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Лаборатория биоинформатики

Заведующий лабораторией

Буздин Антон Александрович, доктор биологических наук


Основные направления деятельности лаборатории

Лаборатория нацелена на создание методов крупномасштабного анализа генетической информации, применимых для диагностики и/или прогнозирования онкологических заболеваний, а также для оптимизации их терапии. В частности, особое внимание уделяется профилированию транскриптомов и исследованию активации внутриклеточных сигнальных путей как предикторов развития рака и успешности различных видов терапии.


Достижения (значимые книги, монографии, руководства, статьи)

Научные статьи:

  1. Sense transcripts originated from an internal part of the human retrotransposon LINE-1 5' UTR. E.Alexandrova, I.Olovnikov, G.Malakhova, A.Zabolotneva, M.Suntsova, S.Dmitriev, A.Buzdin. Gene. 2012, Dec.10; 511(1): 46–53. doi: 10.1016/j.gene.2012.09.026. Epub. 2012, Sep.13.
  2. Characteristic patterns of microRNA expression in human bladder cancer. A.Zabolotneva, A.Zhavoronkov, A.Garazha, S.Roumiantsev, A.Buzdin. Front Genet. 2012; 3:310. doi: 10.3389/fgene.2012.00310. Epub. 2013, Jan.4.
  3. Transcriptional regulation of human-specific SVA(F1) retrotransposons by cis-regulatory MAST2 sequences. A.Zabolotneva, O.Bantysh, M.Suntsova,N.Efimova, G.Malakhova, G.Schumann, N.Gayfullin, A.Buzdin. Gene. 2012, Aug.15; 505(1): 128–36. Epub., 2012, May, 15.
  4. nMETR: Technique for facile recovery of hypomethylation genomic tags. K.Baskaev, A.Garazha, N.Gaifullin, M.Suntsova, A.Zabolotneva, A.Buzdin. Gene. 2012, Apr.25; 498 (1): 75–80. Epub., 2012, Feb.13.
  5. Эволюционно недавние группы генетических мобильных элементов в геноме человека. К.К.Баскаев, А.А.Буздин. (2011) Вавиловский журнал генетики и селекции, Том 15(2): 313–322.
  6. Молекулярные маркеры рака мочевого пузыря: от частного к целому. А.А.Заболотнева, Н.А.Гайфуллин, А.А.Буздин, Д.Г.Соков, Ю.Ю.Андреева, П.В.Шегай, Б.Я.Алексеев, И.Г.Русаков. (2011) Онкоурология, 2011(3): 12–15.
  7. How many antiviral small interfering RNAs may be encoded by the mammalian genomes? A.Zabolotneva, V.Tkachev, F.Filatov, A.Buzdin (2010) Biology Direct 5: 62 doi:10.1186/1745-6150-5-62
  8. Unique functions of the repetitive transcriptome. G.G.Schumann, E.V.Gogvadze, M.Osanai-Futahashi, A.Kuroki, C.Münk, H.Fujiwara, Z.Ivics, and A.A.Buzdin. (2010) International Review of Cell and Molecular Biology, Vol.285: 115–88.
  9. Novel strong tissue specific promoter for gene expression in human germ cells. D.Kuzmin, E.Gogvadze, R.Kholodenko, D.Grzela, M.Mityaev, T.Vinogradova, E.Kopantzev, G.Malakhova, M.Suntsova, D.Sokov, Z.Ivics, A.Buzdin. (2010) BMC Biotechnol. 2010, Aug.17;10(1):58.
  10. Enhancer element potentially involved in human survivin gene promoter regulation in lung cancer cell lines. M.Mityaev, E.Kopantzev, A.Buzdin, T.Vinogradova, E.Sverdlov. (2010) Biochemistry (Mosc). 2010, Feb.; 75(2): 182–91.
  11. Functional analysis of endogenous retroviral inserts in the context of human genome evolution. A.A.Buzdin (2010), Russian Journal of Bioorganic Chemistry, 36(1): 35–43.
  12. HIV-1 infection induces retrotransposition of LINE-1 elements. R.Jones, K.Garrison, H.Song, A.Buzdin, N.Anwar, D.Meiklejohn, L.Ndhlovu, D.Nixon, M.Ostrowski. (2009) Retrovirology, 6(S2): P.32.
  13. Novel family of human transposable elements formed due to a fusion of the first exon of gene MAST2 with retrotransposon SVA. O.Bantysh, A.Buzdin. (2009) Biochemistry (Mosc). 74(12): 1709–1717.
  14. Retroelements and their impact on genome evolution and functioning. E.Gogvadze, A.Buzdin. (2009) CMLS, Cell.Mol.Life Sci. Aug.2.
  15. Human-specific modulation of transcriptional activity provided by endogenous retroviral inserts. E.Gogvadze, E.Stukacheva, A.Buzdin, and E.Sverdlov. (2009) J.Virol. 83(12): 6098–6105
  16. Molecular receptors of taste agents. D.Ghilarov, T.Sakharova, A.Buzdin. (2009) Russian Journal of Bioorganic Chemistry, 35(1): 5–14.
  17. Functional significance of a putative sp1 transcription factor binding site in the survivin gene promoter. M.Mityaev, E.Kopantzev, A.Buzdin, T.Vinogradova, E.Sverdlov. Biochemistry (Mosc). 2008, Nov.; 73(11): 1183–91
  18. E.Gogvadze, C.Barbisan, M.-H.Lebrun and A.Buzdin. (2007) Tripartite chimeric pseudogene from the genome of rice blast fungus Magnaporthe grisea suggests double template jumps during long interspersed nuclear element (LINE) reverse transcription. BMC Genomics, 8(1): 360
  19. A.Buzdin. (2007) Human specific endogenous retroviruses. TheScientificWorldJournal, 7: 1848–1868.
  20. A.Buzdin, E.Gogvadze, M.Lebrun. (2007) Chimeric retrogenes suggest a role for the nucleolus in LINE amplification. FEBS Lett., 581 (16): 2877–82. Epub. 2007, May 25.
  21. I.Kholodenko, R.Kholodenko, V.Sorokin, A.Tolmazova, O.Sazonova, A.Buzdin. (2007) Anti-apoptotic effect of retinoic acid on retinal progenitor cells mediated by a protein kinase A-dependent mechanism. Cell Research, 17(2): 151–62.
  22. A.Buzdin, E.Kovalskaya-Alexandrova, E.Gogvadze, E.Sverdlov. (2006) At Least 50% of Human-Specific HERV-K (HML-2) Long Terminal Repeats Serve In Vivo as Active Promoters for Host nonrepetitive DNA Transcription. J.Virol., 80 (21): 10752–62.
  23. A.Buzdin, E.Kovalskaya-Alexandrova, E.Gogvadze, E.Sverdlov (2006) GREM, a technique for genome-wide isolation and quantitative analysis of promoter active repeats. Nucleic Acids Res., 34(9): e67.
  24. V.Kholodenko, A.Buzdin, R.Kholodenko, J.Bibikova, V.Sorokin, V.Yarygin, and E.Sverdlov. (2006) Mouse retinal progenitor cell (RPC) cocultivation with retinal pigment epithelial cell culture affects features of RPC differentiation. Biochemistry (Moscow) 71 (7): 767–74.
  25. E.Kovalskaya, A.Buzdin, E.Gogvadze, T.Vinogradova, E.Sverdlov. (2006) Functional human endogenous retroviral LTR transcription start sites are located between the R and U5 regions. Virology, Mar.15; 346(2): 373–378.
  26. A.Buzdin. (2006) Transposable elements and their use for target site specific gene delivery. Current Pharmacogenomics, March; 4(1): 1–8.
  27. E.Gogvadze, A.Buzdin. (2005) New mechanism of retrogene formation in mammalian genomes: in vivo recombination during RNA reverse transcription. Molecular Biology (Moscow), May-June; 39(3): 364–373.
  28. A.Buzdin, T.Vinogradova, Y.Lebedev, E.Sverdlov. (2005) Genome-wide experimental identification and functional analysis of human specific retroelements. Cytogenet.Genome Res.; 110(1–4): 468–474., in the special issue: «Retrotransposable elements and genome evolution»
  29. E.Gogvadze, A.Buzdin, E.Sverdlov. (2005) Multiple template switches during LINE directed reverse transcription is a general mechanism of the chimeric retroelement formation in mammals. Russian Journal of Bioorganic Chemistry, 31(1): 82–89
  30. T.Chalaya, E.Gogvadze, A.Buzdin, E.Kovalskaya, E.Sverdlov. (2004). Improving specificity of DNA hybridization-based methods. Nucleic Acids Res., 32(16): 130.
  31. A.Buzdin. (2004) Retroelements and formation of chimeric retrogenes. CMLS, Cell.Mol.Life Sci. 61(16): 2046–2059
  32. A.Buzdin, E.Gogvadze, E.Kovalskaya, P.Volchkov, S.Ustyugova, A.Illarionova, A.Fushan, T.Vinogradova, E.Sverdlov. (2003) The human genome contains many types of chimeric retrogenes generated through in vivo RNA recombination. Nucleic Acids Res., 31(15): 4385–4390.
  33. A.Buzdin, Yu.Lebedev, E.Sverdlov. (2003) Human specific HERV-K LTRs in gene introns have a non-random orientation and, possibly, participate in antisense regulation of the gene expression. Russian Journal of Bioorganic Chemistry, 29(1): 103–106.
  34. A.Buzdin, S.Ustyugova, K.Khodosevich, I.Mamedov, Y.Lebedev, G.Hunsmann, E.Sverdlov. (2003) Human-specific subfamilies of HERV-K (HML-2) long terminal repeats: three master genes were active simultaneously during branching of hominoid lineages. Genomics, 81(2): 149–156.
  35. A.Buzdin, S.Ustyugova, E.Gogvadze, Y.Lebedev, G.Hunsmann, E.Sverdlov. (2003) Genome-wide targeted search for human specific and polymorphic L1 integrations. Human Genetics, 112(5-6): 527–533.
  36. A.Buzdin, S.Ustyugova, E.Gogvadze, T.Vinogradova, Y.Lebedev, E.Sverdlov. (2002) A new family of chimeric retrotranscripts formed by a full copy of U6 small nuclear RNA fused to the 3' terminus of L1. Genomics, 80(4): 402–406.
  37. I.Mamedov, A.Batrak, A.Buzdin, E.Arzumanyan, Y.Lebedev, E.Sverdlov. (2002) Genome-wide comparison of differences in the integration sites of interspersed repeats between closely related genomes. Nucleic Acids Res., 30(14): e71.
  38. A.Buzdin, L.Revina, L.Kostina, I.Zalunin, G.Chestukhina. (2002) Interaction of 65- and 62-kD proteins from the apical membranes of the Aedes aegypti larvae midgut epithelium with Cry4B and Cry11A endotoxins of Bacillus thuringiensis. Biochemistry (Moscow), 67(5): 540–546.
  39. A.Buzdin, K.Khodosevich, I.Mamedov, T.Vinogradova, Y.Lebedev, G.Hunsmann, E.Sverdlov. (2002) A technique for genome-wide identification of differences in the interspersed repeats integrations between closely related genomes and its application to detection of human-specific integrations of HERV-K LTRs. Genomics, 79(3): 413–422.
  40. I.Krieger, L.Revina, L.Kostina, A.Buzdin, I.Zalunin, G.Chestukhina, V.Stepanov. (1999) Membrane proteins of Aedes aegypti larvae bind toxins Cry4B and Cry11A of Bacillus thuringiensis ssp.israelensis. Biochemistry (Moscow), 64(10): 1163–1168.

Монографии и главы в книгах:

  1. Recent Inserts of Transposable Elements Affect Structure and Functions of Human Genome. Anton Buzdin, Maria Suntsova, Olga Bantysh, Elena Aleksandrova, Anastasia Zabolotneva, Elena Gogvadze, and Nurshat Gaifullin (2012) Глава 23 в книге “Radiobiology and environmental security”, eds. C.E.Mothersill, V.Korogodina and C.B.Seymour. Springer, ISBN 978-94-007-1999-6 (PB) p.: 269–297.
  2. D.A.Ghilarov, A.А.Buzdin. Endogenous retroviral sequences control the transcription of many host genes in eukaryotes (2009). Глава в книге “Viral Genomes: Diversity, Properties and Parameters” Nova Science Publishers (USA) Pages: 35–63. ISBN: 978-1-60741-067-6
  3. Монография “Nucleic acids hybridization: modern applications”. Редакторы: Anton Buzdin, Sergey Lukyanov; Springer (2007) ISBN 978-1-4020-6039-7.
  4. Nucleic acids hybridization: potentials and limitations (Anton Buzdin) Глава в книге “Nucleic acids hybridization: modern applications”. Редакторы: Anton Buzdin, Sergey Lukyanov, Springer (2007) ISBN 978-1-4020-6039-7.
  5. Selective suppression of polymerase chain reaction and its most popular applications (Sergey Lukyanov, Konstantin Lukyanov, Nadezhda Gurskaya, Ekaterina Bogdanova, Anton Buzdin). Глава в книге “Nucleic acids hybridization: modern applications”. Редакторы: Anton Buzdin, Sergey Lukyanov, Springer (2007) ISBN 978-1-4020-6039-7.
  6. Suppression subtractive hybridization (Sergey Lukyanov, Denis Rebrikov, Anton Buzdin). Глава в книге “Nucleic acids hybridization: modern applications”. Редакторы: Anton Buzdin, Sergey Lukyanov, Springer (2007) ISBN 978-1-4020-6039-7.
  7. Stem-loop oligonucleotides as hybridization probes and their practical use in molecular biology and biomedicine (Anton Buzdin, Sergey Lukyanov). Глава в книге “Nucleic acids hybridization: modern applications”. Редакторы: Anton Buzdin, Sergey Lukyanov, Springer (2007) ISBN 978-1-4020-6039-7.
  8. Coincidence cloning: robust technique for isolation of common sequences (Anton Buzdin). Глава в книге “Nucleic acids hybridization: modern applications”. Редакторы: Anton Buzdin, Sergey Lukyanov, Springer (2007) ISBN 978-1-4020-6039-7.
  9. DNA hybridization in solution for mutation detection (Anton Buzdin) Глава в книге “Nucleic acids hybridization: modern applications”. Редакторы: Anton Buzdin, Sergey Lukyanov, Springer (2007) ISBN 978-1-4020-6039-7.
  10. Current attempts to improve the specificity of nucleic acids hybridization (Anton Buzdin). Глава в книге “Nucleic acids hybridization: modern applications”. Редакторы: Anton Buzdin, Sergey Lukyanov, Springer (2007) ISBN 978-1-4020-6039-7.
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