Timur Fayruzov

Contact


Ghent University
Dept. of Applied Mathematics & Computer Science
Krijgslaan 281 (Building S9, Room 40.09.120.32)
B-9000 Gent
Belgium

Phone: +32 9 264.96.39
Fax: +32 9 264.49.95
E-mail: Timur.Fayruzov@UGent.be

Short biography


I have received my Master's degree from Ufa State Aviation Technical University, Russia in the area of Computer Science. In 2006 I started working as a Ph.D. student in the Computational Web Intelligence group at Gent University, Belgium, where I graduated in October 2010 with a PhD thesis on "Mining and Modelling Interaction Networks for Systems Biology". From April through June 2009, and from November 2009 through April 2010 I was a visiting scholar at the Institute of Technology at the University of Washington.

Publications

  1. Modelling Gene and Protein Regulatory Networks with ASP
    Timur Fayruzov, Jeroen Janssen, Dirk Vermeir,Chris Cornelis, Martine De Cock
    To appear in IJDMB.

  2. A rapidminer framework for protein interaction extraction(pdf)
    Timur Fayruzov, George Dittmar, Nicolas Spence, Martine De Cock and Ankur Teredesai.
    In RapidMiner community meeting (2010).

  3. Clustering web people search results using fuzzy ants
    Els Lefever, Timur Fayruzov, Veronique Hoste, Martine De Cock
    Information Sciences, Volume 180, Issue 17, pp. 3192-3209, 2010

  4. Efficient Solving of Time-dependent Answer Set Programs
    Timur Fayruzov, Jeroen Janssen, Dirk Vermeir,Chris Cornelis, Martine De Cock
    In M. Hermenegildo and T. Schaub, editors, Technical Communications of the 26th Int'l. Conference on Logic Programming (ICLP'10), volume 7 of Leibniz International Proceedings in Informatics (LIPIcs), pp. 64-73, Dagstuhl, Germany, July 2010. Schloss Dagstuhl-Leibniz-Zentrum fuer Informatik.

  5. Linguistic feature analysis for protein interaction extraction
    Timur Fayruzov, Martine De Cock, Chris Cornelis, Veronique Hoste
    BMC Bioinformatics, 10:374, 2009.

  6. PRISE - a PRotein Interaction Search Engine (abstract)
    Timur Fayruzov, Martine De Cock, Chris Cornelis, Veronique Hoste, Richard Hill, Steven Lynch, Ankur Teredesai
    in: LTCI2009 (Third AUGent Workshop on Language Technology and Computational Intelligence), 2009

  7. Modeling protein interaction networks with Answer Set Programming
    Timur Fayruzov, Martine De Cock, Dirk Vermeir, Chris Cornelis
    Proceedings of the IEEE International Conference on Bioinformatics and Biomedicine (BIBM09), p.99-105, 2009

  8. Modeling protein interaction networks using answer set programming (abstract)
    Timur Fayruzov, Martine De Cock, Dirk Vermeir, Chris Cornelis
    LOGE2009: First VUB-UGent workshop on Logic Engineering, 2009

  9. A logic programming approach to protein interaction networks (presentation)
    Timur Fayruzov, Martine De Cock, Chris Cornelis, Dirk Vermeir
    A Growth Factor and Signal Transduction Symposium, Ames IA, US, 11-14 June 2009

  10. Fuzzy Ants Clustering for Web People Search.
    Els Lefever, Timur Fayruzov, Veronique Hoste and Martine De Cock
    2nd Web People Search Evaluation Workshop (WePS 2009), 18th WWW Conference

  11. Features for Protein Interaction Extraction: is More Always Better? (abstract)
    Timur Fayruzov, Martine De Cock, Chris Cornelis, Veronique Hoste
    Atila Workshop, 15-16 October, 2008

  12. Grammatical Structures in Protein Interaction Extraction (abstract)
    Timur Fayruzov, Martine De Cock, Chris Cornelis, Veronique Hoste
    in: LTCI2008 (Second AUGent Workshop on Language Technology and Computational Intelligence), p.14, 2008

  13. The Role Of Syntactic Features in Protein Interaction Extraction(pdf)
    Timur Fayruzov, Martine De Cock, Chris Cornelis, Veronique Hoste
    in: Proceedings of DTMBIO08 (ACM Second International Workshop of Data and Text Mining Methods in Bioinformatics),
    workshop at the ACM 17th Conference on Information and Knowledge Management (CIKM2008), p.61-68, 2008

  14. Exploiting Grammatical Relations for Protein Relation Extraction and Role Labeling(pdf)
    Timur Fayruzov, Martine De Cock, Chris Cornelis, Veronique Hoste
    Proceedings of 8th Dutch-Belgian Information Retreival Workshop 2008, pp.37-44

  15. DEEPER: a Full Parsing based Approach to Protein Relation Extraction(pdf)
    Timur Fayruzov, Martine De Cock, Chris Cornelis, Veronique Hoste
    Lecture Notes In Computer Science 4973, pp.36-47

  16. A combined classification and clustering approach for web people disambiguation (abstract)
    Els Lefever, Timur Fayruzov and Veronique Hoste
    CLIN 2007

  17. Protein Relation Extraction using Full Parsing Information (abstract)
    Timur Fayruzov, Martine De Cock, Chris Cornelis and Veronique Hoste
    ATila'07 14 November, 2007

  18. A combined classification and clustering approach for web people disambiguation
    Els Lefever, Timur Fayruzov and Veronique Hoste
    In: Proceedings of the 4th International Workshop on Semantic Evaluations, Prague, Czech Republic, 105-108, 2007

  19. A Combined Classification and Clustering Approach for Web People Disambiguation (poster)
    Els Lefever, Veronique Hoste, Timur Fayruzov
    "Machine Learning for Natural Language Processing" May 16, 2007 in Amsterdam, Benelearn'07

Technical reports

  1. ASP model of Fission Yeast cell cycle network(pdf)
    Technical report

  2. Supplemental materials for the IJDMB paper(pdf)
    Technical report

  3. Sources for the RapidMiner extension for PPI extraction can be found here

Website  Computational Web Intelligence TeamComputational Web Intelligence