2023 |
Lyubetsky V., Rubanov L., Tereshina M., Ivanova A., Araslanova K., Uroshlev L., Goremykina G., Yang J., Kanovei V., Zverkóv O., Shitikov A., Korotkova D., Zaraisky A., Wide-scale identification of novel/eliminated genes responsible for evolutionary transformations.
Biology Direct, 2023, Vol. 18, Art. 45.
DOI: 10.1186/s13062-023-00405-6
(WoS Q2) http://iitp.ru/https://doi.org/10.1186/s13062-023-00405-6
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2022 |
Shilovsky G., Zverkóv O., Rubanov L., Seliverstov A., Lyubetsky V., Evolution of protein regulators of circadian rhythm in mammals.
Bioinformatics of Genome Regulation and Structure/Systems Biology (BGRS/SB-2022), The Thirteenth International Multiconference Abstracts, Novosibirsk, Russia, 4-8 July 2022, Novosibirsk: ICG SB RAS, 2022, P. 173. http://iitp.ru/https://elibrary.ru/item.asp?id=49238208
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2021 |
Shilovsky G., Zverkóv O., Rubanov L., Seliverstov A., Lyubetsky V., Complex evolution of Fbxl21 gene in mammals.
Proceedings of the International Moscow Conference on Computational Molecular Biology: MCCMB’21,
Moscow, Russia, July 30 — August 2 2021.
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2020 |
Rubanov L., Shilovsky G., Seliverstov A., Zverkóv O., Lyubetsky V., Gene loss prediction based on genomic structure.
The proceedings of International forum «Biotechnology: state of the art and perspectives»,
Moscow, Russia, October 28–30 2020, Iss. 18, P. 259–260.
DOI: 10.37747/2312-640X-2020-18-258-260 http://iitp.ru/https://doi.org/10.37747/2312-640X-2020-18-258-260
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Lyubetsky V., Shilovsky G., Zverkóv O., Seliverstov A., Rubanov L., New bioinformatics methods for identification of lost genes and protein isoforms.
Homo sapiens liberatus, Proceedings of the 3rd International Conference in celebration of the 85th birthday of professor V.P. Skulachev, Moscow, Russia, February 20–21 2020, Abstract Book.
Moscow: Torus Press, 2020, P. 41–42.
DOI: 10.30826/HomoSapiens-2020-30 http://iitp.ru/https://www.elibrary.ru/item.asp?id=42660982
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Lyubetsky V., Shilovsky G., Seliverstov A., Zverkóv O., Rubanov L., Evolution of proteins involved in response to ROS.
Bioinformatics of Genome Regulation and Structure/Systems Biology (BGRS/SB-2020), The Twelfth International Multiconference Abstracts, Novosibirsk, Russia, 6–10 July 2020.
Novosibirsk: ICG SB RAS, 2020, P. 652–653.
DOI: 10.18699/BGRS/SB-2020-398 http://iitp.ru/https://doi.org/10.18699/BGRS/SB-2020-398
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Rubanov L., Zverkóv O., Shilovsky G., Seliverstov A., Lyubetsky V., Protein-coding genes in Euarchontoglires with pseudogene homologs in humans.
Life, 2020, Vol. 10, No. 9, Art. 192.
DOI: 10.3390/life10090192, PMID: 32927891 http://iitp.ru/https://doi.org/10.3390/life10090192
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Lyubetsky V., Zverkóv O., Rubanov L., Seliverstov A., Optimal growth temperature and intergenic distances in bacteria, archaea, and plastids of rhodophytic branch.
BioMed Research International, 2020, Vol. 2020, Art. 3465380.
DOI: 10.1155/2020/3465380, PMID: 32025518 http://iitp.ru/https://www.hindawi.com/journals/bmri/2020/3465380/
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2019 |
Rubanov L., Shilovsky G., Seliverstov A., Zverkóv O., Lyubetsky V., 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, Iss. 17, P. 342. http://iitp.ru/https://elibrary.ru/item.asp?id=37590373
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Rubanov L., Zaraisky A., Shilovsky G., Seliverstov A., Zverkóv O., Lyubetsky V., Screening for mouse genes lost in mammals with long lifespans.
BioData Mining, 2019, Vol. 12, Art. 20.
DOI: 10.1186/s13040-019-0208-x, PMID: 31728160
(WoS Q1, IF 4) http://iitp.ru/https://doi.org/10.1186/s13040-019-0208-x
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Shilovsky G., Zverkóv O., Seliverstov A., Ashapkin V., Putyatina T., Rubanov L., Lyubetsky V., New C-terminal conserved regions of tafazzin, a catalyst of cardiolipin remodeling.
Oxidative Medicine and Cellular Longevity,
Vol. 2019, Art. 2901057.
DOI: 10.1155/2019/2901057, PMID: 31781330 http://iitp.ru/https://www.hindawi.com/journals/omcl/2019/2901057/
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Korotkova D., Lyubetsky V., Ivanova A., Rubanov L., Seliverstov A., Zverkóv O., Martynova N., Nesterenko A., Tereshina M., Peshkin L., Zaraisky A., Bioinformatics screening of genes specific for well-regenerating vertebrates reveals c-answer, a regulator of brain development and regeneration.
Cell Reports, Vol. 29, Iss. 4, P. 1027–1040.
DOI: 10.1016/j.celrep.2019.09.038, PMID: 31644900
(WoS Q1, IF 10) http://iitp.ru/https://www.cell.com/cell-reports/fulltext/S2211-1247(19)31226-4
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Seliverstov A., Zverkóv O., Rubanov L., Lyubetsky V., Protein clustering and gene loss prediction.
Computer Assisted Mathematics Conference.
Electrotechnical University "LETI" Saint-Petersburg, Russia, July 22-24, 2019. P. 7 http://cte.eltech.ru/ojs/public/static/ProgramCAM-2019.pdf
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2018 |
Korotkova D., Lyubetsky V., Ivanova A., Rubanov L., Seliverstov A., Zverkóv O., Martynova N., Nesterenko A., Tereshina M., Peshkin L., Zaraisky A., Bioinformatic screening of genes present only in well regenerating vertebrates reveals novel FGF and purinergic signaling modulator - c-Answer.
bioRxiv, 13 Dec 2018.
DOI: 10.1101/494609 http://iitp.ru/https://doi.org/10.1101/494609
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Seliverstov A., Shilovsky G., Rubanov L., Zverkóv O., Lyubetsky V., Longevity in mammals: lost genes as a determinant.
Bioinformatics of Genome Regulation and Structure\Systems Biology (BGRS\SB-2018): The Eleventh International Conference (20–25 Aug. 2018, Novosibirsk, Russia); Abstracts.
Institute of Cytology and Genetics, Siberian Branch of Russian Academy of Sciences; Novosibirsk State University. –
Novosibirsk: ICG SB RAS, 2018. P. 249.
DOI: 10.18699/BGRSSB-2018-221 http://conf.bionet.nsc.ru/bgrssb2018/en/
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Seliverstov A., Rubanov L., Shilovsky G., Zverkóv O., Lyubetsky V., Longevity in euarchontoglires: lost genes as a determinant.
FEBS Open Bio,
2018, Vol. 8 (Suppl. 1), P. 456–457;
DOI: 10.1002/2211-5463.12453. http://iitp.ru/https://doi.org/10.1002/2211-5463.12453
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2017 |
Lyubetsky V., Gershgorin R., Rubanov L., Seliverstov A., Zverkóv O., 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. http://iitp.ru/https://elibrary.ru/item.asp?id=32563226
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Lyubetsky V., Rubanov L., Gorbunov K., Zverkóv O., Seliverstov A., 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. http://iitp.ru/https://elibrary.ru/item.asp?id=29220438
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Zverkóv O., Rubanov L., Rusin L., Seliverstov A., Lyubetsky V., 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. http://ceur-ws.org/Vol-2064/paper47.pdf
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Lyubetsky V., Korotkova D., Ivanova A., Rubanov L., Seliverstov A., Zverkóv O., Nesterenko A., Tereshina M., Zaraisky A.G., Novel transmembrane protein c-Answer revealed by bioinformatic screening of genes present only in well regenerating animals.
FEBS Journal, 2017, Vol. 284, Iss. S1, P. 155.
doi:10.1111/febs.14174
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Rubanov L., Seliverstov A., 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.
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Gershgorin R., Gorbunov K., Zverkóv O., Rubanov L., Seliverstov A., Lyubetsky V., Highly Conserved Elements and Chromosome Structure Evolution in Mitochondrial Genomes in Ciliates.
Life, 2017, Vol. 7, No. 9.
doi:10.3390/life7010009, PMID: 28264444 http://www.mdpi.com/2075-1729/7/1/9/htm
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2016 |
Rubanov L., Seliverstov A., Zverkóv O., Lyubetsky V., A method for identification of highly conserved elements and evolutionary analysis of superphylum Alveolata.
BMC Bioinformatics.
2016, vol. 17, art. 385, 16 pp.
DOI: 10.1186/s12859-016-1257-5, PMID: 27645252 http://dx.doi.org/10.1186/s12859-016-1257-5
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Rubanov L., Seliverstov A., Projective-Invariant Description of Meandering River. Information processes. 2016. Vol. 16, no. 3, pp. 281-290 (in Russian) http://www.jip.ru/2016/16-3-2016.htm
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2015 |
Lyubetsky V., Rubanov L., Bairamov A., Shandarin I., Ivanova A., Rusin L., Zverkóv O., Seliverstov A., Zaraisky A., 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, March 17–20 2015, Part 1, P. 260–261. http://iitp.ru/https://elibrary.ru/item.asp?id=25631493
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Lyubetsky V., Rubanov L., Zverkóv O., Rusin L., Seliverstov A., Zaraisky A., A method of detecting local gene synteny rearrangement.
Proceedings of the International Moscow Conference on Computational Molecular Biology: MCCMB’15,
Moscow, July 16–19 2015, Moscow, IITP RAS, 2015, P. 249–252. http://mccmb.belozersky.msu.ru/2015/proceedings/author.html
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2014 |
Gershgorin R.A., Rubanov L., Seliverstov A., Easily Computable Invariants for Hypersurface Recognition, Journal of Communications Technology and Electronics, 2015. Vol. 60. No. 12. P. 1429–1431 http://www.jip.ru/2014/365-369-2014.pdf
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Rubanov L., "Parallelization of nonuniform loops in supercomputers with distributed memory" Journal of Communications Technology and Electronics, 2014, Vol. 59, No. 6, P. 639–646.
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Lyubetsky V., Korolev S., Seliverstov A., Zverkóv O., Rubanov L., “Gene expression regulation of the PF00480 or PF14340 domain proteins suggests their involvement in sulfur metabolism”
Computational Biology and Chemistry,
2014, vol. 49, p. 7–13. http://www.sciencedirect.com/science/article/pii/S1476927114000036
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2012 |
Lyubetsky V., Rubanov L., Rusin L., Gorbunov K., "Cubic time algorithms of amalgamating gene trees and building evolutionary scenarios" Biology Direct, 2012, 7:48. PMID: 24513779 http://www.biologydirect.com/content/7/1/48
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Lyubetsky V., Zverkóv O., Pirogov S., Rubanov L., Seliverstov A., Modeling RNA polymerase interaction in mitochondria of chordates.
Biology Direct. 2012, 7:26.
DOI: 10.1186/1745-6150-7-26, PMID: 22873568 http://www.biology-direct.com/content/7/1/26
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2011 |
Gorbunov K., Rubanov L., Rusin L., Lyubetsky V., “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.
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Lyubetsky V., Zverkóv O., Rubanov L., Seliverstov A., Modeling RNA polymerase competition: the effect of σ-subunit knockout and heat shock on gene transcription level.
Biology Direct. 2011, 6:3.
DOI: 10.1186/1745-6150-6-3, PMID: 21255416 http://www.biology-direct.com/content/6/1/3
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2010 |
Seliverstov A., Rubanov L., Lyubetsky V., “Lack of Conservation of Bacterial Type Promoters in Plastids of Streptophyta”
Proceedings of the Seventh International Conference on Bioinformatics of Genome Regulation and StructureSystems Biology (BGRSSB’2010), Novosibirsk, Russia, 20-27 June 2010, p. 170.
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Lyubetsky V., Zverkóv O., Rubanov L., Seliverstov A., 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.
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Lyubetsky V., Rubanov L., Seliverstov A., “Lack of conservation of bacterial type promoters in plastids of Streptophyta”
Biology Direct 2010, 5:34.
PMID: 20459727 http://www.biology-direct.com/content/5/1/34
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Kondratenkov I.B., Rubanov L., Àëãîðèòì àâòîìàòè÷åñêîãî îáíàðóæåíèÿ óñòîé÷èâûõ èçìåíåíèé, íàáëþäàåìûõ íà íåîäíîðîäíîì ôîíå â ïîñëåäîâàòåëüíîñòè âèäåîêàäðîâ // Èíôîðìàöèîííûå òåõíîëîãèè è ñèñòåìû ÈÒèÑ 2010, Ãåëåíäæèê, 20-24 ñåíòÿáðÿ 2010, ñòð. 121-126. http://www.itas-proceedings.iitp.ru/pdf/1569320973.pdf
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Kondratenkov I.B., Rubanov L., Îáíàðóæåíèå óñòîé÷èâûõ èçìåíåíèé íàáëþäàåìîé ñöåíû ïðè ïðîñòðàíñòâåííî-âðåìåííîì àíàëèçå âèäåîïîñëåäîâàòåëüíîñòè. Ïðèêëàäíàÿ èíôîðìàòèêà, 2010, ¹ 2 (26), ñòð. 64-70.
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2009 |
Lyubetsky V., Rubanov L., Seliverstov A., “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, June 21-27 2009, Part II, p. 68.
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Lyubetsky V., Zhizhina E., Rubanov L., “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, ð. 54.
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2008 |
Rubanov L., Seliverstov A., Lyubetsky V., “Multiple alignment based on species tree”
Abstracts of The Sixth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2008), Novosibirsk, June 22–28, p. 212. http://www.bionet.nsc.ru/meeting/bgrs2008/BGRS2008_Proceedings.pdf
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Lyubetsky V., Zhizhina E., Rubanov L., “A model of regulatory signal evolution”
Abstracts of The Sixth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2008), Novosibirsk, June 22–28, p. 148. http://www.bionet.nsc.ru/meeting/bgrs2008/BGRS2008_Proceedings.pdf
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Lyubetsky V., Zhizhina E., Rubanov L., “Gibbs Field Approach for Evolutionary Analysis of Regulatory Signal of Gene Expression” Problems of Information Transmission, 2008, V. 44, No 4, pp. 333–351.
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2007 |
Rubanov L., Lyubetsky V., “RNAmodel Web Server: Modeling Classic Attenuation in Bacteria”
In Silico Biology,
2007, V. 7, No 3, pp. 285–308.
PMID: 18415978 http://www.bioinfo.de/isb/2007/07/0044/
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Lyubetsky V., Pirogov S., Rubanov L., Seliverstov A., “Modeling classic attenuation regulation of gene expression in bacteria”
Journal of Bioinformatics and Computational Biology,
Vol. 5, Iss. 1, 2007, pp. 155–180.
PMID: 17477496
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2006 |
Lyubetsky V., Rubanov L., Seliverstov A., Pirogov S., “Model of gene expression regulation in bacteria via formation of RNA secondary structures” Molecular Biology, 2006, V. 40, No 3, p. 440–453.
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2005 |
Lyubetsky V., Gorbunov K., Pirogov S., Rubanov L., Seliverstov A., “An algorithm and search results for a model of gene expression regulation with RNA secondary structures in bacteria” Information Processes, 2005, V. 5, No 5, pp. 337–366. [in Russian] http://www.jip.ru/2005/337-366.pdf
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2002 |
Merzlyakov N., Rubanov L., Karnaukhov V., Multi-scale image presentation in a digital archive. Proceedings of Second International Conference on Image and Graphics ICIG’2002, 2002, pp.1067-1074.
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Rubanov L., Merzlyakov N., Karnaukhov V., Osipova N., Strategy of creation of digital archives accessible through the Internet // Proc. of IS&T/SPIE’s 14th Annual Symposium “Electronic Imaging 2002: Science and Technology”, 20-25 January 2002, San Jose, California, USA / Internet Imaging III, G.B. Beretta, R. Schettini (eds.), Proceedings of SPIE, 2002, Vol.4672, p.181-189
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Lyubetsky V., Rubanov L., “Parallel Algorithm for Searching Regulatory Signal in Bacterial Genome”
Proceedings of the Third International Conference of Bioinformatics of Genome Regulation and Structure (BGRS’2002), Novosibirsk, Russia, July 14-20, 2002, v. 1, p. 24-27. http://www.bionet.nsc.ru/meeting/bgrs_proceedings/papers/2002/BGRS_2002_1_005.pdf
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2000 |
Merzlyakov N., Karnaukhov V., Rubanov L., Integration of Image Processing and Database Management Systems. First International Conference on Image and Graphics, August 16-18, Tianjin, China, 2000, p.665-668.
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1998 |
Karnaukhov V., Miller B., Rubanov L., Merzlyakov N.S., Digital archives of manuscripts and photo-documents: technology and experience. // Proc. of International Conference EVA’98, Moscow 1 5 December 1998, STG, M., 1998, pp.5/1/1–5/1/9.
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Karnaukhov V., Merzlyakov N.S., Rubanov L., Image processing and storage in digital archives of manuscripts and photo-documents. // Proc. of 5-th Open German-Russian Workshop on Pattern Recognition and Image Understanding (21-25 September 1998, Herrshing, Germany). Sankt Augustin: Infix, 1999. p.176-183.
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