@article{1e0434c6055c469380a5078183fc415f,
title = "Transmembrane helix prediction in proteins using hydrophobicity properties and higher-order statistics",
abstract = "Prediction of the transmembrane (TM) helices is important in the study of membrane proteins. A novel method to predict the location and length of both single and multiple TM helices in human proteins is presented. The proposed method is based on a combination of hydrophobicity and higher-order statistics, resulting in a TM prediction tool, namely K4 HTM. A training dataset of 117 human single TM proteins and two test-datasets containing 499 and 484 human single and multiple TM proteins, respectively, were drawn from the SWISS-PROT public database and used for the optimisation and evaluation of K4 HTM. Validation results showed that K4 HTM correctly predicts the entire topology for 99.68% and 93.08% of the sequences in the single and multiple test-datasets, respectively. These results compare favourably with existing methods, such as SPLIT4, TMHMM2, WAVETM and SOSUI, constituting an alternative approach to the TM helix prediction problem.",
keywords = "Hydrophobicity, Kurtosis, Membrane protein, Prediction, Transmembrane helix",
author = "Kitsas, {Ilias K.} and Hadjileontiadis, {Leontios J.} and Panas, {Stavros M.}",
note = "Funding Information: None declared. Ilias K. Kitsas was born in Thessaloniki, Greece in 1978. He received the Diploma degree in Electrical and Computer Engineering in 2001 from the Department of Electrical and Computer Engineering at the Aristotle University of Thessaloniki, Thessaloniki, Greece. He is currently pursuing his Ph.D. on signal processing on protein sequences at the same department. His research interests include higher-order statistics, modelling and digital signal processing in bioinformatics. He is a member of the Technical Chamber of Greece and of the IEEE. Leontios J. Hadjileontiadis was born in Kastoria, Greece in 1966. He received the Diploma degree in Electrical Engineering in 1989 and the Ph.D. degree in Electrical and Computer Engineering in 1997, both from the Aristotle University of Thessaloniki, Thessaloniki, Greece. Since December 1999 he joined the Department of Electrical and Computer Engineering, Aristotle University of Thessaloniki, Thessaloniki, Greece as a faculty member, where he is currently an Assistant Professor, working on lung sounds, heart sounds, bowel sounds, ECG data compression, seismic data analysis and crack detection in the Signal Processing and Biomedical Technology Unit of the Telecommunications Laboratory. His research interests are in higher-order statistics, alpha-stable distributions, higher-order zero crossings, wavelets, polyspectra, fractals, neuro-fuzzy modeling for medical, mobile and digital signal processing applications. Dr. Hadjileontiadis is a member of the Technical Chamber of Greece, of the IEEE, of the Higher-Order Statistics Society, of the International Lung Sounds Association, and of the American College of Chest Physicians. He was the recipient of the second award at the Best Paper Competition of the ninth Panhellenic Medical Conference on Thorax Diseases{\textquoteright}97, Thessaloniki. He was also an open finalist at the Student paper Competition (Whitaker Foundation) of the IEEE EMBS{\textquoteright}97, Chicago, IL, a finalist at the Student Paper Competition (in memory of Dick Poortvliet) of the MEDICON{\textquoteright}98, Lemesos, Cyprus, and the recipient of the Young Scientist Award of the twenty-fourth International Lung Sounds Conference{\textquoteright}99, Marburg, Germany. In 2004 and 2005 he organised and served as a mentor to two five-student teams that have received the third and the second Award worldwide, respectively, at the Imagine Cup Competition (Microsoft), Sao Paulo, Brazil (2004)/Yokohama, Japan (2005), with the projects “SmartEyes: An enhanced navigation system for blind or visually impaired people” and “Sign2Talk: A Wearable Sign Language Translation System for Deaf or Hearing-Impaired People”, respectively. Dr. Hadjileontiadis also holds a Ph.D. degree in music composition (University of York, UK, 2004) and he is currently a Professor in composition at the State Conservatory of Thessaloniki, Greece. Stavros M. Panas , born in 1946. He obtained B.Sc. in Physics, M.Sc. in Electrical Engineering (University of Oklahoma, Norman), Ph.D. in Electrical Engineering (Aristotle University of Thessaloniki). He is Member of the Telecommunications Division of the E&CE Department of the Aristotle University of Thessaloniki, since 1976, where now he his the Professor. Currently, he is Director of the Telecommunications Laboratory and the SPBTU and Vice-Rector of the Aristotle University of Thessaloniki. President of the E&CE Department 1993–1997. He is Former member of the Board of Directors of OTE (Greek Telecommunications Organization) and former member on behalf of OTE, of the Board of Directors of the Institute of Studies and Research on Telecommunications and Informatics for the Southeastern European Countries (INA S.A). He served as Chairman of the IT Committee of the Central Macedonia Region, member of the Regional Working Group (RISU) of Central Macedonia Region, in the framework of the EU IRISI (INTER-REGIONAL INFORMATION SOCIETY INITIATIVE) program, member of the working group of the IRISI Tele-working sector of Central Macedonia Region and Chairman of the inter-state group of the 6 EU peripheries in the Tele-working area. His areas of interest are eddy currents, electromagnetic fields, signal processing, and applications in biomedical engineering and seismic signal processing. He has published more than 70 refereed journal and conference papers in these areas. ",
year = "2008",
month = aug,
doi = "10.1016/j.compbiomed.2008.05.003",
language = "British English",
volume = "38",
pages = "867--880",
journal = "Computers in Biology and Medicine",
issn = "0010-4825",
publisher = "Elsevier Ltd",
number = "8",
}