waveTM: Wavelet-Based Transmembrane Segment Prediction

Article type: Research Article

Authors: Pashou, Evanthia E. | Litou, Zoi I. | Liakopoulos, Theodore D. | Hamodrakas, Stavros J.

Affiliations: Department of Cell Biology and Biophysics, Faculty of Biology, University of Athens, Panepistimiopolis, Athens 157 01, Greece. Tel.: +30 210 7274 931; Fax: +30 210 7274 742

Note: [] Corresponding author. E-mail: shamodr@cc.uoa.gr

Abstract: waveTM is a web tool for the prediction of transmembrane segments in α-helical membrane proteins. Prediction is performed by a dynamic programming algorithm on wavelet-denoised 'hydropathy' signals. Users submit a protein sequence and receive interactively the results. Topology prediction can also be obtained in conjunction with the algorithm OrienTM. A web server that implements the waveTM algorithm is freely available at http://bioinformatics.biol.uoa.gr/waveTM.

Keywords: α-helical transmembrane proteins, prediction, discrete wavelet transform, hydropathy signal, denoising, threshold

Journal: In Silico Biology, vol. 4, no. 2, pp. 127-131, 2004