Институт цитологии и генетики

   Институт цитологии и генетики

Лаборатория Теоретической Генетики

   Лаборатория Теоретической Генетики
   Сибирского отделения    Российской академии наук


 Персональные данные
Иванисенко
Владимир Александрович


Иванисенко Владимир Александрович
 
Последние изменения: 10.04.2006
 
 Образование
 Ученые степени и звания
  Научная деятельность
 Педагогическая деятельность
 Направления исследований
 Основные результаты
 Избранные публикации
Русская страницаEnglish   page
к.б.н.
старший научный сотрудник
E-mail:sail@bionet.nsc.ru
Телефон: +7(383)333-31-19
Факс:        +7(383)333-12-78
комната 310
 

Персональные данные:

Фамилия: Иванисенко

Имя: Владимир

Отчество: Александрович

Дата рождения: 28 мая 1962 г. (Оренбургсая обл.)

Семейное положение: женат, двое детей

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Образование

1979-1984 физический факультет по специальности биофизика. Красноярский Государственный университет

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Ученые степени и звания

1995 кандидат биологических наук,

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Научно-исследовательская деятельность

1986-1992  - м.н.с.Теоретический отдел Научно-исследовательского института Молекулярной биологии, Государственного Научно-исследовательского центра вирусологии и биотехнологии "Вектор", Кольцово, Новосибирская обл.
1992-1998  -   н.с.Теоретический отдел Научно-исследовательского института Молекулярной биологии, Государственного Научно-исследовательского центра вирусологии и биотехнологии "Вектор", Кольцово, Новосибирская обл.
  с  1998 г.  - с.н.с.Лаборатория теоретической генетики Института цитологии и генетики Сибирского отделения Академии наук, Новосибирск.

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Педагогическая деятельность

Руководитель курсов лекций по компьютерному эксперименту в Новосибирском государственном университете:

"Структурная и компьютерная биология", годовой курс для студентов, специализирующихся в области биоинформатики

"Введение в информационную биологию", ежегодный курс лекций для студентов, специализирующихся в области биоинформатики

Руководитель дипломных и курсовых работ с 2003 года

Прочитан курс лекций на международной школе для молодых ученых в 2005г "Bioinformatics softwares in structural biology" (BGRS International Summer School for young scientists at the Institute of Cytology and Genetics)

Руководитель научной деятельности студентов Новосибирского государственного университета

  1. Topchiy M. (2002) Development of a computer system for the visualization and functional analysis of the protein spatial structure. Dissertation submitted. Novosibirsk State University.
  2. Pintus S.S. (2002) Computer analysis of mutant forms of the human p53 protein based on nonsynonymous nucleotide substitutions. Dissertation submitted. Novosibirsk State University.

  3. Korotkov R.O. (2004) Development of computational system for storing and analysis of data on protein 3D structures. Dissertation submitted. Novosibirsk State University.

  4. Znobisheva E.K. (2004) Identification of functional clusters in protein 3D structure. Dissertation submitted. Novosibirsk State University.

  5. Tikunov S.Yu. (2005) Analysis and visualization of 3D structure of biopolymers

  6. Dissertation submitted. Novosibirsk State University.

  7. Sobolev S.V. (2005) Protein classification according to fold type using of Hidden Markov models. Novosibirsk State University.

  8. Sokolov S.V. (2005) Decomposition of associative gene networks using the method of spectral graph analysis. Novosibirsk State University.

  9. Golovina A. (2005) Prediction of protein secondary structure using machine learning methods. Novosibirsk State University.

  10. Tatarnikova L. Yu. (2005) Prediction of intracellular localization of the proteins of gram-positive and gram-negative bacteria. Novosibirsk State University.

  11. Panina I. (2005) Prediction of intracellular localization of eukaryotic proteins. Novosibirsk State University.

  12. Davidenko A. (2005) Verification of the associative gene networks by machine learning methods. Novosibirsk State University.

  13. Magdysyuk A. (2005) Development of a program for the protein functional site prediction with a view of main modes of atom motions. Novosibirsk State University.

  14. Sharonova I. (2005). Analysis of distribution of protein functional sites in the exon-intron gene structure. Novosibirsk State University.

  15. Elokhov V. (2005) Development of a program for the modeling of mutations in the protein 3D structure. Novosibirsk State University.

  16. Tarasov A. (2005) Development of a program for the in silico screening of a chemical compound library for ligand binding capacity to protein (protein-ligand docking). Novosibirsk State University.

  17. Oshurkov I.S. (2005) Protein 3D structure prediction and molecular modeling of protein-ligand interactions. Novosibirsk State University.

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Направления исследований

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Основные результаты

Автор следующих изобретений и предсказаний:

  1. Predicted a model for the spatial packing of the polypeptide chain of the alphavirus glycoprotein E2.
  2. Predicted a model for the spatial structure of the West Nile virus protein E.

  3. Predicted the localization of the group-specific, hemagglutinating epitope of alphavirus glycoprotein E2.

  4. Invented rules for the insertion of foreign epitopes in Hepatitis B core antigen (HbcAg) providing correct chimeric HBcAg particle assembly.

  5. Invented rules for the foreign insertions into the major envelop protein of the bacteriophage М13, f1, and fd providing the correct chimeric virus particle assembly.

  6. Invented and verified the structure-based approach to planning of mutations that improve the biomedical properties of recombinant proteins.

  7. Predicted amino acid substitutions providing prolonged human TNF-alpha action.

  8. Predicted amino acid substitutions in the Kistrin protein of the disintegrin family that enhance Kistrin activity to inhibit interaction of fibrinogens with blood platelet receptors.

  9. Discovered a molecular mechanism for the impaired function of the mutant p53 protein based on the emergence of a new zinc-binding site that competes with the normal site.

  10. Predicted modes of adaptive evolution and identified adaptively evolving structurally-functionally significant codons in the p53 genes.

  11. Predicted the amino acid residues in the M2 protein of the influenza virus A important for the acquirement of virus resistance to amantadine and remantadine.

  12. Invented the EnPDB database of the DNA, RNA and proteins 3D structures based on the Brookhaven Protein Data Bank, PDB (http://wwwmgs.bionet.nsc.ru/mgs/gnw/enpdb/, http://srs5.bionet.nsc.ru/srs5/ )

  13. Invented the PDBSite database of the 3D structure of protein functional sites (http://wwwmgs.bionet.nsc.ru/mgs/systems/fastprot/)

  14. Invented the PDBSiteScan program for searching for active, binding and posttranslational modification sites in the 3D structures of proteins (http://wwwmgs.bionet.nsc.ru/mgs/systems/fastprot/pdbsitescan.html)

  15. Invented the WebProAnalyst interactive tool for analysis of quantitative structure-activity relationships in protein families

  16. Invented the GArna Internet-accessible program for predicting 2D structure of RNA by genetic algorithm (http://wwwtest.bionet.nsc.ru/programs/2dstructrna)

  17. Invented the ProAnalyst - computer programs for multifunctional protein analysis (ftp://ftp.ebi.ac.uk/pub/software/dos/proanalyst/).

  18. Invented the ProAnWin - computer programs for multifunctional protein analysis (ftp://ftp.ebi.ac.uk/pub/software/dos/proanwin/).

  19. Invented the PSP program for prediction of change in thermodynamic stability of mutant proteins.

  20. Invented the Salix - an easy-to-use package of applications for Windows 95/98/NT that implements protein multiple sequence alignments, property profiles analysis, structure-activity relationship analysis, alignment visualization, shading, colouring and editing.

  21. Invented an algorithm for automated functional classification of sites on the basis of their text description and result of structural alignment.

  22. Invented an algorithm for automated protein classification on the basis of functional site recognition.

Изобретения и патенты

  1. Pika I., Frolov A., Ivanisenko V., Eroshkin A. (1995) ProAnWin - Protein Analyst for Windows (Accepted).

  2. Ivanisenko V., Eroshkin A. (1995) ProAnalyst - PROTEIN ANALYST (Accepted).

  3. Ivanisenko V.A. (2005) PDBSite: a database of the 3D structure of protein functional sites (Accepted).

  4. Ivanisenko V.A., (2005) PDBSiteScan: a program for searching for active, binding and posttranslational modification sites in the 3D structures of proteins (Accepted).

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Избранные публикации

  1. Pintus S.S., Fomin E.S., Ivanisenko V.A., Kolchanov N.A. (2006) Phylogenetic analysis of p53 family. Biofizika, in press. Russian.
  2. Bogachek M.V., Protopopova E.V., Ternovoi V.A., Ivanova A.V., Ivanisenko V.A., Loktev V.B. (2006) Immunological characterization and mapping of the 260-466 region of glycoprotein E of West Nile virus. Mol Biol (Mosk). in press.

  3. Ivanisenko V.A., Eroshkin A.M., Kolchanov N.A. (2005) WebProAnalyst: an interactive tool for analysis of quantitative structure-activity relationships in protein families. Nucleic Acids Res. 33, W99-W104.

  4. Ivanisenko V.A., Pintus S.S., Grigorovich D.A., Kolchanov N.A. (2005) PDBSite: a database of the 3D structure of protein functional sites. Nucleic Acids Res., 33, D183–D187.

  5. Bogachek M.V., Protopopova E.V., Ternovoi V.A., Kachko A.V., Ivanova A.V., Ivanisenko V.A., Loktev V.B. (2005) Immunochemical properties of short recombinant polypeptides of proteine of, the West Nile virus bearing epitopes of domains I and II. Mol Biol (Mosk). 39, 813-22.

  6. Ivanisenko V.A., Afonnikov D.A., Nikolaev S.V., Pintus S.S., Krestianova M.A., Palyanov A.Yu., Titov I.I. (2005) Contemporary problems of computational proteomics Bulletin RSG&S, 9, 162-178. Russian.

  7. Ivanisenko V.A., Pintus S.S., Grigorovich D.A., Kolchanov N.A. (2004) PDBSiteScan: a program for searching for active, binding and posttranslational modification sites in the 3D structures of proteins. Nucleic Acids Res., 32, W549-W554.

  8. Ternovoi V.A., Kurzhukov G.P., Sokolov Y.V., Ivanov G.Y., Ivanisenko V.A., Loktev A.V., Ryder R.W., Netesov S.V., and Loktev V.B. (2003) Tick-Borne Encephalitis with Hemorrhagic Syndrome, Novosibirsk Region, Russia, 1999. Emerg Infect Dis., 9, 743-746. (http://www.cdc.gov/ncidod/EID/vol9no6/03-0007.htm)

  9. Titov I.I., Vorobiev D.G., Ivanisenko V.A., Kolchanov N.A. (2002) A fast genetic algorithm for RNA secondary structure analysis. Russ. Chem. Bull., Int. Ed., 51, 1135-1144.

  10. Tumanova O.I., Kuvshinov V.N., Il'ichev A.A., Nekrasov B.G., Ivanisenko V.A., Kozlov A.P., Sandakhchiev L.S. (2002) Localization of the HIV-1 gp120 conformational epitope recognized by virus neutralizing monoclonal antibodies 2G12. Mol Biol (Mosk), 36, 657-663.

  11. Loktev A.V., Kuvshinov V.N., Melamed N.V., Ivanisenko V.A., Mishin V.P., Il'ichev A.A. (2002) Localization of tick-borne encephalitis virus protein E antigenic determinant recognized by antihemagglutinating monoclonal antibodies using a phage-display peptide library. Vopr Virusol. 47, 1-4. Russian

  12. Karpenko L.I., Ivanisenko V.A., Pika I.A., Chikaev N.A., Eroshkin A.M., Veremeiko T.A., Ilyichev A.A. (2000) Insertion of foreign epitopes in HbcAg: how to make the chimeric particle assemble. Amino Asids., 18, 329-337.

  13. Karpenko L.I., Ivanisenko V.A., Pika I.S., Chikaev N.A., Eroshkin A.M., Melamed N.V., Veremeiko T.A., Il'ichev A.A. (2000) Analysis of foreign epitopes inserted in HBcAG. Possible routes for solving the problem of chimeric core particle self assembly. Mol Biol (Mosk). 34, 223-229.

  14. Grigorovich D.A., Ivanisenko V.A. (2000) An ENPDB database on DNA, RNA and protein 3-dimensional structures. Computational Technologies. 5, 64-66.

  15. Titov I.I., Ivanisenko V.A., Kolchanov N.A. (2000) Fitness – a WWW-resource for RNA folding simulation based on genetic algorithm with local minimization. Computational Technologies, 5, 48-56.

  16. Ivanisenko V.A., Eroshkin A. M. (1997) Search for sites with functionally important substitutions in sets of related or mutant protein. Mol Biol (Mosk), 31, 880-887.

  17. Kuz'micheva G.A., Kuvshinov V.N., Razumov I.A., Ivanisenko V.A., Eroshkin A.M., Mishin V.P., Oreshkova S.F., Loktev V.B., Il'ichev A.A., Sandakhchiev L.S. (1997) Localization of a group-specific, hemagglutinating epitope of alphavirus glycoprotein E2 using a phage peptide library. Dokl Akad Nauk. 352, 113-116. Russian.

  18. Kuz'micheva G.A., Kuvshinov V.N., Razumov I.A., Ivanisenko V.A., Eroshkin A.M., Mishin V.P., Ushakova T.A., Loktev V.B., Il'ichev A.A. (1997) Use of a phage peptide library in mapping the group-specific hemagglutinating domain of alpha-virus glycoprotein E2. Mol Gen Mikrobiol Virusol. 4, 25-29. Russian.

  19. Belavin P.A., Netesova N.A., Reshetnikov S.S., Ivanisenko V.A., Eroshkin A.M., Protopopova E.V., Loktev V.B., Malygin E.G. (1997) The expression of the Japanese Encephalitis virus gene E fragments in E. coli cells. Biotechnology (Russia). 3, 3-9.

  20. Morozov V.M., Ivanisenko V.A., Eroshkin A.M., Ugarova N.N. (1996) Computer analysis of relations between bioluminescence color and primary structure of beetle luciferases: identification of the sites influencing bioluminescence color. Molecular. Biology, 30, 1167-1172. Russian.

  21. Ivanisenko V.A., Eroshkin A.M. (1996) Searching protein sites with functionally important amino acid changes in the sets of natural and mutant proteins. Folding and Design, 1, Suppl., 85.

  22. Ivanisenko V.A., Pika I.S., Pinin S.I., Fomina T.I., Eroshkin A.M. (1996) Studying structure-activity and phenotype-genotype relationships in protein families. Methods, algorithms and applications. Folding and Design, 1, Suppl., 84.

  23. Eroshkin A.M., Fomin V.I., Zhilkin P.A., Ivanisenko V.A., Kondrakhin Y.V. (1995) PROANAL version 2: multifunctional program for analysis of multiple protein sequence alignments and studying structure-activity relationships in protein families. CABIOS, 11, 39-44.

  24. Korepanova A.V., Eroshkin A.M., Ivanisenko V.A., Lebedev L.R., Mikryukov N.N., Pustoshilova N.M., Petrenko V.A., Ilyichev A.A. (1994) Preparation of a mutant human tumor necrosis factor with increased resistance to proteases. Mol Biol (Mosk). 28, 143-149. Russian.

  25. Eroshkin A.M., Minenkova O.O., Fomin V.A., Ivanisenko V.A., Ilyichev A.A. (1993) Analysis of peptide fragment insertions in the basic proteins of the bacteriophage M13, f1, and fd envelopes. Interconnection of structural characteristics of the envelope protein and viability of mutant phages. Mol Biol (Mosk).27, 1345-55. Russian.

Монографии и главы из монографий

  1. Ivanisenko V.A., Pintus S.S., Demenkov P.S., Krestyanova M.A., Litvenko E.K., Grigorovich D.A., Debelov V.A. FASTPROT: a computational workbench for recognition of the structural and functional determinants in protein tertiary structures. In: Bioinformatics of Genome Regulation and Structure II. (Eds. N. Kolchanov and R. Hofestaedt) Springer Science+Business Media, Inc. 2006, pp. 305-316

  2. Ivanisenko V.A., Afonnikov D.A., Kolchanov N.A. Web-based computational tools for the prediction and analysis of posttranslational modifications of proteins. In: the second edition of the book on “Posttranslational Modifications of Proteins: Tools for Functional Proteomics”, within on-going series “Methods in Molecular Biology”. Ed. by C. Kannicht, Humana Press, USA, 2006, in press.

  3. Ivanisenko V.A., Pintus S.S., Grigorovich D.A., Ivanisenko L.N., Debelov V.A., Matsokin A.M. PDBSITESCAN: a program searching for functional sites in protein 3d structures. In: Bioinformatics of genome regulation and structure. Ed. by N. Kolchanov and R. Hofestaedt, Kluwer Academic Publishers, Boston/Dordrecht/London, 2004, pp. 185-192.

Изобретения и патенты

  1. Pika I., Frolov A., Ivanisenko V., Eroshkin A. (1995) ProAnWin - Protein Analyst for Windows (Accepted).

  2. Ivanisenko V., Eroshkin A. (1995) ProAnalyst - PROTEIN ANALYST (Accepted).

  3. Ivanisenko V.A. (2005) PDBSite: a database of the 3D structure of protein functional sites (Accepted).

  4. Ivanisenko V.A., (2005) PDBSiteScan: a program for searching for active, binding and posttranslational modification sites in the 3D structures of proteins (Accepted).

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Лаборатория теоретической генетики
Института цитологии и генетики
пр. Лаврентьева 10, • Новосибирск, 630090, • Россия

salix@bionet.nsc.ru• тел (011) +7(383)333-31-19 • fax (011) +7(383)333-12-78

дата создания 10-4-2006      последние изменения 18-03-06

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