Biomodels Group

Timonov VS

Date of Birth: 08.07.1984.

Work Address: Institute of Cytology and Genetics, Novosibirsk, 630090, Russia (http://www.bionet.nsc.ru/en)

Phone: +7 383 363-49-22 *1330

Phone (mob.): +7-913-895-57-03

Fax: +7 383 333-12-78

Email: [email protected]

Language: English-well, Deutsch – initial

Work Experience and Current Position:

  • 2011 (April-July): visiting scientist, Universität Bielefeld, Bielefeld, Germany.
  • 2009 – present time: Junior researcher, Department of Systems Biology, Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, Lavrentyev Ave., 10, Novosibirsk, 630090, Russia (http://www.bionet.nsc.ru/en)
  • 2009 – present time: Senior teacher, Siberian State University of Telecommunications and Information Sciences, Novosibirsk, Kirova str. 86, 630102, Russia (http://www.sibsutis.ru/?item_id=53)
  • 2007 – present time: Junior teacher, Novosibirsk State University, Novosibirsk, Pirogova str. 2, 630090, Russia (http://www.nsu.ru/english/)
  • 2007 – present time: Java senior developer, GeN Ltd., Novosibirsk, Lavrentyev Ave., 10, 630090, Russia (http://www.gnworks.net )
  • 2006 – 2009: PhD student, Department of Systems Biology, Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, Lavrentyev Ave., 10, Novosibirsk, 630090, Russia (http://www.bionet.nsc.ru/labs/theorylabmain/booklet/ )
  • 2005 – 2006: C# senior developer, Sibers, Novosibirsk, Lavrentyev Ave., 6a, 630090, Russia (http://www.sibers.com/ )
  • 2004 – 2005: SalesLogix CRM Developer, FBConsult, Moscow-Novosibirsk, Russia (http://www.fbconsult.ru/ )
  • 2003 – 2005: ASP.NET developer, Interregional Center for retraining specialists of SibSUTI, Novosibirsk, Kirova str. 86, 630102, Russia(http://www.center.sibsutis.ru )

Science skills:

Systems biology, computer science, ontologies, software engineering, gene networks modeling, ecological networks modeling, sociological networks modeling, network modeling software tools development, high performance computing, database development, object-oriented analysis and design, graphical user interface design.

IT skills:

Java, C#, C++, Delphi, JSP, ASP.NET, PHP, Eclipse RCP, Swing, SWT, Java3D, WPF, Qt, Vaadin, GWT, GEF, GMF, Zest, Hibernate, iBatis, EclipseLink, Access, SQLite, MySQL, MSSQL, Postgress, Oracle, OpenMP, MPI, JIRA, Bugzilla, SVN, Mirosoft Project, Dreamweaver, Photoshop, XML, Windows, Linux, MacOSX.

Degrees:

2011: Ph.D. in Computer Science, Institute of Space and Information Technology of Siberian Federal University, Krasnoyarsk, Russia

2006: M. Sc. in Computer Science, Applied mathematics and cybernetics, Siberian State University of Telecommunications and Information Sciences, Novosibirsk, Russia.

 

Thesis:

Ph.D. in Computer Science, Institute of Space and Information Technology of Siberian Federal University, Krasnoyarsk, Russia

Title: “Software technologies for the visual reconstruction and analysis of the network models of genetic, ecological and social systems” (IC&G SB RAS, Novosibirsk, Russia)

PhD advisor: Nikolay A. Kolchanov, Prof., Dr.Sci.

Education Background:

  • Secondary school, Krasnoyarsk, 1991 – 1998.
  • Secondary school, Abakan, 1998 – 2001
  • Siberian State University of Telecommunications and Information Sciences, Faculty of Informatics and Computations, 2001 – 2006.
  • IC&G SB RAS, Bioinformatics, post-graduate student, 2006-2009.

Participation in Conferences and Workshops:

Teaching:

2009 – present time: lectures and practical training in a course "Design in IT", Siberian State University of Telecommunications and Information Sciences

2007 – present time: practical training in a course "Object-oriented analysis and desing", Novosibirsk State University

Grants:

Patents:

  1. Miginsky D.S., Timonov V.S., Sournina N.Yu. ARANEUS – software toolkit for development of the network modeling tools, License №2009611761, April 2009.
  2. Timonov V.S., Miginsky D.S., Sournina N.Yu. PROMETHEUS – software toolkit for agile databases development, License №2008615514, November 2008.
  3. Miginsky D.S., Zaviyalov V.Yu., Efimov V.M., Timonov V.S., Sournina N.Yu. P-analyzer -software for analysis of a personality portrait, License №2008611605, March 2008.
  4. Miginsky D.S., Zaviyalov V.Yu., Timonov V.S., Sournina N.Yu. P-test – software for describing of a personality portrait, License №2008611336, March 2008.

Papers:

2011:

  • V.S. Timonov, V.V. Suslov, A.V. Bryanskaya, V.M. Efimov, N.A. Kolchanov. Approach and software tool for network modeling of ecosystems dynamics, Novosibirsk State University Herald (in press) (RUS)

2010:

  • Timonov V.S., Turnaev I.I., Genaev M.A., Gunbin K.V. Phylogenetic decomposition of gene networks: a case study of the animal cell cycle gene network // Proceedings of The Tomsk State University. 2010. Vol. 275. Pp. 412-414. (RUS)
  • Timonov V.S., Miginsky D.S. PROMETHEUS: Technology for Rapid Development of Biological Databases // Intelligent Data Analysis. 2010. Vol. 14, no. 2. Pp. 159–171.

2008:

  • Miginsky D.S., Suslov V.V., Timonov V.S., Rasskazov D.A., Sournina N.Yu., Podkolodny N.L. Approaches to the Computer Reconstruction of the Biological Networks // Intelligent Data Analysis. 2008. Vol. 12, no. 5. Pp. 463–479

2007:

  • Kolchanov N.A., Miginsky D.S., Podkolodny N.L., Rasskazov D.A., Suslov V.V., Timonov V.S.,Sergeev M.G. Networks as a means to portray biosystems: issues and solutions // Computational technologies. 2007. V. 12. Special issue. P. 107-122 (RUS).

Abstracts

2011:

  • Akberdin I.R. , Kazantsev F.V., Ree M.T., Ree N.A., Timonov V.S., Oshchepkova E.A., Ratushny A.V., Khlebodarova T.M., Likhoshvai V.A.MGSmodelsDB – a new database of mathematical models of Escherichia coli cell subsystems//Proceedings of the VI Moscow International Congress “Biotechnology: state of the art and prospects of development”, Moscow, Russia,Vol. 2, p. 397.

2010:

  • Timonov V.S., Gunbin K.V., Turnaev I.I., Genaev M.A., Kolchanov N.A. Method and Software Tools for Gene Network Evolution Research // Proceedings Of The 14th Evolutionary Biology Meeting at Marseilles. Marseille, France. 2010. P. 74.
  • Timonov V.S., Gunbin K.V., Turnaev I.I., Genaev M.A., Miginsky D.S. Regulatory Circuits and Phylogenetic Decomposition in Gene Networks Evolution Research // Proceedings Of The 7th International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2010). Novosibirsk, Russia. 2010. P. 286.
  • Suslov V.V., Gunbin K.V., Timonov V.S. Phylogenetic decomposition of the gene networks regulating the level of thyroid hormones // Proceedings Of The 7th International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2010). Novosibirsk, Russia. 2010. P. 282.
  • Timonov V.S., Gunbin K.V., Turnaev I.I., Miginsky D.S.. Tool and methods for analysis of the gene networks evolution // Proceedings Of The 2nd Moscow International Conference «MolecularPhylogenetics MolPhy-2». Moscow, Russia. 2010. P. 74.

2009:

  • Timonov V.S., Miginsky D.S., Kolchanov N.A. Toolkit for reconstruction and analysis of ecological systems network models // Proceedings of the 7th Russian scientific-practical conference of students and young scientists. Tomsk, Russia. 2009. Vol.1., Pp. 335 – 336.

2008:

  • Timonov V. S., Miginsky D. S. «PROMETHEUS» Toolkit for Agile Development of Biological Data Storing and Access Software // Proceedings Of The Sixth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2008). Novosibirsk, Russia. 2008. P. 237.

 

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