V. Lyubetsky - Publications

2016

Lyubetsky V., Gershgorin R., Seliverstov A., Gorbunov K., Algorithms for reconstruction of chromosomal structures. BMC Bioinformatics, 2016, 17:40, 23 p. DOI: 10.1186/s12859-016-0878-z http://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-016-0878-z
Kanovei V., Lyubetsky V., Countable OD sets of reals belong to the ground model. September 2016, arXiv:1609.01032 [math.LO], 12 pages http://arxiv.org/abs/1609.01032
Herzberg F., Kanovei V., Katz M., Lyubetsky V., Minimally definable hyperreals with transfer, JSL, submitted.
Korolev S., Zverkóv O., Seliverstov A., Lyubetsky V., “Ribosome reinitiation at leader peptides increases translation of bacterial proteins” Biology Direct 2016, 11:20. http://biologydirect.biomedcentral.com/articles/10.1186/s13062-016-0123-8#CR11
Kanovei V., Lyubetsky V., Non-uniformizable sets of second projective level with countable cross-sections in the form of Vitali classes, Russian Mathematics, Izvestiya, under consideration.
Zverkóv O., Seliverstov A., Lyubetsky V., “Regulation of Expression and Evolution of Genes in Plastids of Rhodophytic Branch” Life 2016, 6:7. PMID: 26840333 http://www.mdpi.com/2075-1729/6/1/7/htm
Kanovei V., Lyubetsky V., A definable countable set not containing definable elements, Mathematical notes, under consideration.
Kanovei V., Lyubetsky V., Counterexamples to countable-section $Pi^1_2$ uniformization and $Pi^1_3$ separation. Annals of Pure and Applied Logic, 2016, 167, 3, pp. 262–283. http://www.sciencedirect.com/science/article/pii/S0168007215001268
Golshani M., Kanovei V., Lyubetsky V., A Groszek -- Laver pair of undistinguishable $E_0$ classes. Mathematical Logic Quarterly, 2016, to appear. http://math.ipm.ac.ir/~golshani/Papers/A Groszek-Laver pair of undistinguishable E0 classes.pdf
Kanovei V., Lyubetsky V., On countable cofinality and decomposition of definable thin orderings. Fundamenta mathematicae, 2016, 235, no 1, pp. 13-36. http://iitp.ru/https://www.impan.pl/en/publishing-house/journals-and-series/fundamenta-mathematicae/online/91557/on

2015

Zverkóv O., Seliverstov A., Lyubetsky V., “A Database of Plastid Protein Families from Red Algae and Apicomplexa and Expression Regulation of the moeB Gene“ BioMed Research International, 2015, Vol. 2015, Article ID 510598, 5 pages. http://www.hindawi.com/journals/bmri/2015/510598/
Gorbunov K., Gershgorin R., Lyubetsky V., “Rearrangement and Inference of Chromosome Structures” Molecular Biology, 2015, Vol. 49, No. 3, P. 327–338.
Kanovei V., Lyubetsky V., “Grossone approach to Hutton and Euler transforms” Applied Mathematics and Computation, 2015, 255, pp. 36–43. http://dx.doi.org/10.1016/j.amc.2014.06.037
Kanovei V., Lyubetsky V., A definable $E_0$ class containing no definable elements, Archive for Mathematical Logic, 2015, 54, 5, pp. 711--723. http://link.springer.com/article/10.1007/s00153-015-0436-9
Kanovei V., Lyubetsky V., Generalization of one construction by Solovay, Siberian Mathematical Journal, 2015, 56, no. 6, pp. 1072–1079
Kanovei V., Lyubetsky V., On effective σ-boundedness and σ-compactness in Solovay"s model, Mathematical notes, 2015, 98, 1-2, pp. 273--282. http://www.mathnet.ru/php/archive.phtml?wshow=paper&jrnid=mzm&paperid=10415&option_lang=rus

2014

Kanovei V., Lyubetsky V., On countable cofinality and decomposition of definable thin orderings, arXiv:1412.0195 [math.LO], Dec. 2014, 21 p. http://arxiv.org/abs/1412.0195
Kanovei V., Lyubetsky V., Counterexamples to countable-section Π12 uniformization and Π13 separation, arXiv:1410.2537 [math.LO], Oct. 2014, 18 p. http://arxiv.org/abs/1410.2537
Kanovei V., Lyubetsky V., A definable $E_0$-class containing no definable elements, arXiv:1408.6642 [math.LO], Aug 2014, 12 p. http://arxiv.org/abs/1408.6642
Kanovei V., Lyubetsky V., A countable definable set of reals containing no definable elements, arXiv:1408.3901 [math.LO], Aug. 2014, 11 p. http://arxiv.org/abs/1408.3901
Kanovei V., Lyubetsky V., Linearization of partial quasi-orderings in the Solovay model revisited, arXiv:1408.1202 [math.LO], Aug. 2014, 13 p. http://arxiv.org/abs/1408.1202
Zverkóv O., Seliverstov A., Lyubetsky V., “A database of Rhodophyte plastid protein families and regulation of moeB genes” Abstracts of the Ninth International Conference on Bioinformatics of Genome Regulation and StructureSystems Biology (BGRSSB"2012), Novosibirsk, Russia, June 23–28 2014, p. 176.
Rusin L., Lyubetskaya E., Gorbunov K., Lyubetsky V., “Reconciliation of Gene and Species Trees” BioMed Research International, 2014, Vol. 2014, Article ID 642089, 22 pages. http://dx.doi.org/10.1155/2014/642089
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

2013

Lyubetsky V., Korolev S., Seliverstov A., Zverkóv O., “Rho-dependent attenuation of sulfur metabolism in mycobacteria” Proceedings of the International Moscow Conference on Computational Molecular Biology: MCCMB’13, Moscow, Russia, July 25–28 2013.
Kobets N., Goncharov D., Seliverstov A., Zverkóv O., Lyubetsky V., “Comparative analysis of apicoplast-targeted proteins in Toxoplasma gondii and other Apicomplexa species” Proceedings of the International Moscow Conference on Computational Molecular Biology: MCCMB’13, Moscow, Russia, July 25–28 2013.
Lyubetsky V., Seliverstov A., Zverkóv O., “Elaboration of the Homologous Plastid-Encoded Protein Families that Separate Paralogs in Magnoliophytes” Mathematical Biology and Bioinformatics, 2013, Vol. 8, No. 1, P. 225–233, (in Russian).
Zverkóv O., Seliverstov A., Lyubetsky V., “Averaged entropy as conservativity measure of genome regions” Tambov University Reports. Series: Natural and Technical Sciences, 2013, Vol. 18, Iss. 5, (part 2), P. 2529–2531, (in Russian).
Lyubetsky V., Seliverstov A., Zverkóv O., "Transcription Regulation of Plastid Genes Involved in Sulfate Transport in Viridiplantae" BioMed Research International, Vol. 2013 (2013), Article ID 413450, 6 p. http://www.hindawi.com/journals/bmri/2013/413450/
Kanovei V., Lyubetsky V., Contemporary Set Theory: absolutely undecidable classical problems. (Russian.) Monograph, published by Independent Moscow university, 2013, 384 pages. http://biblio.mccme.ru/node/2878
Kanovei V., Lyubetsky V., On effective $sigma$-boundedness and $sigma$-compactness, Mathematical Logic Quarterly, 2013, 59, no 3, pp. 147-166. http://onlinelibrary.wiley.com/doi/10.1002/malq.201200001/full
Zverkóv O., Rusin L., Seliverstov A., Lyubetsky V., “Study of Direct Repeats in Micro Evolution of Plant Mitochondria and Plastids Based on Protein Clustering” Moscow University Biological Sciences Bulletin, 2013, Vol. 68, No. 2, P. 58–62.

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
Zverkóv O., Seliverstov A., Lyubetsky V., “Plastid-encoded protein families specific for narrow taxonomic groups of algae and protozoa” Molecular Biology (Moscow), 2012, Vol. 46, No. 5, P. 717-726.
Gorbunov K., Lyubetsky V., “The problems of reconciling gene and species trees, mapping a gene tree into a species tree, and gene tree inference” Abstracts of the First RECOMB Satellite Conference on Open Problems in Algorithmic Biology (RECOMB-AB), St. Petersburg, Russia, August 27–29 2012.
Gorbunov K., Seliverstov A., Lyubetsky V., "Geometric Relationship between Parallel Hyperplanes, Quadrics, and Vertices of a Hypercube" Problems of Information Transmission , 2012, 48:2, 185–192 http://dx.doi.org/10.1134%2FS0032946012020081
Lyubetsky V., Zverkóv O., Pirogov S., Rubanov L., Seliverstov A., “Modeling RNA polymerase interaction in mitochondria of chordates” Biology Direct, 2012, 7:26. PMID: 22873568 http://www.biology-direct.com/content/7/1/26
Zverkóv O., Korolev S., Seliverstov A., Lyubetsky V., “Transcription regulation of plastid genes cysT and cysA in Viridiplantae” Molecular Phylogenetics: Contributions to the 3rd Moscow International Conference “Molecular Phylogenetics” (MolPhy-3), Moscow, Russia, July 31 – August 4, 2012, (Eds.: A. Troitsky, L. Rusin, V. Aleoshin), Moscow, Torus Press, 2012, P. 85.
Seliverstov A., Lyubetsky V., “About Forms Equal to Zero at Each Vertex of a Cube” Journal of Communications Technology and Electronics, 2012, Vol. 57, No. 8, P. 892–895.
Seliverstov A., Lyubetsky V., “Modeling RNA Polymerase Interaction in Plastids of Plants, Algea and Mitochondria of Chordates: Human Bearing the MELAS Mutation and Rat with Hyposecretion of Thyroid Hormone” Proceedings of the Eighth International Conference on Bioinformatics of Genome Regulation and StructureSystems Biology (BGRSSB"2012), Novosibirsk, Russia, June 25–29 2012, P. 189.
Kanovei V., Lyubetsky V., “Effective Compactness and Sigma-Compactness” Mathematical notes, 2012, Vol. 91, Iss. 6, P. 789–799. http://mi.mathnet.ru/rus/mz/v91/i6/p840
Kanovei V., Lyubetsky V., An infinity which depends on the axiom of choice, Applied Mathematics and Computation, Vol. 218, Iss. 16, April 15 2012, P. 8196–8202, http://dx.doi.org/10.1016/j.amc.2011.05.003
Gorbunov K., Lyubetsky V., “Fast Algorithm to Reconstruct a Species Supertree from a Set of Protein Trees” Molecular Biology, 2012, Vol. 46, No. 1, P. 161–167.

2011

Zverkóv O., Gorbunov K., Seliverstov A., Lyubetsky V., “Protein clustering with accounting for domen architecture” Proceedings of the 54th conference of Moscow Institute of Physics and Technology “Basic and applied research in life sciences and engineering in modern information environment”, Moscow, Russia, November 25–26 2011, Section of Management and applied mathematics, Vol. 2, P. 88–89.
Kanovei V., Lyubetsky V., “An effective minimal encoding of uncountable sets” Siberian mathematical journal, 2011, Vol. 52, No. 5, pp. 854–863. http://www.springerlink.com/content/hgwv8882kl061v70/
Seliverstov A., Lyubetsky V., “Evolution of RNA-polymerases and their promoters in plastids” 50-years of IITP anniversary conference, Moscow, September 15 2011, P. 58–62.
Lyubetsky V., Seliverstov A., ”Mathematical problems in biological evolution and molecular regulation“ Proceedings of the International Mathematical Conference “50 Years of IITP”, Moscow, Russia, July 25–29, 2011, 7 pages. http://iitp.ru/upload/content/839/Lyubetsky%20Seliverstov.pdf
Kanovei V., Lyubetsky V., On the infinitary pantachie of Du Bois Reymond, Proceedings of the International Mathematical Conference “50 Years Of IITP”, Moscow, Russia, July 25–29, 2011, 7 pages. http://iitp.ru/upload/content/839/Kanovei.pdf
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.
Gorbunov K., Lyubetsky V., “The tree nearest in average to a given set of trees” Information transmission problems, Vol. 47, Iss. 3, 2011
Lopatovskaya K., Seliverstov A., Lyubetsky V., “Bacterial type RNA polymerase sigma subunits and their specific promoters in plastids” Proceedings of the International Moscow Conference on Computational Molecular Biology: MCCMB’11, July 21–24, 2011, pp. 209–210. http://mccmb.belozersky.msu.ru/2011/mccmb11.pdf
Lopatovskaya K., Seliverstov A., Lyubetsky V., “NtcA and NtcB regulons in cyanobacteria and chloroplasts” Proceedings of the VI Moscow International Congress “Biotechnology: State of the Art and Prospects of Development”, March 21–25, 2011, pp. 395–396.
Lopatovskaya K., Seliverstov A., Lyubetsky V., “NtcA and NtcB regulons in cyanobacteria and rhodophyta chloroplasts” Molecular Biology, V. 45, No. 3, 2011, pp. 522–526. http://www.springerlink.com/content/83173k2162213k56/
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. PMID: 21255416 http://www.biology-direct.com/content/6/1/3

2010

Kanovei V., Lyubetsky V., Julius Koenig sets as higher infinity, Infinite and Infinitesimal in Mathematics and Natural Sciences. International Workshop, 17-21 May 2010, Book of Abstracts, p. 27, University of Calabria, Italy, 2010. http://www.theinfinitycomputer.com/Infinity2010/Abstracts_Infinity2010.pdf
Lyubetsky V., Seliverstov A., “Fast and Slow Evolution of Bacterial Type Promoters in Plastids of Streptophyta” Molecular Phylogenetics: Contributions to the 2nd Moscow International Conference “Molecular Phylogenetics” (Moscow, Russia, May 18-21, 2010), Moscow, Torus Press, 2010, p. 54.
Lopatovskaya K., Seliverstov A., Lyubetsky V., “The Evolution of NtcA- and NtcB-regulons in Cyanobacteria and Rhodophyte Chloroplasts” Molecular Phylogenetics: Contributions to the 2nd Moscow International Conference “Molecular Phylogenetics” (Moscow, Russia, May 18-21, 2010), Moscow, Torus Press, 2010, pp. 134–135.
Lopatovskaya K., Gorbunov K., Seliverstov A., Lyubetsky V., “The evolution of proline synthesis transcription regulation in gamma proteobacteria” Molecular Phylogenetics: Contributions to the 2nd Moscow International Conference “Molecular Phylogenetics” (Moscow, Russia, May 18-21, 2010), Moscow, Torus Press, 2010, pp. 132–133.
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.
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 StructureSystems Biology (BGRSSB’2010), Novosibirsk, Russia, 20-27 June 2010, p. 161.
Gorbunov K., Lyubetsky V., “A Fast Algorithm of Building Species Supertrees with a Set of Gene Trees” Proceedings of the Seventh International Conference on Bioinformatics of Genome Regulation and StructureSystems Biology (BGRSSB’2010), Novosibirsk, Russia, 20-27 June 2010, p. 92.
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
Lopatovskaya K., Gorbunov K., Rusin L., Seliverstov A., Lyubetsky V., “The Evolution of Proline Synthesis Transcriptional Regulation in Gammaproteobacteria” Moscow University Biological Sciences Bulletin, 2010, V. 65, No. 4, pp. 211–212.
Kanovei V., Lyubetsky V., Contemporary Set Theory: Borel and projective sets. (Russian.) Monograph, published by Independent Moscow university, 2010, 320 pages. http://www.mccme.ru/free-books/#kanovej
Zverkóv O., Seliverstov A., Lyubetsky V., “On an algorithm of protein clustering” Proceedings of the 53th conference of Moscow Institute of Physics and Technology “Modern problems of fundamental and applied sciences”, Moscow, Russia, November 24–29 2010, Part I, Vol. 1, P. 118–119. http://mipt.ru/nauka/53conf/Materialy+53+konferenzii/01-FRTK1-view-arpggzeu7il.pdf
Gorbunov K., Laikova O.N., Rodionov D., Gelfand M., Lyubetsky V., “Evolution of regulatory motifs of bacterial transcription factors” In Silico Biology, 2010, 10, 0012. http://www.bioinfo.de/isb/2010/10/0012/
Lopatovskaya K., Seliverstov A., Lyubetsky V., “Attenuation Regulation of the Amino Acid and Aminoacyl-tRNA Biosynthesis Operons in Bacteria: A Comparative Genomic Analysis” Molecular Biology, 2010, Vol. 44, No. 1, pp. 128–139.

2009

Kanovei V., Lyubetsky V., Borel reducibility as an additive property of domains, Journal of Mathematical Sciences, 2009, Vol. 158, No. 5, P. 708–712. http://www.springerlink.com/content/t61n117p753548n1/
Rusin L., Aleoshin V., Lyubetsky V., “A phylogenomic pipeline to construct multi-gene datasets and infer multi-gene trees”, Proceedings of the international conference “Celebrating Darwin: from the Origin of Species to Deep Metazoan Phylogeny, DMP’09”, Berlin, Germany, March 4–6 2009.
Kanovei V., Lyubetsky V., Reeken M., Nonstandard class and superset theories, Logic and Mathematics, The University of York, 3-7 August, 2009. Department of Mathematics, University of York, 2009, p. 21. http://maths.york.ac.uk/www/sites/default/files/kanovei-slides.pdf
Lyubetsky V., Lopatovskaya K., “Comparative genomic analysis of the attenuation regulation of amino acid and amino acyl-tRNA biosynthesis operons in bacteria” International Moscow Conference on Computational Molecular Biology: MCCMB’09, pp. 219–220.
Lopatovskaya K., Seliverstov A., Lyubetsky V., “Chlorophyll synthesis regulation in plant chloroplasts” International Moscow Conference on Computational Molecular Biology: MCCMB’09, pp. 217–218.
Gorbunov K., Lyubetsky V., “Inferring gene evolution along a species tree” International Moscow Conference on Computational Molecular Biology: MCCMB’09, pp. 120–121.
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.
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.
Lyubetsky V., Seliverstov A., “Protein expression regulation in plastids of parasites, algae and plants” Proceedings of V Bioinformatics Congress, Moscow, 2009, pç. 387–388.
Gorbunov K., Lyubetsky V., “Reconstructing the evolution of genes along the species tree” Molecular Biology, 2009, V. 43, No. 5, pp. 881–893.
Gorbunov K., Lyubetskaya E., Asarin E., Lyubetsky V., “Modeling evolution of the bacterial regulatory signals involving secondary structure” Molecular Biology, 2009, V. 43, No. 3, pp. 485–499.
Mikhailov K.V., Konstantinova A.V., Nikitin M.A., Troshin P.V., Rusin L., Lyubetsky V., Panchin Y., Mylnikov A.P., Moroz L.L., Kumar S., Aleoshin V.V., “The origin of Metazoa: a transition from temporal to spatial cell differentiation” BioEssays, 2009, V. 31, Issue 07, pp. 758–768. PMID: 19472368
Seliverstov A., Lysenko E., Lyubetsky V., “Rapid Evolution of Promoters for the Plastome Gene ndhF in Flowering Plants” Russian Journal of Plant Physiology, 2009, V. 56, No 6, pp. 837–844.
Seliverstov A., Lyubetsky V., "Mechanism of manganese transport regulation in Brucella involving a long RNA helix", Biophysics, 2009, V. 54, No 2, pp. 152-155.
Kanovei V., Lyubetsky V., Reasonable non-Radon-Nikodym ideals, Topology and its Applications, 2009, 156, 5, pp. 911–914. http://iitp.ru/ http://dx.doi.org/10.1016/j.topol.2008.11.008
Seliverstov A., Lyubetsky V., “On symmetric matrices with indeterminate leading diagonals” Problems of Information Transmission, 2009, V. 45. No. 3. pp. 258–263. http://mi.mathnet.ru/rus/ppi/v45/i3/p73

2008

Mikhailov K., Konstantinova A., Nikitin M., Troshin P., Rusin L., Lyubetsky V., Panchin Yu., Mylnikov A., Moroz L., Kumar S., Aleoshin V., “The Gastrea theory in postgenomic age: cell differentiation preceded multicellularity in early metazoan evolution” Proceedings of the ICREA Conference on the Origin and Early Evolution of Metazoans, Barcelona Spain, October 24–25 2008.
Rusin L., Lyubetsky V., Kumar S., “Phylogenomic pipeline and construction of a multi-gene dataset for Metazoa” Proceedings of the Annual Meeting of the Society for Molecular Biology and Evolution SMBE’2008, Barcelona Spain, June 5–8 2008.
Lyubetsky V., Seliverstov A., “On evolution of promoters in plastomes” Abstracts of The Sixth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2008), Novosibirsk, June 22–28, p. 217. http://www.bionet.nsc.ru/meeting/bgrs2008/BGRS2008_Proceedings.pdf
Lysenko E., Seliverstov A., Lyubetsky V., “Analysis of Sig3, Sig4 and Sig6 evolution on new genomic data” Abstracts of The Sixth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2008), Novosibirsk, June 22–28, p. 147. http://www.bionet.nsc.ru/meeting/bgrs2008/BGRS2008_Proceedings.pdf
Lopatovskaya K., Seliverstov A., Lyubetsky V., “RNA structures upstream the 2-isopropylmalate synthase encoding gene in alfa-proteobacteria and actinobacteria” Abstracts of The Sixth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2008), Novosibirsk, June 22–28, p. 144. http://www.bionet.nsc.ru/meeting/bgrs2008/BGRS2008_Proceedings.pdf
Gorbunov K., Kanovei V., Lyubetsky V., “Inferring optimal scenario of gene evolution along a species tree” Abstracts of The Sixth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2008), Novosibirsk, June 22–28, p. 90. http://www.bionet.nsc.ru/meeting/bgrs2008/BGRS2008_Proceedings.pdf
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
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
Glotova I., Lyubetsky V., ”Classical attenuation regulation model” Abstracts of The Sixth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2008), Novosibirsk, June 22–28, p. 85. http://www.bionet.nsc.ru/meeting/bgrs2008/BGRS2008_Proceedings.pdf
Lyubetsky V., “Models of gene expression regulation and evolution of regulatory elements” Proceeding of the Fifth International Conference of Applied Mathematics and Computing (Plovdiv, Bulgaria, August 12-18), 2008, pp. 17–19.
Friedman Sy-D., Kanovei V., Lyubetsky V., On ROD reducibility of equivalence relations in Solovay model, Methods of Logic in Mathematics V, Russian Academy of Sciences, Steklov Institute of Mathematics and Euler International Mathematical Institute, Proceedings of International Conference, St. Petersburg, Russia, June 1-7 2008, p. 6.
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.
Vitreschak A., Mironov A., Lyubetsky V., Gelfand M., “Comparative genomic analysis of T-box regulatory systems in bacteria” Ribonucleic acids molecular biology (RNA), V. 14, No. 4, April 2008, pp. 717-735. PMID: 18359782 http://rnajournal.cshlp.org/content/14/4/717.full
Kanovei V., Lyubetsky V., Borel reducibility as an additive property of domains, Studies in constructive mathematics and mathematical logic. Part XI, Zapiski Nauchnyh Seminarov POMI, Vol. 358, St.Petersburg, POMI, 2008, pp. 189–198. http://www.mathnet.ru/php/getFT.phtml?jrnid=znsl&paperid=2151&what=fullt&option_lang=rus

2007

Kanovei V., Lyubetsky V., Contemporary Set Theory: foundations of descriptive dynamics. (Russian.), Nauka, 2007. Monograph ISBN: 978-5-02-035577-4 http://www.ozon.ru/context/detail/id/3938505/
Seliverstov A., Lysenko E., Lyubetsky V., “Rapid evolution of promoters in Magnoliophyta chloroplasts” Proceedings of the international scientific conference “Computational Phylogenetics and Molecular Systematics, CPMS’2007”, November 16–19 2007, KMK Scientific Press, Moscow, pp. 286–292.
Vitreschak A., Lyubetsky V., Gelfand M., “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”, November 16–19 2007, KMK Scientific Press, Moscow, pp. 30–37.
Rusin L., Lyubetsky V., “Algorithms to model gene evolution events and reconstruct multigene phylogenies of species” Proceedings of the international conference “Computational Phylogenetics and Molecular Systematics, CPMS’2007”, Moscow, November 16–19 2007, KMK Scientific Press, P. 274–277.
Lyubetsky V., Seliverstov A., Gorbunov K., “Models of gene expression regulation and evolution of regulatory elements” Proceedings of the international scientific conference “Computational Phylogenetics and Molecular Systematics, CPMS’2007”, November 16–19 2007, KMK Scientific Press, Moscow, pp. 158–165.
Gorbunov K., Lyubetsky V., “Modeling evolution of the nucleotide sequence with secondary structure” Proceedings of the international scientific conference “Computational Phylogenetics and Molecular Systematics, CPMS’2007”, November 16–19 2007, KMK Scientific Press, Moscow, pp. 68–75.
Vitreschak A., Mironov A., Lyubetsky V., Gelfand M., “Function and evolutionary analysis of the T-box regulon in bacteria” Proceedings of International Moscow Conference on Computational Molecular Biology: ÌÑÑÌÂ’07, November 2007, pp. 309–310.
Rusin L., Lyubetsky V., “Phylogenomics of Metazoa: Constructing the Gene Set” Proceedings of International Moscow Conference on Computational Molecular Biology: ÌÑÑÌÂ’07, 2007, pp. 267–268.
Lyubetsky V., Seliverstov A., Zverkóv O., “RNA Structures upstream leuA Genes in α-Proteobacteria” Proceedings of International Moscow Conference on Computational Molecular Biology: ÌÑÑÌÂ’07, p. 191–192.
Lyubetsky V., Seliverstov A., “Long helices in mRNA processing” Proceedings of International Moscow Conference on Computational Molecular Biology: ÌÑÑÌÂ’07, 2007, pp. 189–191.
Gorbunov K., Radionov D., Laikova O., Gelfand M., Lyubetsky V., “Reconstruction of ancestral regulatory signal along a phylogeny” Proceedings of International Moscow Conference on Computational Molecular Biology: ÌÑÑÌÂ’07, 2007, pp. 111–113.
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/
Asarin E., Cachat Th., Seliverstov A., Touili T., Lyubetsky V., “Attenuation regulation as a term rewriting system” Article in the book “Algebraic Biology”, Lecture Notes in Computer Science 4545, Springer Berlin / Heidelberg, pp. 81–94, (Proceedings of the 2nd international conference on Algebraic biology: AB"07, Castle of Hagenberg, Austria, July 2-4 2007). http://arxiv.org/PS_cache/arxiv/pdf/0706/0706.2126v1.pdf
Gorbunov K., Lyubetsky V., “Reconstruction of ancestral regulatory signals along a transcription factor tree” Molecular Biology, 2007, V. 41, No. 5, pp. 836–842.PMID 18240574
Lyubetskaya E., Seliverstov A., Lyubetsky V., “The number of long hairpins in intergenic trailer regions of actinobacteria is far greater than in other genomic regions” Molecular Biology, 2007, V. 41, No. 4, pp. 670–673. PMID: 17936997
Seliverstov A., Lyubetsky V., “Regulation of proline biosynthesis in proteobacteria” Molecular Biology, 2007, V. 41, No. 3, pp. 513–515.
Kanovei V., Lyubetsky V., Problems of set-theoretic non-standard analysis, Russian Mathematical Surveys, 2007, 62(1), pp. 45–111. http://www.mathnet.ru/php/getFT.phtml?jrnid=rm&paperid=5588&what=fullt&option_lang=rus
Kanovei V., Lyubetsky V., Reeken M., On reducibility of monadic equivalence relations, Math. Notes, 2007, V. 81, No 6, pp. 757–766. http://www.mathnet.ru/links/4511ac41dc80f2435c1b79658aa17116/mzm3735.pdf
Lyubetsky V., Pirogov S., “Nonstandard representations of locally compact groups” Proceedings (Matematicheskie zametki) of RAS, 2007, 82, 3, pp. 341–346. http://www.springerlink.com/content/bj210202g2448945/fulltext.pdf
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

2006

Kanovei V., Lyubetsky V., A cofinal family of equivalence relations and Borel ideals generating them. Proc. Moscow Steklov Inst. Math., 2006, 252, pp. 85--103. http://mi.mathnet.ru/tm65
Seliverstov A., Zverkóv O., Lyubetsky V., “Translation of Some Chloroplast Genes Is Checked to Allow for Splicing and Editing” Biophysics, 2006, V. 51, Suppl. 1, pp. 18–22. (The supplement is published only in English by Pleiades Publishing, Inc.) http://www.springerlink.com/content/p7517k3187230111/
Lyubetsky V., Seliverstov A., “Modeling classic attenuation regulation of gene expression in bacteria” Proceedings of The Fifth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2006), Novosibirsk, July 16–22 2006, V. 1, pp. 102–105. http://www.bionet.nsc.ru/meeting/bgrs_proceedings/papers/2006/BGRS_2006_V1_022.pdf
Rusin L., Lyubetsky V., “Refinement of phylogenetic signal in multiple sequence alignment: results of simulation study” Proceedings of the Fifth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS"2006), Novosibirsk, Russia, July 16–22 2006, Vol. 3, P. 222–224. http://www.bionet.nsc.ru/meeting/bgrs_proceedings/papers/2006/BGRS_2006_V3_049.pdf
Gorbunov K., Lyubetsky V., “Inferring regulatiory signal profiles and evolutionary events” Proceedings of the Fifth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS"2006), Novosibirsk, Russia, July 16–22 2006, Vol. 3, P. 151–154. http://www.bionet.nsc.ru/meeting/bgrs_proceedings/papers/2006/BGRS_2006_V3_031.pdf
Lyubetskaya E., Seliverstov A., Lyubetsky V., “Detecting Hairpins in 3’-Untranslated Regions of Highly Expressed Genes in Actinobacteria” Proceedings of The Fifth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2006), Novosibirsk, July 16–22 2006, V. 1, pp. 99–101. http://www.bionet.nsc.ru/meeting/bgrs_proceedings/papers/2006/BGRS_2006_V1_021.pdf
Vitreschak A., Lyubetsky V., Gelfand M., “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, July 16–22 2006, V. 3, pp. 236–240. http://www.bionet.nsc.ru/meeting/bgrs_proceedings/papers/2006/BGRS_2006_V3_053.pdf
Seliverstov A., Lyubetsky V., “Translation Regulation in Chloroplasts” Proceedings of The Fifth International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2006), Novosibirsk, July 16–22 2006, V. 1, pp. 146–149. http://www.bionet.nsc.ru/meeting/bgrs_proceedings/papers/2006/BGRS_2006_V1_033.pdf
Kanovey V., Lyubetsky V., “A Cofinal Family of Equivalence Relations and Borel Ideals Generating Them” Proceedings of the Steklov Institute of Mathematics, 2006, V. 252, No 1, pp. 85–103. http://dx.doi.org/10.1134/S008154380601010X
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.
Lyubetsky V., Seliverstov A., “Computation of regulation efficiency of tryptophan biosynthesis in bacteria based on a model of classic attenuation” Information Processes, V. 6, No 1, pp. 55–57. http://www.jip.ru/2006/55-57-2006.pdf
Seliverstov A., Lyubetsky V., “An algorithm for detecting conserved motifs in nucleotide sequences” Information processes, 2006, V. 6, No 1, pp. 33–36. [in Russian] http://www.jip.ru/2006/33-36-2006.pdf
Leont'yev L., Lyubetsky V., “An algorithm of searching for proteins coherent with a given phylogenetic profile” Information Processes, 2006, V. 6, No 1, pp. 24–32. [in Russian]
Leont'yev L., Lyubetsky V., “Mass detection of conserved T-box containing regulatory structures: search results” Information Processes, 2006, V. 6, No 1, pp. 20–23. [in Russian]
Seliverstov A., Lyubetsky V., “Translation Regulation of Intron-containing Genes in Chloroplasts” Journal of Bioinformatics and Computational Biology, 2006, Vol. 4, No. 4, P. 783–792. PMID: 17007067
Lyubetsky V., Gorbunov K., Rusin L., V'yugin V., “Algorithms to reconstruct evolutionary events at molecular level and infer species phylogeny” An article in the book: “Bioinformatics of Genome Regulation and Structure II”, Springer Science & Business Media, Inc. 2006, pp. 189–204. http://www.springerlink.com/content/q67568k37g687647/

2005

Kanovei V., Lyubetsky V., Perfect subsets of invariant CA-sets. Math.Notes, 2005, 77, 3, pp. 307--310. http://mi.mathnet.ru/mz2496
Kanovei V., Lyubetsky V., A cofinal family of equivalence relations generated by Borel ideals. Logic Colloquium 2005. ASL European Summer meeting. July 28 -- August 3, Athens, Greece, pp. 83. Department of Mathematics, University of Athens, Greece, 2005.
Rusin L., V'yugin V., Lyubetsky V., “Phylogenetic signal vs. informational noise: combat for resolution” Proceedings of the international conference “9th Evolutionary Biology Meeting”, Marseille, France, September 21–23 2005.
Rusin L., V'yugin V., Lyubetsky V., “A method to optimize primary sequence data for enhanced tree resolution” Proceedings of the 4th European Conference on Computational Biology ECCB 2005, Madrid, Spain, September 28 – October 01 2005.
Lyubetsky V., “Mathematic models of evolution and gene expression regulation” Proceedings of the RAS conference “Mathematic models of pattern recognition”, November 20–26 2005, Moscow, pp. 366–368. [in Russian]
Leont'yev L., Seliverstov A., Lyubetsky V., “Transcription regulation with T-boxes” Proceedings of the RAS conference “Issues of control and modeling in complex systems, VII International conference”, 27 June – 1 July 2005, Samara, pp. 222–224. [in Russian]
Lyubetsky V., Seliverstov A., “Translation regulation in Actinobacteria and Cyano-bacteria based on mRNA secondary structures” Proceedings of the RAS conference “Issues of control and modeling in complex systems, VII International conference”, 27 June – 1 July 2005, Samara, pp. 216–221. [in Russian]
Pirogov S., Gorbunov K., Lyubetsky V., “Macro- and microconditions in a model of attenuator regulation of gene expression in bacteria” Proceedings of the RAS conference “Issues of control and modeling in complex systems, VII International conference”, 27 June – 1 July 2005, Samara, pp. 210–215. [in Russian]
Lyubetsky V., Pirogov S., “A model of attenuator regulation in bacteria” Proceedings of the RAS conference “Issues of control and modeling in complex systems, VII International conference”, 27 June – 1 July 2005, Samara, pp. 205–209. [in Russian]
Leont'yev L., Seliverstov A., Lyubetsky V., “An algorithm for mass searching of T-box structures in bacteria” MCCMB’05, 2005, pp. 202–206.
Lyubetsky V., V'yugin V., “A model for evolutionary event reconstruction” MCCMB’05, 2005, pp. 217–219.
Rusin L., V'yugin V., Lyubetsky V., “Enhancing phylogenetic inference: concentration of the signal in sequence data” MCCMB’05, 2005, pp. 342–346.
Gorbunov K., Lyubetsky V., “Algorithms to reconstruct ancestral gene evolution events” MCCMB’05, 2005, pp. 128–129.
Lyubetsky V., Seliverstov A., “RNA regulatory structures in Actinobacteria and Cyanobacteri” MCCMB’05, 2005, pp. 351–353.
Lyubetsky V., Pirogov S., “A model for bacterial gene expression regulation with secondary RNA structures” MCCMB’05, 2005, pp. 214–216.
Seliverstov A., Lyubetsky V., “Translation regulation in chloroplasts” Information Processes, 2005, V. 5, No 5, pp. 400–404. [in Russian] http://www.jip.ru/2005/400-404.pdf
Lyubetsky V., Seliverstov A., “Searching for conservative motifs in leader regions of genes on a fixed species tree” Information Processes, 2005, V. 5, No 4, pp. 265–270. [in Russian] http://www.jip.ru/2005/265-270.pdf
Lyubetsky V., Gorbunov K., V'yugin V., Rusin L., “Removing noise in protein multiple alignment” Information Processes, 2005, V. 5, No 5, pp. 380–391. [in Russian] http://www.jip.ru/2005/380-391.pdf
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
Leont'yev L., Lyubetsky V., Seliverstov A., “Algorithm for a Large-Scale Search for T-Box Transcription Regulation in Bacteria” Molecular biology, 2005, V. 39, No 6, pp. 946–948. PMID: 16358746
Lyubetsky V., Seliverstov A., “Expression Regulation of the Amino Acid Biosynthesis and Aminoacyl-tRNA Synthase Genes in Actinobacteria” Molecular biology, 2005, V. 39, No 6, pp. 942–945. PMID: 16358745
Seliverstov A., Putzer H., Gelfand M., Lyubetsky V., “Comparative analysis of RNA regulatory elements of amino acid metabolism genes in Actinobacteria” BMC Microbiology, 2005, 5:54. PMID: 16202131 http://www.biomedcentral.com/1471-2180/5/54
Gorbunov K., Lyubetsky V., “Identification of Ancestral Genes That Introduce Incongruence between Protein- and Species Trees” Molecular biology, 2005, V. 39, No 5, pp. 741–751. PMID: 16240718
Kanovey V., Lyubetsky V., “Perfect subsets of invariant CA-sets” Mathematical Notes, 2005, 77, 3–4, pp. 307–310. http://www.springerlink.com/content/hx77t845227524g5/fulltext.pdf
Kanovey V., Lyubetsky V., “A cofinal family of equivalence relations generated by Borel ideals” Conference of Association for Symbolic Logic, Greece, Logic Colloquium 2005, ASL European Summer Meeting, July 28 – August 2, Athens, Greece, University of Athens, Greece, pp. 83.

2004

Lyubetsky V., Seliverstov A., “Note on Cliques and Alignments” Information Processes, 2004, V. 4, No 3, ññ. 241–246. http://www.jip.ru/2004/241-246.pdf
Lyubetsky V., Gorbunov K., V'yugin V., “Inferring evolutionary events, quality of COGs, measuring the dissimilarity between gene and species trees” Presentation abstracts of the EMBO World Phylogenetic Course 2004. November 1–7 2004, Rio de Janeiro, Brazil.
Lyubetsky V., V'yugin V., “Complex phylogenetic analysis of the evolutionary history for some prokaryotes family” Biophysics (Moscow), 2004, V. 48, Suppl. 1 (2003), pp. 97–106.
Gorbunov K., Lyubetsky V., “New approach for detecting common secondary structures in a set of RNA sequences” Biophysics (Moscow), 2004, V. 48, Suppl. 1 (2003), pp. 56–67.
Seliverstov A., Lyubetsky V., “Properties of cysteine synthesis in Corynebacterium, Mycobacterium and Propionibacterium” Information Processes, 2004, V. 4, No 3, pp. 247–250. [in Russian] http://www.jip.ru/2004/247-250.pdf
Kanovei V., Lyubetsky V., On the set of constructive real numbers, Proceedings of the Steklov Mathematical Institute, V. 247, 2004, pp. 83–114. http://mi.mathnet.ru/tm12
Lyubetsky V., Seliverstov A., “Multifraction graphs with two vertices per fraction” Information processes, 2004, V. 4, No 2, pp. 127–132. [in Russian] http://www.jip.ru/2004/127-132.pdf
Lyubetsky V., “Fundamentals of elementary mathematics” Recommended as student textbook for universities and teacher"s training colleges, 2004, Iris-press, 625 pages. [in Russian] http://www.ozon.ru/context/detail/id/2194434/
Kusnetsov N., Gelfand M., Lyubetsky V., “Bioinformatics of Bacteria: central issues and model types” International conference “Issues of control and modeling in complex systems”, June 14–17 2004, RAS, pp. 5–11. [in Russian]
Lyubetskaya E., Leont'yev L., Shirshin M., Lyubetsky V., “An algorithm to search for complex signals” International conference “Issues of control and modeling in complex systems”, June 14–17 2004, RAS, pp. 158–162. [in Russian]
Lyubetsky V., Seliverstov A., “A geometric method of searching for clique in the graph and its application to signal detection” International conference “Issues of control and modeling in complex systems”, June 14–17 2004, RAS, pp. 154–157. [in Russian]
Gorbunov K., Lyubetsky V., “A model of biosynthesis regulation” Proceedings of VI International conference “Issues of control and modeling in complex systems”, June 14-17 2004, RAS, pp. 151–153. [in Russian]
Lyubetsky V., V'yugin V., “Measuring the Dissimilarity Between Gene and Species Trees, the Quality of a COG” Proceedings of the Fourth International Conference on Bionnformatics of Genome Regulation and Structure (BGRS’2004), Novosibirsk, July 25–30 2004, V. 2, pp. 281–284. http://www.bionet.nsc.ru/meeting/bgrs_proceedings/papers/2004/BGRS_2004_V2_069.pdf
Gorbunov K., Lyubetsky V., “A Model of Tryptophan Biosynthesis Regulation” Proceedings of the Fourth International Conference on Bionnformatics of Genome Regulation and Structure (BGRS’2004), Novosibirsk, July 25–30 2004, V. 2, pp. 53–55. http://www.bionet.nsc.ru/meeting/bgrs_proceedings/papers/2004/BGRS_2004_V2_011.pdf
Lyubetsky V., Seliverstov A., ”Amino Acid Biosynthesis Attenuation in Bacteria“ Proceedings of the Fourth International Conference on Bionnformatics of Genome Regulation and Structure (BGRS’2004), Novosibirsk, July 25–30 2004, V. 1, pp. 307–310. http://www.bionet.nsc.ru/meeting/bgrs_proceedings/papers/2004/BGRS_2004_V1_077.pdf
Leont'yev L., Shirshin M., Lyubetsky V., “Detection of Classical Attenuation in Bacterial Genomes” Proceedings of the Fourth International Conference on Bionnformatics of Genome Regulation and Structure (BGRS’2004), Novosibirsk, July 25–30 2004, V. 1, pp. 116–118. http://www.bionet.nsc.ru/meeting/bgrs_proceedings/papers/2004/BGRS_2004_V1_028.pdf
Vitreschak A., Lyubetskaya E., Shirshin M., Gelfand M., Lyubetsky V., “Attenuation regulation of amino acid biosynthetic operons in proteobacteria: comparative genomics analysis” FEMS Microbiological Letters, 2004, 234(2), pp. 357–370. PMID: 15135544 http://www.sciencedirect.com/science?_ob=ArticleURL&_udi=B6T2W-4C5VMJK-4&_user=10&_rdoc=1&_fmt=&_ori
Kusnetsov N., Lyubetsky V., Chernavsky A., “On the concept of informational interaction, 3: speech intellect” Information Processes, 2004, V. 4, No 2, pp. 117–126. [in Russian] http://www.jip.ru/2004/117-126.pdf

2003

Kanovei V., Lyubetsky V., On some classical problems of descriptive set theory. Russian Math. Surveys, 2003, 58, 5, pp. 839--927. http://www.mathnet.ru/php/archive.phtml?wshow=paper&jrnid=rm&paperid=666&option_lang=rus
Lyubetskaya E., Leont'yev L., Lyubetsky V., “Algorithm for detecting alternative secondary RNA structures and mass analysis attenuator regulation in proteobacteria” MCCMB’03, 2003, pp. 144–145.
Lyubetskaya E., Leont'yev L., Lyubetsky V., Searching for alternative RNA secondary structures in gamma-proteobacteria. Information processes, V. 3, No 1, 2003, p. 23-38. [in Russian]
Lyubetskaya E., Leont'yev L., Gelfand M., Lyubetsky V., “Search for Alternative RNA Secondary Structures Regulating Expression of Bacterial Genes” Molecular biology, V. 37, No 5, 2003, p. 707–715. PMID 14593920
Golubtsov P., Lyubetsky V., Informational structure of dynamic games and the information content available to players, Logic research, RAS, 2003, p. 36-47. [in Russian]
Kusnetsov N., Lyubetsky V., Chernavsky A., On the concept of informational interaction, 2: pre-psychic level. Information processes, V. 3, No 2, 2003, p. 1-22. [in Russian] http://www.jip.ru/2003/3-2-2003.htm
Kanovey V., Lyubetsky V., “On some classical problems of descriptive set theory” Russian mathematical surveys (Uspekhi matematicheskih nauk), V. 58, No 5, 2003, p. 839-927.
Lyubetsky V., V'yugin V., “Complex phylogenetic analysis of evolutionary history for prokaryotes families” MCCMB’03, 2003, pp. 146–147.
Gorbunov K., Lyubetsky V., “Detecting common secondary structures in a set of RNA sequences and its testing” MCCMB’03, 2003, pp. 83–85.
Danilova L., Lyubetsky V., Laikova O., “Computer detecting of glycerol-3-phosphate metabolism regulation in proteobacterial genomes” MCCMB’03, 2003, pp. 52–53.
Gelfand M., Lyubetsky V., DNA: from molecules toward genomes, from biochemical breakthroughs toward algorithmic analysis. Proceedings of the RAS (Vestnik RAN), No 11, 2003, p. 963-970. [in Russian]
Kanovey V., Lyubetsky V., Classic problems of descriptive set theory, Proceedings of IV international Smirnov conference, RAS, Moscow, 2003, p. 32-34. [in Russian]
Golubtsov P., Lyubetsky V., The result of an information process depends on the nature and content of information available to its participants. International conference of RAS, Samara, 2003, p. 445-453. [in Russian]
Gorbunov K., Lyubetsky V., Mironov A., “Search for Conserved Secondary Structures of RNA” Molecular biology, V. 37, No 5, 2003, p. 723-732. PMID 14593922
Kusnetsov N., Lyubetsky V., Chernavsky A., On the concept of informational interaction, 1: pre-psychic level. Information processes, V. 3, No 1, 2003, p. 1-22. [in Russian]
Lyubetsky V., Gorbunov K., Searching for alternative RNA secondary structures. Information processes, V. 3, No 1, 2003, p. 47-60. [in Russian]
Danilova L., Gelfand M., Lyubetsky V., Laikova O., “Computer-Assisted Analysis of Regulation of the Glycerol-3-Phosphate Metabolism in Genomes of Proteobacteria” Molecular Biology, V. 37, No 5, 2003, ññ. 716–722. PMID 14593921
V'yugin V., Gelfand M., Lyubetsky V., “Identification of Horizontal Gene Transfer from Phylogenetic Gene Trees” Molecular biology, V. 37, No 4, 2003, p. 571-584. PMID 12942641
Danilova L., Lyubetsky V., Gelfand M., “An algorithm for identification of regulatory signals in unaligned DNA sequences, its testing and parallel implementation” In Silico Biology, V. 3, No 1,2, 2003, pp. 33–47. PMID 12762844 http://www.bioinfo.de/isb/2003/03/0004
Lyubetsky V., V'yugin V., “Methods of horizontal gene transfer determination using phylogenetic data” In Silico Biology, V. 3, No 1,2, 2003, pp. 17–31. PMID 12762843 http://www.bioinfo.de/isb/2003/03/0003
Golubtsov P., Lyubetsky V., Stochastic dynamic games with information of various type. Information transmission problems, 2003, V 39, issue 3, p. 40-71. [in Russian]
Lyubetsky V., Seliverstov A., Some algorithms related to finite groups, Information processes, V 3, No 1, 2003, p. 39-46. [in Russian] http://www.jip.ru/2003/LS%2039-46.pdf

2002

Leont'yev L., Lyubetskaya E., Lyubetsky V., Description and performance of a modified algorithm to search for alternative RNA secondary structures. Information processes, 2002, V. 2, No 1, p. 100-105. [in Russian]
V'yugin V., Gelfand M., Lyubetsky V., “Tree Reconciliation: Reconstruction of Species Phylogeny by Phylogenetic Gene Trees” Molecular biology, 2002, V. 36, No 5, p. 650-658. PMID 12391844
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
Gorbunov K., Lyubetsky V., “An Algorithm for Searching for Common Secondary Structures in a Set of RNA Sequences” Proceedings of The Third International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2002), Novosibirsk, Russia, July 14–20, 2002, V. 3, pp. 20–22. http://www.bionet.nsc.ru/meeting/bgrs_proceedings/papers/2002/BGRS_2002_3_004.pdf
Lyubetskaya E., Lyubetsky V., “Algorithm for Searching for Alternative Secondary RNA Structures” Proceedings of The Third International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2002), Novosibirsk, Russia, July 14–20, 2002, V. 3, pp. 14–20. http://www.bionet.nsc.ru/meeting/bgrs_proceedings/papers/2002/BGRS_2002_3_002.pdf
Lyubetsky V., V'yugin V., “Method of Horizontal Gene Transfer Determination Using Phylogenetic Data” Proceedings of The Third International Conference on Bioinformatics of Genome Regulation and Structure (BGRS’2002), Novosibirsk, Russia, July 14–20, 2002, V. 2, pp. 61–63. http://www.bionet.nsc.ru/meeting/bgrs_proceedings/papers/2002/BGRS_2002_2_019.pdf
Kusnetsov N., Lyubetsky V., Chernavsky A., On the concept of informational interaction, 3: speech intellect. Proceedings of IV international conference of the RAS «Issues in control and modeling in complex systems», Samara, RAS, 2002, p. 7-17. [in Russian]
V'yugin V., Lyubetsky V., Some approaches to detect HGTs with phylogenetic data. Information processes, 2002, V. 2, No 1, p. 120-140. [in Russian]
Gorbunov K., Lyubetsky V., An algorithm to search for conservative RNA secondary structures in a database of RNA fragments. Information processes, 2002, V. 2, No 1, p. 55-58. [in Russian]

2001

Gorbunov K., Lyubetskaya E., Lyubetsky V., On two algorithms of searching for alternative RNA structures. Information processes, V. 1, No 2, 2001, p. 178-187. [in Russian]
Lyubetsky V., “First projective sets, AE-prefix and quantifiers elimination” Abstracts of International conference on Mathematical Logic, Algebra and Set theory dedicated to the 100-th anniversary of P.S. Novikov, August 27–31 2001, Steklov Mathematical Institute RAS, Moscow, 2001, p. 27.
Kusnetsov N., Lyubetsky V., Chernavsky A., On the concept of informational interaction, 2: pre-speech intellect. Proceedings of III international conference of the RAS «Issues in control and modeling in complex systems», Samara, RAS, 2001, p. 25-42. [in Russian]
Danilova L., Lyubetsky V., An algorithm to detect regulatory signal: testing and biological applications. Proceedings of III international conference of the RAS «Issues in control and modeling in complex systems», Samara, RAS, 2001, p. 632-634. [in Russian]
Lyubetsky V., Seliverstov A., A probabilistic algorithm of solving an NP-complete problem, Proceedings of III international conference «Smirnov readings» of RAS, Moscow, 2001, p. 47-49. [in Russian]
V'yugin V., Lyubetsky V., An algorithm to detect horizontal gene transfer events with multiple gene trees. Information processes, V. 1, No 2, 2001, p. 167-177. [in Russian]
Danilova L., Gorbunov K., Gelfand M., Lyubetsky V., “Algorithm of Regulatory Signal Recognition in DNA Sequences” Molecular Biology, V. 35, No 6, 2001, p. 841-848. PMID 11771146
Gelfand M., V'yugin V., Lyubetsky V., An approach to infer evolutionary species tree from multiple gene data. Information processes, V. 1, No 1, 2001, p. 64-77. [in Russian]
Danilova L., Gorbunov K., Gelfand M., Lyubetsky V., An algorithm to detect regulatory signals in DNA sequence data (1). Information processes, V. 1, No 1, 2001, p. 56-63. [in Russian]

2000

Lyubetsky V., Larijani M.J.A., “Topics in Classical and Intuitionistic Model Theory” Gardariki, Moscow, 2000, 390 pages. Monograph
Vereschagin N., Lyubetsky V., An algorithm of inferring RNA secondary structure. Proceedings of scientific workshop of the Logic Center of RAS, Issue 14, Moscow, RAS Press, 2000, p. 99-109. [in Russian]
Gorbunov K., Lyubetsky V., On an algorithm of detecting regulatory signal in sequence data. Logic research. Issue 7, Moscow, Nauka, 2000, p. 159-163. [in Russian]
V'yugin V., Gorbunov K., Lyubetsky V., Algorithms of detecting regulatory signal and constructing evolutionary trees. Proceedings of II international conference of the RAS «Issues in control and modeling in complex systems», Samara, 2000, RAS Press, p. 130-137. [in Russian]
Kusnetsov N., Lyubetsky V., Chernavsky A., On the concept of informational interaction, 1: pre-psychic bioinformatics. Proceedings of II international conference of the RAS «Issues in control and modeling in complex systems», Samara, 2000, RAS Press, p. 8-20. [in Russian]

1999

Kuznetsov N., Lyubetsky V., “Computer Logic in Information Processes” Information transmission problems, RAS, V. 35, issue 2, 1999, p. 107-111. [in Russian] http://mi.mathnet.ru/rus/ppi/v35/i2/p107
Lyubetsky V., “Logic models of informational interaction processes” Proceedings of I international conference of the RAS “Issues in control and modeling in complex systems”, Samara, 1999, p. 133-145. [in Russian]

1997

Lyubetsky V., “Transfer theorems and the algebra of modal operators” Algebra and Logic, 1997, Vol. 36, No. 3, pp. 169–181. http://www.springerlink.com/content/t6335872j077x161/

1996

Lyubetsky V., “On Some Applications of the Semantic Evaluation Method” Problems of Information Transmission, 1996, 32:3, pp. 290–302. http://mi.mathnet.ru/rus/ppi/v32/i3/p82

1993

Lyubetsky V., “On One Approach to Modelling Intelligent Systems” Problems of Information Transmission, 1993, 29:3, pp. 295–297. http://mi.mathnet.ru/rus/ppi/v29/i3/p107

1992

Lyubetsky V., “Heyting-Valued Analysis: P. S. Novikov’s Hypotheses” Contemporary Mathematics, 1993, V. 131, Pt. 3, PP. 565–583.

1991

Lyubetsky V., “Transfer from deducibility in the classical set theory to deducibility in intuitionistic set theory for the language of rings” Algebra and Logic, 1991, Vol. 30, No. 6, pp. 427–439. http://www.springerlink.com/content/v7n82v773n44h430/
Lyubetsky V., “Intuitionistic theory of algebraic systems and heyting-valid analysis” Algebra and Logic, 1991, Vol. 30, No. 3, pp. 208– 216. http://www.springerlink.com/content/q8056m2630165072/

1990

Lyubetsky V., “Model-completeness of a theory and evaluation of formulas” Algebra and Logic, 1990, Vol. 29, No. 1, pp. 10–22. http://www.springerlink.com/content/jw471283h3tqh831/

1989

Lyubetsky V., “Valuations and sheaves. On some questions of non-standard analysis” Russian Mathematical Surveys, 1989, Vol. 44, No. 4, pp. 37–113. http://mi.mathnet.ru/rus/umn/v44/i4/p99

1988

Lyubetsky V., “On some applications of Heyting-valued analysis II” Article in the book COLOG-88, Lecture Notes in Computer Science, Vol. 417, Springer, 1990, P. 122–145, Proceedings of the International Conference on Computer Logic, Tallinn, USSR, December 12–16 1988