Vassily Lyubetsky (Liubetskii, Liubetskiii)

Summary

Affiliation: Institute for information transmission problems, Russian Academy of Sciences
Location: Moscow, Russia
URL: http://lab6.iitp.ru
Grants:
Since 2001:
11771146 12391844 12762843 12762844 12942641 14593920 14593921 14593922 15135544 16240718 16202131 16358745 16358746 17007067 16813169 17140387 17685234 17936997 17477496 18240574 18415978 18359782 19402531 19472368 19548539 19899641 20198868 20459727 21255416
Out of PubMed:
Gorbunov K.Yu., Lyubetsky V.A. New approach for detecting common secondary structures in a set of RNA sequences. Biophysics (Moscow), vol. 48, Suppl. 1 (2003), 2004.
Lyubetsky V.A., Vyugin V.V. Complex phylogenetic analysis of the evolutionary history for some prokaryotes family. Biophysics (Moscow), vol. 48, Suppl. 1 (2003), 2004, p. 97

Publications

  1. pmc Ribosome reinitiation at leader peptides increases translation of bacterial proteins
    Semen A Korolev
    Institute for Information Transmission Problems of the Russian Academy of Sciences Kharkevich Institute, Bolshoy Karetny per 19, Build 1, Moscow, 127051, Russia
    Biol Direct 11:20. 2016
  2. pmc A method for identification of highly conserved elements and evolutionary analysis of superphylum Alveolata
    Lev I Rubanov
    Institute for Information Transmission Problems Kharkevich Institute, Russian Academy of Sciences, Bolshoi Karetnyi per 19, Building 1, Moscow, 127051, Russia
    BMC Bioinformatics 17:385. 2016
  3. pmc Algorithms for reconstruction of chromosomal structures
    Vassily Lyubetsky
    Institute for Information Transmission Problems of the Russian Academy of Sciences Kharkevich Institute, Bolshoi Karetnyi lane, 19, 127051, Moscow, Russia
    BMC Bioinformatics 17:40. 2016
  4. pmc Comparative analysis of RNA regulatory elements of amino acid metabolism genes in Actinobacteria
    Alexander V Seliverstov
    Institute for Information Transmission Problems, RAS, Bolshoi Karetny pereulok 19, Moscow, 127994, Russia
    BMC Microbiol 5:54. 2005
  5. pmc Transcription regulation of plastid genes involved in sulfate transport in Viridiplantae
    Vassily A Lyubetsky
    Institute for Information Transmission Problems Kharkevich Institute, The Russian Academy of Sciences, Moscow 127994, Russia
    Biomed Res Int 2013:413450. 2013
  6. doi request reprint Gene expression regulation of the PF00480 or PF14340 domain proteins suggests their involvement in sulfur metabolism
    Vassily A Lyubetsky
    Institute for Information Transmission Problems of the Russian Academy of Sciences Kharkevich Institute, Russia Electronic address
    Comput Biol Chem 49:7-13. 2014
  7. pmc Modeling RNA polymerase interaction in mitochondria of chordates
    Vassily A Lyubetsky
    Institute for Information Transmission Problems of the Russian Academy of Sciences Kharkevich Institute, 19 Bolshoy Karetny per, Moscow, 127994, Russia
    Biol Direct 7:26. 2012
  8. pmc Cubic time algorithms of amalgamating gene trees and building evolutionary scenarios
    Vassily A Lyubetsky
    Institute for Information Transmission Problems, The Russian Academy of Sciences Kharkevich Institute, Moscow, Russia
    Biol Direct 7:48. 2012
  9. pmc Lack of conservation of bacterial type promoters in plastids of Streptophyta
    Vassily A Lyubetsky
    Institute for Information Transmission Problems of the Russian Academy of Sciences, Moscow, 127994, Russia
    Biol Direct 5:34. 2010
  10. pmc Modeling RNA polymerase competition: the effect of σ-subunit knockout and heat shock on gene transcription level
    Vassily A Lyubetsky
    Institute for Information Transmission Problems of the Russian Academy of Sciences Kharkevich Institute, 19 Bolshoy Karetny per, Moscow, Russia
    Biol Direct 6:3. 2011

Collaborators

Detail Information

Publications15

  1. pmc Ribosome reinitiation at leader peptides increases translation of bacterial proteins
    Semen A Korolev
    Institute for Information Transmission Problems of the Russian Academy of Sciences Kharkevich Institute, Bolshoy Karetny per 19, Build 1, Moscow, 127051, Russia
    Biol Direct 11:20. 2016
    ..Generally, this peak is typical for many bacteria. Some leader genes located close to a structural gene probably play a regulatory role as well...
  2. pmc A method for identification of highly conserved elements and evolutionary analysis of superphylum Alveolata
    Lev I Rubanov
    Institute for Information Transmission Problems Kharkevich Institute, Russian Academy of Sciences, Bolshoi Karetnyi per 19, Building 1, Moscow, 127051, Russia
    BMC Bioinformatics 17:385. 2016
    ..This complicates the identification of highly conserved elements in alveolates, which is overcome by the proposed algorithm...
  3. pmc Algorithms for reconstruction of chromosomal structures
    Vassily Lyubetsky
    Institute for Information Transmission Problems of the Russian Academy of Sciences Kharkevich Institute, Bolshoi Karetnyi lane, 19, 127051, Moscow, Russia
    BMC Bioinformatics 17:40. 2016
    ..The algorithms naturally start from the calculation of both the distance between two structures and the shortest sequence of operations transforming one structure into another. Such calculation per se is an NP-hard problem...
  4. pmc Comparative analysis of RNA regulatory elements of amino acid metabolism genes in Actinobacteria
    Alexander V Seliverstov
    Institute for Information Transmission Problems, RAS, Bolshoi Karetny pereulok 19, Moscow, 127994, Russia
    BMC Microbiol 5:54. 2005
    ..This mechanism has been studied in detail using experimental and computational approaches in proteobacteria and Firmicutes, but not in other groups of bacteria...
  5. pmc Transcription regulation of plastid genes involved in sulfate transport in Viridiplantae
    Vassily A Lyubetsky
    Institute for Information Transmission Problems Kharkevich Institute, The Russian Academy of Sciences, Moscow 127994, Russia
    Biomed Res Int 2013:413450. 2013
    ..and other species of the Viridiplantae. A one-box conserved motif with the consensus TAAWATGATT is found near promoters upstream the cysT and cysA genes in many species. In certain cases, the motif is repeated two or three times. ..
  6. doi request reprint Gene expression regulation of the PF00480 or PF14340 domain proteins suggests their involvement in sulfur metabolism
    Vassily A Lyubetsky
    Institute for Information Transmission Problems of the Russian Academy of Sciences Kharkevich Institute, Russia Electronic address
    Comput Biol Chem 49:7-13. 2014
    ..We also surmise the affinity of some transporters to sulfur-containing compounds. The obtained results considerably extend earlier large-scale studies of Rho-dependent and classic transcription attenuations. ..
  7. pmc Modeling RNA polymerase interaction in mitochondria of chordates
    Vassily A Lyubetsky
    Institute for Information Transmission Problems of the Russian Academy of Sciences Kharkevich Institute, 19 Bolshoy Karetny per, Moscow, 127994, Russia
    Biol Direct 7:26. 2012
    ..Notably, mitochondria possess only phage-type polymerases. We consider the entire mitochondrial genome so that our model allows RNA polymerases to complete more than one circle on the DNA strand...
  8. pmc Cubic time algorithms of amalgamating gene trees and building evolutionary scenarios
    Vassily A Lyubetsky
    Institute for Information Transmission Problems, The Russian Academy of Sciences Kharkevich Institute, Moscow, Russia
    Biol Direct 7:48. 2012
    ..The classical problem is to minimize the total cost, where S runs over the set of all trees that contain an exhaustive non-redundant set of species from all input G(j)...
  9. pmc Lack of conservation of bacterial type promoters in plastids of Streptophyta
    Vassily A Lyubetsky
    Institute for Information Transmission Problems of the Russian Academy of Sciences, Moscow, 127994, Russia
    Biol Direct 5:34. 2010
    ....
  10. pmc Modeling RNA polymerase competition: the effect of σ-subunit knockout and heat shock on gene transcription level
    Vassily A Lyubetsky
    Institute for Information Transmission Problems of the Russian Academy of Sciences Kharkevich Institute, 19 Bolshoy Karetny per, Moscow, Russia
    Biol Direct 6:3. 2011
    ..Among such processes is transcription in the presence of competing RNA polymerases. This process involves RNA polymerases collision followed by transcription termination...
  11. ncbi request reprint Methods of horizontal gene transfer determination using phylogenetic data
    Vassily A Lyubetsky
    Institute for Information Transmission Problems RAS, Moscow, Russia
    In Silico Biol 3:17-31. 2003
    ..We also present a computer technology intended to determine horizontally transferred genes. Some application results of the technology, based on comparative analysis of protein and species trees, are given...
  12. ncbi request reprint Modeling classic attenuation regulation of gene expression in bacteria
    Vassily A Lyubetsky
    Institute for Information Transmission Problems RAS, Moscow, 127994, Russia
    J Bioinform Comput Biol 5:155-80. 2007
    ....
  13. ncbi request reprint An algorithm for identification of regulatory signals in unaligned DNA sequences, its testing and parallel implementation
    Ludmila V Danilova
    Institute for Information Transmission Problems RAS, Moscow, 101447, Russia
    In Silico Biol 3:33-47. 2003
    ..This implementation is not strictly bounded by the number of available processors. The computation speed linearly depends on the number of processors...
  14. pmc Comparative genomic analysis of T-box regulatory systems in bacteria
    Alexey G Vitreschak
    Institute for Information Transmission Problems The Kharkevich Institute, Russian Academy of Sciences, Moscow 127994, Russia
    RNA 14:717-35. 2008
    ..Finally, we described a new structural class of T-boxes containing duplicated terminator-antiterminator elements and unusual reduced T-boxes regulating initiation of translation in the Actinobacteria...
  15. ncbi request reprint Attenuation regulation of amino acid biosynthetic operons in proteobacteria: comparative genomics analysis
    Alexey G Vitreschak
    Institute for Information Transmission Problems, Russian Academy of Sciences, Bolshoi Karetnyi per 19, Moscow 127994, GSP 4, Russia
    FEMS Microbiol Lett 234:357-70. 2004
    ..Histidine biosynthetic operons his were predicted to be regulated by histidine-dependent attenuators in Bacillus cereus and Clostridium difficile, and by histidine T-boxes in L. lactis and Streptococcus mutans...