Lab.6 IITP RAS logo
29/03/24
04:45:57

Laboratory of Mathematic methods and models in bioinformatics,
Institute for Information Transmission Problems,
Russian Academy of Sciences

« back

Publications of Alexey Vitreschak

  1. A.G. Vitreschak, M.S. Gelfand. Conserved RNA structures regulation initiation of translation of Escherichia coli and Haemophilus influenzae ribosomal protein operons. Abstracts of Theoretical biophysics international school, Moscow, Russia, June 15–20 1998, P. 105
  2. A.G. Vitreschak, A.K. Bansal, M.S. Gelfand. Conserved RNA structures regulate initiation of tranlsation of Escerichia coli and Haemophilus influenzae ribosomal protein operons. Proceedings of the First International Conference on Bioinformatics of Genome Regulation and Structure (BGRS'98), Novosibirsk, Russia, August 24–31 1998, Vol. 1, P. 229, i
  3. No English citation is currently avaliable for this publication.
    А.Г. Витрещак, М.С. Гельфанд. Компьютерный анализ регуляторных сигналов в полных бактериальных геномах. Инициация трансляции оперонов рибосомальных белков. Биофизика, 1999, том 44, стр. 601–610
  4. M.S. Gelfand, A.G. Vitreschak, A.A. Mironov. Information interactions and regulatory patterns in bacterial genomes. Proceedings of the first International Conference "Complex Systems: Control and modeling problems", Samara, Russia, June 1999, P. 101–105
  5. A.G. Vitreshchak, M.S. Gel'fand. Computer analysis of control signals in bacterial genomes. Attenuators of operons of aromatic amino acids metabolism. Molecular Biology, 2000, Vol. 34, No. 4, P. 461–467, DOI: 10.1007/BF02759555, eLIBRARY: 13343814,
  6. A.G. Vitreschak, A.A. Mironov, M.S. Gelfand. Comparative approach of regulation in complete genomes: attenuators of aromatic amino acid operons of gamma-proteobacteria. Proceedings of the II International Conference “Complex Systems: Control and Modeling Problems”, Samara, Russia, June 20–23 2000, P. 141–142, in Russian
  7. A.G. Vitreschak, A.K. Bansal, M.S. Gelfand. Comparative approach to analysis of regulation in complete genomes: attenuators of aromatic amino acid operons of gamma-proteobacteria. Proceedings of the Second International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2000), Novosibirsk, Russia, August 7–11 2000, Vol. 2, P. 57–58, i,
  8. No English citation is currently avaliable for this publication.
    А.Г. Витрещак, М.С. Гельфанд. Сравнительный подход к анализу регуляции в полных геномах: аттенюаторы ароматических аминокислотных оперонов гамма-протеобактерий. Материалы школы-конференции «Горизонты физико-химической биологии», Пущино, Май 2000, стр. 231
  9. E.M. Panina, A.G. Vitreschak, A.A. Mironov, M.S. Gelfand. Regulation of aromatic amino acid biosynthesis in gamma-proteobacteria. Journal of Molecular Microbiology and Biotechnology, Oct 2001, Vol. 3, No. 4, P. 529–543, PMID11545272, i,
  10. A.G. Vitreschak, A.A. Mironov, M.S. Gelfand. Computer prediction of RNA secondary structure. The RNApattern program: searching for RNA secondary structure by the pattern rule. Proceedings of the III International Conference “Complex Systems: Control and Modeling Problems”, Samara, Russia, September 3–10 2001, P. 623–625, in Russian
  11. A.G. Vitreschak. Computer analysis of regulation of genes, encoding aminoacyl-tRNA synthetases and amino acid biosynthetic proteins in Gram positive bacteria: T-box RNA regulatory element. Prediction of regulation of new genes, including amino acid transporters. Abstracts of International School “Artifical Intelligence and Heuristic Methods for Bioinformatics”, Italy, San-Miniato, October 1–11 2001, P. 63
  12. M.S. Gelfand, O.N. Laikova, A.A. Mironov, P.S. Novichkov, E.M. Panina, D.A. Rodionov, A.G. Vitreschak. Comparative analysis of bacterial patterns. Abstracts of Meeting of HHMI International Research Scholars, Vancouver, Canada, June 20–23 2001, P. 75
  13. A.G. Vitreschak, D.A. Rodionov, A.A. Mironov, M.S. Gelfand. Regulation of riboflavin biosynthesis and transport genes in bacteria by transcriptional and translational attenuation. Nucleic Acids Research, Jul 15 2002, Vol. 30, No. 14, P. 3141–3151, Oxford University Press, PMID12136096,
  14. D.A. Rodionov, A.G. Vitreschak, A.A. Mironov, M.S. Gelfand. Comparative genomics of thiamin biosynthesis in procaryotes. New genes and regulatory mechanisms. Journal of Biological Chemistry, Dec 13 2002, Vol. 277, No. 50, P. 48949–48959, DOI: 10.1074/jbc.M208965200, PMID12376536, eLIBRARY: 13414764,
  15. No English citation is currently avaliable for this publication.
    А.Г. Витрещак. Компьютерное предсказание регуляторных сайтов мРНК. Анализ регуляции экспрессии генов биосинтеза аминокислот и генов, кодирующих тРНК-синтетазы в грам-положительных бактериях. Информационные процессы, 2002, том 2, № 1, стр. 91–95, i,
  16. E.M. Panina, A.G. Vitreschak, A.A. Mironov, M.S. Gelfand. Bioinformatics approach to analysis of regulation of aromatic amino acids biosynthesis in Bacillus/Clostridium group. Proceedings of the Third International Conference on Bioinformatics of Genome Regulation and Structure (BGRS'2002), Novosibirsk, Russia, July 14–20 2002, Vol. 2, P. 32–34, i,
  17. A.G. Vitreschak, D.A. Rodionov, A.A. Mironov, M.S. Gelfand. Regulation of bacterial riboflavin genes by a conserved RNA structural element. Proceedings of the Third International Conference on Bioinformatics of Genome Regulation and Structure (BGRS'2002), Novosibirsk, Russia, July 14–20 2002, Vol. 2, P. 44–46, i,
  18. A.G. Vitreschak, E.M. Panina, D.A. Rodionov, A.A. Mironov, M.S. Gelfand. Comparative analysis of RNA regulation in bacterial genomes. Proceedings of the Meeting of International Research Scholars of the Howard Hughes Medical Institute, Palm Cove, Australia, June 25–28 2002
  19. A.G. Vitreschak. Computer analysis of regulation of genes, encoding aminoacyl-tRNA synthetases and amino acid biosynthetic proteins in Gram positive bacteria: T-box RNA regulatory element. Prediction of regulation of new genes, including amino acid transporters. Proceedings of the International Summer School "From Genome to Life: Structural, Functional and Evolutionary Approaches", Cargese, Corsica, France, July 15–27 2002, P. 57–58
  20. A.G. Vitreschak, D.A. Rodionov, A.A. Mironov, M.S. Gelfand. Regulation of the vitamin B12 metabolism and transport in bacteria by a conserved RNA structural element. RNA, Sep 2003, Vol. 9, No. 9, P. 1084–1097, DOI: 10.1261/rna.5710303, WOS000184970100006, Scopus: 2-s2.0-0042834096, PMID12923257,
  21. D.A. Rodionov, A.G. Vitreschak, A.A. Mironov, M.S. Gelfand. Regulation of lysine biosynthesis and transport genes in bacteria: yet another RNA riboswitch?. Nucleic Acids Research, Dec 1 2003, Vol. 31, No. 23, P. 6748–6757, DOI: 10.1093/nar/gkg900, WOS000186802500013, Scopus: 2-s2.0-0345531094, PMID14627808,
  22. D.A. Rodionov, A.G. Vitreschak, A.A. Mironov, M.S. Gelfand. Comparative genomics of the vitamin B12 metabolism and regulation in prokaryotes. Journal of Biological Chemistry, Oct 17 2003, Vol. 278, No. 42, P. 41148–41159, DOI: 10.1074/jbc.M305837200, WOS000185847200091, Scopus: 2-s2.0-0142071742, PMID12869542, eLIBRARY: 13419812,
  23. E.M. Panina, A.G. Vitreschak, A.A. Mironov, M.S. Gelfand. Regulation of biosynthesis and transport of aromatic amino acids in low-GC Gram-positive bacteria. FEMS Microbiology Letters, May 28 2003, Vol. 222, Iss. 2, P. 211–220, DOI: 10.1016/S0378-1097(03)00303-3, WOS000183239100010, Scopus: 2-s2.0-0037721512, PMID12770710, eLIBRARY: 13425323,
  24. Z. Zhang, J.N. Feige, A.B. Chang, I.J. Anderson, V.M. Brodianski, A.G. Vitreschak, M.S. Gelfand, M.H. Saier. A transporter of Escherichia coli specific for l- and d-methionine is the prototype for a new family within the ABC superfamily. Archives of Microbiology, Aug 2003, Vol. 180, No. 2, P. 88–100, DOI: 10.1007/s00203-003-0561-4, WOS000184860700002, Scopus: 2-s2.0-0041657693, PMID12819857, eLIBRARY: 13443098,
  25. A.G. Vitreschak. Identification of RNA 5’ UTR regulatory elements and prediction of RNA riboswitch mechanism of regulation of vitamin biosynthetic and transport genes in bacteria. Proceedings of the International Moscow Conference on Computational Molecular Biology, Moscow, Russia, July 22–25 2003, P. 233
  26. A.G. Vitreschak, E.V. Lyubetskaya, M.A. Shirshin, M.S. Gelfand, V.A. Lyubetsky. Attenuation regulation of amino acid biosynthetic operons in proteobacteria: comparative genomics analysis. FEMS Microbiology Letters, May 15 2004, Vol. 234, Iss. 2, P. 357–370, DOI: 10.1016/j.femsle.2004.04.005, WOS000221516100023, Scopus: 2-s2.0-2342475660, PMID15135544, eLIBRARY: 13450571,
  27. D.A. Rodionov, A.G. Vitreschak, A.A. Mironov, M.S. Gelfand. Comparative genomics of the methionine metabolism in Gram-positive bacteria: a variety of regulatory systems. Nucleic Acids Research, Jun 23 2004, Vol. 32, No. 11, P. 3340–3353, DOI: 10.1093/nar/gkh659, WOS000222399200015, Scopus: 2-s2.0-3042639887, PMID15215334, eLIBRARY: 13472898,
  28. A. Vitreschak, L. Noe, G. Kucherov. Computer analysis of multiple repeats in bacteria. Proceedings of the Fourth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS'2004), Novosibirsk, Russia, July 25–30 2004, Vol. 2, P. 297–299, i,
  29. A.G. Vitreschak. Detection of multiple repeats in bacteria. Conference “Indexation de texte et decouverte de motifs. Algorithmique des sequences”, Lille, France, Dec 9–10 2004
  30. A.G. Vitreschak, D.A. Rodionov, A.A. Mironov, M.S. Gelfand. Riboswitches: the oldest mechanism for the regulation of gene expression?. Trends in Genetics, Jan 2004, Vol. 20, Iss. 1, P. 44–50, DOI: 10.1016/j.tig.2003.11.008, WOS000188226200007, Scopus: 2-s2.0-0347418195, PMID14698618, eLIBRARY: 13465027,
  31. A. Vitreschak, G. Kucherov. Computer prediction of H-NS regulon in E. coli. Comparative analysis of regulation of rrn operons in proteobacteria. Proceedings of the International Moscow Conference on Computational Molecular Biology: MCCMB’05, Moscow, Russia, July 18–21 2005, P. 403–405
  32. M.S. Gelfand, A.V. Gerasimova, E.A. Kotelnikova, O.N. Laikova, V.Y. Makeev, A.A. Mironov, E.M. Panina, D.A. Ravcheev, D.A. Rodionov, A.G. Vitreschak. Comparative genomics and evolution of bacterial regulatory systems. In: Bioinformatics of Genome Regulation and Structure II, Springer US, 2006, Part 1, P. 111–119, DOI: 10.1007/0-387-29455-4_12,
  33. A.G. Vitreschak, V.A. Lyubetsky, M.S. Gelfand. Evolutional and functional analysis of T-box regulon in bacteria: identification of new genes involved in amino acid metabolism. Proceedings of the Fifth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS'2006), Novosibirsk, Russia, July 16–22 2006, Vol. 3, P. 236–240, WOS000243859500053, i,
  34. No English citation is currently avaliable for this publication.
    А.Г. Витрещак. Регуляторные РНК-переключатели. Международная школа «биоинформатика, геномика и протеоимка», Алматы, 11–16 апреля 2006, доклад
  35. M.D. Kazanov, A.G. Vitreschak, M.S. Gelfand. Abundance and functional diversity of riboswitches in microbial communities. BMC Genomics, 2007, Vol. 8, Art. 347, DOI: 10.1186/1471-2164-8-347, WOS000253465300002, Scopus: 2-s2.0-38549119502, PMID17908319, eLIBRARY: 13556016, i,
  36. A.G. Vitreschak, A.A. Mironov, V.A. Lyubetsky, M.S. Gelfand. Function and evolutionary analysis of the T-box regulon in bacteria. Proceedings of the International Moscow Conference on Computational Molecular Biology: MCCMB’07, Moscow, Russia, July 27–31 2007, P. 309–310,
  37. A.G. Vitreschak, V.A. Lyubetsky, M.S. Gelfand. Analysis of evolution of T-box regulatory elements prediction of amino acid transporters and other amino acid related genes. Proceedings of the international scientific conference “Computational Phylogenetics and Molecular Systematics, CPMS’2007”, Moscow, Russia, November 16–19 2007, KMK Scientific Press, P. 30–37
  38. No English citation is currently avaliable for this publication.
    А.Г. Витрещак, А.А. Миронов, В.А. Любецкий, М.С. Гельфанд. Компьютерный анализ, функциональная аннотация и изучение эволюции Т-бокс регулона в бактериях Компьютерный анализ, функциональная аннотация и изучение эволюции Т-боксового реглона у бактерий. Труды 30-й конференции «Информационные технологии и системы» (ИТиС’07), Звенигород, 18–21 сентября 2007, стр. 220–221, i,
  39. A.G. Vitreschak, A.A. Mironov, V.A. Lyubetsky, M.S. Gelfand. Comparative genomic analysis of T-box regulatory systems in bacteria. RNA, Cambridge University Press, Apr 2008, Vol. 14, No. 4, P. 717–735, DOI: 10.1261/rna.819308, WOS000254256800012, Scopus: 2-s2.0-41649115061, PMID18359782, eLIBRARY: 13573346, i,
  40. M.S. Gelfand, A.E. Kazakov, Yu.D. Korostelev, O.N. Laikova, A.A. Mironov, A.B. Rakhmaninova, D.A. Ravcheev, D.A. Rodionov, A.G. Vitreschak. Evolution of regulatory systems in bacteria (Invited keynote talk). In: Bioinformatics Research and Applications, Lecture Notes in Bioinformatics, Vol. 5542, Proceedings of the 5th International Symposium, ISBRA 2009, Fort Lauderdale, FL, USA, May 13–16 2009, P. 1–4, DOI: 10.1007/978-3-642-01551-9_1, WOS000265784700001, Scopus: 2-s2.0-67650110657, eLIBRARY: 13601857,
  41. V.N. Lazarev, S.A. Levitskii, Y.I. Basovskii, M.M. Chukin, T.A. Akopian, V.V. Vereshchagin, E.S. Kostrjukova, G.Y. Kovaleva, M.D. Kazanov, D.B. Malko, A.G. Vitreschak, N.V. Sernova, M.S. Gelfand, I.A. Demina, M.V. Serebryakova, M.A. Galyamina, N.N. Vtyurin, S.I. Rogov, D.G. Alexeev, V.G. Ladygina, V.M. Govorun. Complete genome and proteome of Acholeplasma laidlawii. Journal of Bacteriology, Sep 2011, Vol. 193, No. 18, P. 4943–4953, DOI: 10.1128/JB.05059-11, WOS000294261700039, Scopus: 2-s2.0-80052520529, PMID21784942, eLIBRARY: 18004042,
  42. G.A. Ashniev, N.V. Sernova, A.E. Shevkoplias, I.D. Rodionov, I.A. Rodionova, A.G. Vitreschak, M.S. Gelfand, D.A. Rodionov. Evolution of transcriptional regulation of histidine metabolism in Gram-positive bacteria. BMC Genomics, Aug 25 2022, Vol. 23, Suppl. 6, Art. 558, From 16th International Symposium on Bioinformatics Research and Applications (Virtual. 1-4 December 2020).
    DOI: 10.1186/s12864-022-08796-y, PMID36008760, PMC9413887, eLIBRARY: 51505476, EDN: RGRMJS,

Last update: 2024-03-22

« back