Matematicheskaya Biologiya i Bioinformatika
RUS  ENG    JOURNALS   PEOPLE   ORGANISATIONS   CONFERENCES   SEMINARS   VIDEO LIBRARY   PACKAGE AMSBIB  
General information
Latest issue
Archive
Impact factor

Search papers
Search references

RSS
Latest issue
Current issues
Archive issues
What is RSS



Mat. Biolog. Bioinform.:
Year:
Volume:
Issue:
Page:
Find






Personal entry:
Login:
Password:
Save password
Enter
Forgotten password?
Register


Matematicheskaya Biologiya i Bioinformatika, 2018, Volume 13, Issue Suppl., Pages t84–t103
DOI: https://doi.org/10.17537/2018.13.t84
(Mi mbb365)
 

Translations of Published Articles

Investigation of latent periodicity phenomenon in the genomes of eukaryotic organisms

M. B. Chaleya, V. A. Kutyrkinb, E. I. Teplukhinaa, G. E. Tyulbashevaa, N. N. Nazipovaa

a Institute of Mathematical Problems of Biology, Russian Academy of Sciences, Pushchino, Russia
b Moscow State Technical University n.a. N.E. Bauman, Moscow, Russia
References:
Abstract: Data analysis is presented for the HeteroGenome database first release which contains latent periodicity regions revealed in a number of eukaryotic organisms. Tandem repeats with different integrity of pattern copies, including the highly diverged repeats, have been identified in the genomes of S. cerevisiae, A. thaliana, C. elegans and D. melanogaster. Such data were obtained with the help of original spectral-statistical approach to searching for reliable regions of the latent periodicity in DNA sequences. Special structure of data presentation, consisting of the two levels, was proposed. On the first, nonredundant level the latent periodicity regions are considered as a whole and, additionally, on the second level only conservative elements of their periodic structures are shown. Such data presentation allowed estimating share of the periodicity regions as nearly 10% of the length in analyzed genomes. This estimate was deduced basing on the first level data. Quantitative and qualitative investigation of the latent periodicity regions, their divergence level over all chromosomes of the organisms considered, revealed characteristic types of periodicity in the genome of every organism. Histograms of density distribution for the latent periodicity regions on each chromosome of the genomes analyzed were obtained. Repertoire of period lengths were determinated. The HeteroGenome database has additional possibilities for inner data analysis and is accessible by URL: http://www.jcbi.ru/lp_baze/.
Key words: latent periodicity, approximate tandem repeats, genome analysis.
Funding agency Grant number
Russian Foundation for Basic Research 12-07-00530_а
The work has been partially supported by grant № 12-07-00530 of Russian foundation for basic research (RFBR).
Received 23.07.2018, Published 09.08.2018
Document Type: Article
UDC: 577.322
Language: English
Citation: M. B. Chaley, V. A. Kutyrkin, E. I. Teplukhina, G. E. Tyulbasheva, N. N. Nazipova, “Investigation of latent periodicity phenomenon in the genomes of eukaryotic organisms”, Mat. Biolog. Bioinform., 13, Suppl. (2018), t84–t103
Citation in format AMSBIB
\Bibitem{ChaKutTep18}
\by M.~B.~Chaley, V.~A.~Kutyrkin, E.~I.~Teplukhina, G.~E.~Tyulbasheva, N.~N.~Nazipova
\paper Investigation of latent periodicity phenomenon in the genomes of eukaryotic organisms
\jour Mat. Biolog. Bioinform.
\yr 2018
\vol 13
\pages t84--t103
\issueinfo Suppl.
\mathnet{http://mi.mathnet.ru/mbb365}
\crossref{https://doi.org/10.17537/2018.13.t84}
Linking options:
  • https://www.mathnet.ru/eng/mbb365
  • https://www.mathnet.ru/eng/mbb/v13/i3/p84
    Translation
    Citing articles in Google Scholar: Russian citations, English citations
    Related articles in Google Scholar: Russian articles, English articles
    Statistics & downloads:
    Abstract page:309
    Full-text PDF :108
    References:30
     
      Contact us:
     Terms of Use  Registration to the website  Logotypes © Steklov Mathematical Institute RAS, 2024