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23/05/19
10:49:47

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

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Publications of Lev Rubanov

  1. V.A. Lyubetsky, L.I. Rubanov. Parallel algorithm for searching regulatory signal in bacterial genome. Proceedings of the Third International Conference on Bioinformatics of Genome Regulation and Structure (BGRS'2002), Novosibirsk, Russia, July 14–20 2002, Vol. 1, P. 24–27, i,
  2. V.A. Lyubetsky, K.Yu. Gorbunov, S.A. Pirogov, L.I. Rubanov, A.V. Seliverstov. An algorithm and search results for a model of gene expression regulation with RNA secondary structures in bacteria. Information Processes, 2005, Vol. 5, No. 5, P. 337–366, in Russian
  3. V.A. Lyubetsky, L.I. Rubanov, A.V. Seliverstov, S.A. Pirogov. Model of gene expression regulation in bacteria via formation of RNA secondary structures. Molecular Biology, May-Jun 2006, Vol. 40, No. 3, P. 440–453, DOI: 10.1134/S0026893306030113, WOS000238266900011, Scopus: 2-s2.0-33747627658, eLIBRARY: 13510198,
  4. No English citation is currently avaliable for this publication.
    Е.В. Любецкая, Л.И. Рубанов, А.В. Селиверстов, В.А. Любецкий. Алгоритм поиска мощных вторичных структур в нуклеотидной последовательности и его применение для подсчета числа таких структур в разных областях геномов. Информационные процессы, 2006, том 6, № 3, стр. 258–263, eLIBRARY9170378, i,
  5. A.V. Lyubetskaya, L.I. Rubanov, M.S. Gelfand. Use of the flux model of amino acid metabolism of Escherichia coli. Biochemistry (Moscow), 2006, Vol. 71, No. 11, P. 1256–1260, DOI: 10.1134/S0006297906110113, WOS000242418300011, PMID17140387,
  6. V.A. Lyubetsky, S.A. Pirogov, L.I. Rubanov, A.V. Seliverstov. Modeling classic attenuation regulation of gene expression in bacteria. Journal of Bioinformatics and Computational Biology, Feb 2007, Vol. 5, Iss. 1, P. 155–180, DOI: 10.1142/S0219720007002576, Scopus: 2-s2.0-34248154743, PMID17477496, eLIBRARY: 13557055, i,
  7. L.I. Rubanov, V.A. Lyubetsky. RNAmodel web server: modeling classic attenuation in bacteria. In Silico Biology, 2007, Vol. 7, No. 3, P. 285–308, Scopus: 2-s2.0-38949164739, PMID18415978, eLIBRARY: 13540819, i, i,
  8. No English citation is currently avaliable for this publication.
    Л.Ю. Русин, Л.И. Рубанов, В.А. Любецкий. Данные для построения эволюционного дерева высших Metazoa. Информационные процессы, 2007, том 7, № 3, стр. 199–213, eLIBRARY22134008, i,
  9. No English citation is currently avaliable for this publication.
    И. Глотова, Л.И. Рубанов, А.В. Селиверстов, В.А. Любецкий. Псевдоузлы и РНК-триплексы в модели классической аттенюаторной регуляции. Труды 30-й конференции «Информационные технологии и системы» (ИТиС’07), Звенигород, 18–21 сентября 2007, стр. 222–227, i,
  10. V.A. Lyubetsky, E.A. Zhizhina, L.I. Rubanov. Gibbs field approach for evolutionary analysis of regulatory signal of gene expression. Problems of Information Transmission, Dec 2008, Vol. 44, No. 4, P. 333–351, DOI: 10.1134/S0032946008040066, WOS000262811900006, Scopus: 2-s2.0-59349118725, eLIBRARY: 13595723,
  11. V.A. Lyubetsky, E.A. Zhizhina, L.I. Rubanov. A model of regulatory signal evolution. Abstracts of The Sixth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS'2008), Novosibirsk, Russia, June 22–28 2008, P. 148, i,
  12. L.I. Rubanov, A.V. Seliverstov, V.A. Lyubetsky. Multiple alignment based on species tree. Abstracts of The Sixth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS'2008), Novosibirsk, Russia, June 22–28 2008, P. 212, i,
  13. V.A. Lyubetsky, L.I. Rubanov, A.V. Seliverstov. A Tree-based Method of Sequence Alignment. Proceedings of the 9th International Conference of RAS «Pattern Recognition and Image Analysis: New Information Technologies», Nizhniy Novgorod, September 15–20 2008, P. 137–140,
  14. V.A. Lyubetsky, E.A. Zhizhina, L.I. Rubanov. Gibbs Field for Evolutionary Analysis of Regulatory Signal of Gene Expression under Constraints on Secondary Structure. The 18th IMACS World Congress on Computational and Applied Mathematics & Applications in Science and Engineering, August 3–5 2009, The University of Georgia, Athens, GA 30602-7404, USA, P. 54
  15. V.A. Lyubetsky, L.I. Rubanov, A.V. Seliverstov. RNA polymerase competition at complementary DNA strands. Proceedings of the Genetics and Selection Meeting and V Congress of the Vavilov Genetics and Selection Society, Moscow, Russia, June 21–27 2009, Part II, P. 68
  16. No English citation is currently avaliable for this publication.
    О.А. Зверков, А.В. Селиверстов, Л.И. Рубанов, В.А. Любецкий. Моделирование конкуренции РНК-полимераз: влияние нокаута сигма субъединицы и температуры на экспрессию генов. Труды 32-й конференции «Информационные технологии и системы» (ИТиС’09), пос. д/о Бекасово, 15–18 декабря 2009, стр. 328–331, i,
  17. V.A. Lyubetsky, L.I. Rubanov, A.V. Seliverstov. Lack of conservation of bacterial type promoters in plastids of Streptophyta. Biology Direct, May 2010, Vol. 5, Article 34, DOI: 10.1186/1745-6150-5-34, WOS000278359600001, Scopus: 2-s2.0-77951958863, PMID20459727, eLIBRARY: 15330236,
  18. V.A. Lyubetsky, O.A. Zverkov, L.I. Rubanov, A.V. Seliverstov. Interaction between nucleome and plastome: heat shock response regulation in plastids of plants. Proceedings of the Seventh International Conference on Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB'2010), Novosibirsk, Russia, June 20–27 2010, P. 161,
  19. A.V. Seliverstov, L.I. Rubanov, V.A. Lyubetsky. Lack of conservation of bacterial type promoters in plastids of Streptophyta. Proceedings of the Seventh International Conference on Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB'2010), Novosibirsk, Russia, June 20–27 2010, P. 170
  20. V.A. Lyubetsky, O.A. Zverkov, L.I. Rubanov, A.V. Seliverstov. Modeling RNA polymerase competition: the effect of σ-subunit knockout and heat shock on gene transcription level. Biology Direct, Jan 21 2011, Vol. 6, Article 3, DOI: 10.1186/1745-6150-6-3, WOS000287311800001, Scopus: 2-s2.0-78651579146, PMID21255416, eLIBRARY: 16645698,
  21. K.Yu. Gorbunov, L.I. Rubanov, L.Yu. Rusin, V.A. Lyubetsky. An accurate algorithm of cubic complexity to build supertrees. Zitteliana. An International Journal of Palaeontology and Geobiology. Series B, Vol. 30, Abstracts of the international conference “Deep Metazoan Phylogeny 2011 – new data, new challenges", Munchen, Germany, October 11–14 2011, P. 20, i,
  22. No English citation is currently avaliable for this publication.
    В.А. Любецкий, Л.И. Рубанов, А.В. Селиверстов. Тканеспецифичная транскрипция в митохондриях хордовых в процессе онтогенеза. Юбилейная конференция «50лет ИППИ РАН. Нейрофизиология, биофизика и психофизика в ИППИ РАН: истоки и современность», Москва, Большой Каретный, 19, 15 сентября 2011, стр. 54–58
  23. V.A. Lyubetsky, O.A. Zverkov, S.A. Pirogov, L.I. Rubanov, A.V. Seliverstov. Modeling RNA polymerase interaction in mitochondria of chordates. Biology Direct, Aug 9 2012, Vol. 7, Article 26, DOI: 10.1186/1745-6150-7-26, WOS000308796200001, Scopus: 2-s2.0-84864643052, PMID22873568, eLIBRARY: 20492347,
  24. V.A. Lyubetsky, L.I. Rubanov, L.Yu. Rusin, K.Yu. Gorbunov. Cubic time algorithms of amalgamating gene trees and building evolutionary scenarios. Biology Direct, Dec 22 2012, Vol. 7, Article 48, DOI: 10.1186/1745-6150-7-48, WOS000315728400001, Scopus: 2-s2.0-84871384285, PMID23259766, eLIBRARY: 20488413,
  25. V.A. Lyubetsky, S.A. Korolev, A.V. Seliverstov, O.A. Zverkov, L.I. Rubanov. Gene expression regulation of the PF00480 or PF14340 domain proteins suggests their involvement in sulfur metabolism. Computational Biology and Chemistry, Apr 2014, Vol. 49, P. 7–13, DOI: 10.1016/j.compbiolchem.2014.01.001, WOS000335289200002, Scopus: 2-s2.0-84893856987, PMID24513779, eLIBRARY: 21864797. $ MESRF 8481 & 14.740.11.1053, RFBR 13-04-40196-Н. i,
  26. No English citation is currently avaliable for this publication.
    Р.А. Гершгорин, Л.И. Рубанов, А.В. Селиверстов. Легко вычислимые инварианты для распознавания гиперповерхности. Информационные процессы, 2014, том 14, № 4, стр. 365–369, eLIBRARY22800361. $ РНФ 14-50-00150. i,
  27. L.I. Rubanov. Parallelization of Nonuniform Loops in Supercomputers with Distributed Memory. Journal of Communications Technology and Electronics, Jun 2014, Vol. 59, No. 6, P. 639–646, DOI: 10.1134/S1064226914060175, WOS000338998100017. $ MESRF 8481.
  28. L.I. Rubanov. Parallel Monte Carlo Modeling on Distributed Memory Systems. International Journal of Open Information Technologies, 2014, Vol. 2, No. 2, P. 12–20, in Russian. $ MESRF 8481
  29. No English citation is currently avaliable for this publication.
    О.А. Зверков, Л.И. Рубанов, А.В. Селиверстов. Поиск ультраконсервативных элементов у простейших типа Apicomplexa. Современные информационные технологии и ИТ-образование, 2014, № 10, стр. 865–870, eLIBRARY23020710,
  30. No English citation is currently avaliable for this publication.
    Л.И. Рубанов, А.В. Селиверстов, В.А. Любецкий. Метод выделения кластеров во взвешенном графе. IX Международная научно-практическая конференция «Современные информационные технологии и ИТ-образование», Москва, МГУ им. М. В. Ломоносова, 15 ноября 2014, доклад
  31. R.A. Gershgorin, L.I. Rubanov, A.V. Seliverstov. Easily Computable Invariants for Hypersurface Recognition. Journal of Communications Technology and Electronics, Dec 2015, Vol. 60, No. 12, P. 1429–1431.
    DOI: 10.1134/S1064226915120074, WOS000366638500018, Scopus: 2-s2.0-84950316787, eLIBRARY: 26925657. $ RSF 14-50-00150.
  32. No English citation is currently avaliable for this publication.
    Л.И. Рубанов, А.В. Селиверстов, О.А. Зверков, В.А. Любецкий. Ультраконсервативные элементы у простейших из надтипа Alveolata. Современные информационные технологии и ИТ-образование, 2015, том 2, № 11, стр. 581–585.
    eLIBRARY26167551. $ РНФ 14-50-00150.
  33. No English citation is currently avaliable for this publication.
    Л.И. Рубанов, А.В. Селиверстов, В.А. Любецкий. Широкомасштабный поиск ультраконсервативных элементов в полных геномах. Современные информационные технологии и ИТ-образование, 2015, том 2, № 11, стр. 586–593.
    eLIBRARY26167552. $ РНФ 14-50-00150.
  34. V.A. Lyubetsky, L.I. Rubanov, O.A. Zverkov, L.Yu. Rusin, A.V. Seliverstov, A.G. Zaraisky. A method of detecting local gene synteny rearrangement. Proceedings of the International Moscow Conference on Computational Molecular Biology: MCCMB’15, Moscow, Russia, July 16–19 2015, Moscow, IITP RAS, 2015, P. 249–252.
    eLIBRARY: 23913986, i. $ RFBR 13-04-40196-Н.
  35. V.A. Lyubetsky, L.I. Rubanov, A.V. Bairamov, I.V. Shandarin, A.S. Ivanova, L.Yu. Rusin, O.A. Zverkov, A.V. Seliverstov, A.G. Zaraisky. A Large-scale Search for Gene Losses, Gains and Syntenic Rearrangements in Vertebrate Animals. Materials of the VIII Moscow International Congress “Biotechnology: State of the Art and Prospects of Development”, Moscow, Russia, March 17–20 2015, Part 1, P. 260–261.
    $ RFBR 13-04-40196-Н.
  36. L.I. Rubanov, A.V. Seliverstov, O.A. Zverkov, V.A. Lyubetsky. A method for identification of highly conserved elements and evolutionary analysis of superphylum Alveolata. BMC Bioinformatics, Sep 20 2016, Vol. 17, Article 385, 16 pp.
    DOI: 10.1186/s12859-016-1257-5, WOS000383404500001, Scopus: 2-s2.0-84988489465, PMID27645252, eLIBRARY: 27576567. $ RSF 14-50-00150. i,
  37. No English citation is currently avaliable for this publication.
    Л.И. Рубанов, А.В. Селиверстов. Проективно-инвариантное описание излучины реки. Информационные процессы, 2016, том 16, № 3, стр. 281–290.
    eLIBRARY27524319, i,
  38. No English citation is currently avaliable for this publication.
    Л.И. Рубанов, О.А. Зверков, А.В. Селиверстов, В.А. Любецкий. Высоко консервативные элементы в митохондриях однодольных растений. Современные информационные технологии и ИТ-образование, 2016, том 12, № 2, стр. 211–215.
    eLIBRARY28151042,
  39. R.A. Gershgorin, K.Yu. Gorbunov, O.A. Zverkov, L.I. Rubanov, A.V. Seliverstov, V.A. Lyubetsky. Highly conserved elements and chromosome structure evolution in mitochondrial genomes in ciliates. Life, Feb 27 2017, Vol. 7, Iss. 1, Article 9, 11 pp.
    DOI: 10.3390/life7010009, Scopus: 2-s2.0-85016311163, PMID28264444, eLIBRARY: 29483092, ISTINA: 87046898. $ RSF 14-50-00150. i,
  40. V.A. Lyubetsky, D.D. Korotkova, A.S. Ivanova, L.I. Rubanov, A.V. Seliverstov, O.A. Zverkov, A.M. Nesterenko, M.B. Tereshina, A.G. Zaraisky. Novel transmembrane protein c-Answer revealed by bioinformatic screening of genes present only in well regenerating animals. FEBS Journal, Sep 8 2017, Vol. 284, Iss. S1, P. 155.
    DOI: 10.1111/febs.14174, WOS000409918902164, ISTINA: 87047101. $ RSF 14-50-00150. i, ,
  41. L.I. Rubanov, A.V. Seliverstov. Projective-invariant description of a meandering river. Journal of Communications Technology and Electronics, 2017, Vol. 62, No. 6, P. 663–668.
    DOI: 10.1134/S1064226917060201, WOS000406306000019, Scopus: 2-s2.0-85024089400, eLIBRARY: 31060628,
  42. V.A. Lyubetsky, L.I. Rubanov, K.Yu. Gorbunov, O.A. Zverkov, A.V. Seliverstov. Highly conserved elements in mitochondrial genomes of ciliates and monocots. Materials of the IX International Congress “Biotechnology: State of the Art and Prospects of Development”, Moscow, Russia, February 20–22 2017, Part 1, P. 393.
    eLIBRARY: 29220438,
  43. V.A. Lyubetsky, R.A. Gershgorin, L.I. Rubanov, A.V. Seliverstov, O.A. Zverkov. Evolution and systematics of plastids of rhodophytic branch. Proceedings of the International Moscow Conference on Computational Molecular Biology: MCCMB’17, Moscow, Russia, July 27–30 2017, P. 48.
    eLIBRARY: 32563226. $ RSF 14-50-00150. i,
  44. A.V. Seliverstov, L.I. Rubanov, G.A. Shilovsky, O.A. Zverkov, V.A. Lyubetsky. Longevity in euarchontoglires: lost genes as a determinant. FEBS Open Bio, Jul 5 2018, Vol. 8, Suppl. 1, P. 456–457.
    DOI: 10.1002/2211-5463.12453, WOS000437674105151, ISTINA: 129706313. $ RSF 14-50-00150.
  45. O.A. Zverkov, L.I. Rubanov, L.Yu. Rusin, A.V. Seliverstov, V.A. Lyubetsky. Finding long highly conserved elements in complete animal genomes. CEUR Workshop Proceedings, Feb 23 2018, Vol. 2064, Convergent Cognitive Information Technologies 2017, P. 402–408, in Russian.
    Scopus: 2-s2.0-85044513196, ISTINA: 110759752. $ РНФ 14-50-00150. i,
  46. A.V. Seliverstov, G.A. Shilovsky, L.I. Rubanov, O.A. Zverkov, V.A. Lyubetsky. Longevity in mammals: lost genes as a determinant. Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB-2018): The Eleventh International Conference Abstracts, 20–25 August 2018, Novosibirsk, Russia, Novosibirsk: ICG SB RAS, 2018, P. 249.
    DOI: 10.18699/BGRSSB-2018-221,
  47. D.D. Korotkova, V.A. Lyubetsky, A.S. Ivanova, L.I. Rubanov, A.V. Seliverstov, O.A. Zverkov, N.Yu. Martynova, A.M. Nesterenko, M.B. Tereshina, L. Peshkin, A.G. Zaraisky. Bioinformatic screening of genes present only in well regenerating vertebrates reveals novel FGF and purinergic signaling modulator - c-Answer. bioRxiv, Dec 13 2018, DOI: 10.1101/494609,
  48. D.D. Korotkova, V.A. Lyubetsky, A.S. Ivanova, L.I. Rubanov, A.V. Seliverstov, O.A. Zverkov, N.Yu. Martynova, A.M. Nesterenko, M.B. Tereshina, L. Peshkin, A.G. Zaraisky. Bioinformatic screening of genes present only in well regenerating vertebrates reveals novel FGF and purinergic signaling modulator - c-Answer. Cell Reports, 2019, under review, i,
  49. L.I. Rubanov, A.G. Zaraisky, G.A. Shilovsky, A.V. Seliverstov, O.A. Zverkov, V.A. Lyubetsky. Screening for mouse genes lost in mammals with long lifespan. BioData Mining, 2019, submitted. $ RFBR 18-29-13037.
  50. L.I. Rubanov, G.A. Shilovsky, A.V. Seliverstov, O.A. Zverkov, V.A. Lyubetsky. Mouse genes lost in rodent and primate species with long lifespan. The proceedings of International congress «Biotechnology: state of the art and perspectives», Moscow, Russia, February 25–27 2019, P. 340.
    $ RFBR 18-29-13037.

Last update: 2019-05-16

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