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Thodoris Liakopoulos

Contents

  1. 1 Education
  2. 2 Research interests
  3. 3 Publications


Education

  • BSc in Biology, Department of Biology , University of Athens.
  • MSc in Bioinformatics, University of Athens.

Research interests

  • Machine learning approaches to model protein sequences (design and implementation).
  • Knowledge discovery and information extraction from large biological datasets.
  • Bioinformatics software integration.

Publications

  • Bagos PG, Nikolaou EP, Liakopoulos TD, Tsirigos KD. Combined prediction of Tat and Sec signal peptides with Hidden Markov Models. 2010, Bioinformatics, in press [PDF] [Pubmed] [Google Scholar]
  • Bagos PG, Liakopoulos TD. A multipoint method for meta-analysis of genetic association studies. 2010, Genetic Epidemiology, in press [PDF] [Pubmed] [Google Scholar]
  • Tsaousis GN, Tsirigos KD, Andrianou XD, Liakopoulos TD, Bagos PG, Hamodrakas SJ. ExTopoDB: A database of experimentally derived topological models of transmembrane proteins. 2010, Bioinformatics, 26(19):2490-2 [PDF] [Pubmed] [Google Scholar]
  • Bagos PG, Tsirigos KD, Plessas SK, Liakopoulos TD, Hamodrakas SJ. Prediction of signal peptides in Archaea, 2009, Protein Engineering Design and Selection, 22(1): 27-35 [PDF] [Pubmed] [Google Scholar]
  • Bagos PG, Tsirigos KD, Liakopoulos TD, Hamodrakas SJ. Prediction of lipoprotein signal peptides in Gram-positive bacteria with Hidden a Markov Model, 2008, J Proteome Research, 7(12):5082-93 [PDF] [Pubmed] [Google Scholar]
  • Litou ZI, Bagos PG, Tsirigos KD, Liakopoulos TD, Hamodrakas SJ. Prediction of Cell Wall sorting signals in Gram-positive bacteria with a Hidden Markov Model: application to complete genomes. 2008, Journal of Bioinformatics and Computational Biology, 6(2):387-401 [PDF] [Pubmed] [Google Scholar]
  • Bagos PG, Liakopoulos TD, Hamodrakas SJ. Algorithms for incorporating prior topological information in HMMs: Application to transmembrane proteins. 2006, BMC Bioinformatics; 7:189 [PDF] [Pubmed] [Google Scholar]
  • Bagos PG, Liakopoulos TD, Hamodrakas SJ. Evaluation of methods for predicting the topology of ß-barrel outer membrane proteins and a consensus prediction method. BMC Bioinformatics, 2005, 6:7 [PDF] [Pubmed] [Google Scholar]
  • Bagos PG, Liakopoulos TD, Promponas VJ, Hamodrakas SJ. Topology prediction of β-barrel outer membrane proteins. PINSA-B, 2005, Β71 (1): 19-41 [PDF] [Pubmed] [Google Scholar]
  • Bagos PG, Liakopoulos TD, Hamodrakas SJ. Finding beta-barrel outer membrane proteins with a Markov chain model. WSEAS Transactions on Biology and Biomedicine, 2004, 2(1) 186-189 [PDF] [Pubmed] [Google Scholar]
  • Spyropoulos IC, Liakopoulos TD, Bagos PG, and Hamodrakas SJ. TMRPres2D: high quality visual representation of transmembrane protein models. Bioinformatics, 2004, 20(17) 3258-3260 [PDF] [Pubmed] [Google Scholar]
  • Bagos PG, Liakopoulos TD, Spyropoulos IC, Hamodrakas SJ. PRED-TMBB: A web server for predicting the topology of β-barrel outer membrane proteins. Nucleic Acids Res, 2004, 32(Web Server Issue). W400-404 [PDF] [Pubmed] [Google Scholar]
  • Bagos PG, Liakopoulos TD, Spyropoulos IC, Hamodrakas SJ. A Hidden Markov Model capable of predicting and discriminating β-barrel outer membrane proteins. BMC Bioinformatics, 2004, 5:29 [PDF] [Pubmed] [Google Scholar]
  • Iliopoulos I., Tsoka S., Andrade M., Enright A.J., Carroll M., Poullet P., Promponas V., Liakopoulos T., Palaios G., Pasquier C., Hamodrakas S., Tamames J., Yagnik A., Tramontano A., Devos D., Blaschke C., Valencia A., Brett D., Martin D., Leroy C., Rigoutsos I., Sander C., Ouzounis C.A, (2003) Evaluation of Annotation Strategies using an Entire Genome Sequence. Bioinformatics, 19 (6), 717-726. [Pubmed] [PDF]
  • Liakopoulos, T. D., Pasquier, C., Hamodrakas, S. J. (2001) A novel tool for the prediction of transmembrane protein topology based on a statistical analysis of the SwissProt database: the OrienTM algorithm, Protein Eng, 14, 387-390. [Pubmed] [PDF]