
• Subjects: Biological and medical sciences; Computational Biology; Databases as Topic; Fundamental and applied biological sciences. Psychology; General aspects; Mathematics in biology. Statistical analysis. Models. Metrology. Data processing in biology (general aspects); Membrane Proteins - chemistry; Membrane Proteins - genetics; Models, Molecular; Protein Conformation; Protein Sorting Signals - genetics; Software; Solubility; Topology; Markov chain; Transmembrane protein; Membrane protein; Computer program; Molecular structure; Proteomics; Plasma membrane; Prediction; Topology; Bioinformatics; Modeling
• ISSN: 1367-4803; 1460-2059; 1367-4811
• DOI: 10.1093/bioinformatics/17.7.646

Motivation: A variety of tools are available to predict the topology of transmembrane proteins. To date no independent evaluation of the performance of these tools has been published. A better understanding of the strengths and weaknesses of the different tools would guide both the biologist and the bioinformatician to make better predictions of membrane protein topology. Results: Here we present an evaluation of the performance of the currently best known and most widely used methods for the prediction of transmembrane regions in proteins. Our results show that TMHMM is currently the best performing transmembrane prediction program. Contact: moeller@ebi.ac.uk; croning@ebi.ac.uk; apweiler@ebi.ac.uk