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For more information about our developed
methods of the DNA similarity search please see:
2.
E.V.Korotkov "New family wide spread mirror-reflected
MB1 repeats in human genome", Molec.Biol. (USSR), V.25, P.250-263, 1991
- E.V.Korotkov "MB1 family repeats in genomes of
many mammals", Izvestia of Akad. Sci. of USA, Seria Biology, No.4,
546-557, 1992.
- Korotkov E.V. "Fast method of homology and
purine pyrimidine mutual relations between DNA sequences search"
DNA Sequence V.4, 413-415, 1994
- Korotkov E.V., Korotkova M.A."Enlarged
similarity of nucleic acids sequences", DNA Research, v.3, N.3,
157-164, 1996
- Korotkov E.V. and Korotkova M.A. УMIRs: family
repeats that is common for many vertebratesФ. Mol.Biol. v.34.,348-353, 2000.
- Korotkov E.V. and Korotkova M.A. УStudy of the
presence MIRs in the human 22 chromosomeФ. Mol.Biol. , v.34, 376-382,
2001
- Chaley M.B., Korotkov E.V. УEvolution of MIR elements
located in the coding regions of human genomeФ, Mol. Biol.а v.35, 874-882, 2001.
- Data banks
- Chaley M.B.,
Frenkel F.E., Korotkov E.V. Skryabin K.G. Revealing and Functional Analysis
of tRNA-like Sequences in Various Genomes. Gene, 335, 57-71, 2004
а
а
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More
details for mathematical method of Informational Decomposition (ID) and data
bases you could receive from publications:
1.
http://bioinf.narod.ru\Pub/korotkov.pdf
2.
Korotkov E.V. and Korotkova M.A. "DNA regions with
latent periodicity in some human clones", DNA Sequence, V.5, pp.353-358,
1995.
3.
Korotkov E.V., Korotkova M.A., Tulko J.S. " Latent
sequence perio- dicity of some oncogenes and DNA-binding protein genes",
CABIOS,v.13, pp.37-44, 1997
4.
Korotkova M.A., Korotkov E.V. and RudenkoV.M. "Latent
periodicity of protein sequences", Journal of Molecular Modelling, v.5,
pp.103-115, 1999
5.
Korotkov E.V., Korotkova M.A., Rudenko V.M. and Skryabin
K.G., "Latent periodicity of the protein sequences" Molecularnya
Biologya (Russian), v.33, pp.611-617, 1999.
6. Chaley M.B., Korotkov E.V. and Skryabin K.G. "Method reavealing
latent periodicity of the nucleotide sequences modified for a case of small
samples" DNA Research, 6, 153-163, 1999.
7.
Chaley MB, Korotkov EV, Kudryashov NA УLatent periodicity
of 21 bases typical for MCP II gene is widely present in various genesФ DNA
Sequence, 14, 33-52,2003
8.
Korotkov EV, Korotkova MA, Kudryashov NA Information
decomposition of symbolical texts. Los-Alamos Arxiv,а 0302195
9.
Korotkov EV, Korotkova MA, Kudryshov NA Information
decomposition method for analysis of symbolical sequences. Physical Letters A, v.312, 198-210, 2003.
10. Korotkov EV, Korotkova MA, Kudryashov NA
лInformation approach for determination of periodicity of genetic texts╗
Molec. Biology (Russian) v.37, N3, pp.436-451, 2003,
11. аLaskin AA, Chaley MB, Korotkov EV and Kudryashov NA
Identification of NAD+ regions in the amino acid sequences of different
proteinsФ Molec. Biology (Russian) v.37, N4, pp.663-673, 2003.
12.
аA.A. Laskin, E.V. Korotkov, N.A. Kudryashovа ФLatent periodicity of many domains in
rotein sequences reflects their structure, function and evolutionФ.а pp. 135-144, in УBIOINFORMATICS OF GENOME
REGULATION AND STRUCTUREФ, N.Kolchanov andа
R.Hofestaedt edТs, Kluwer press, 2004
13.
Korotkov E.V. Enzyme as a thermal resonance pump.
14.
аLaskin AA, Kudryashov NA, Skryabin KG,
Korotkov EV.а Latent periodicity of serine-threonine
and tyrosine protein kinases and other protein families. Comput Biol Chem.
2005 29(3):229-243
15.
Turutina VP, Laskin AA,а
Skryabin K.G., Kudryashov N.A. and Korotkov EV,а "Latent periodicity of many protein
families", Biochemistry, 2006, 71,18-31.
16.
Shelenkov A, Skryabin K, Korotkov EV.ааааааааа Search and classification of
potential minisatellite sequences from bacterial genomes. DNA Res. v.
13(3):89-102. 2006.
17.
Turutina VP, Laskin AA,а
Skryabin K.G., Kudryashov N.A. and Korotkov EV, "Latent
periodicity of 94 protein families", J. Compt. Biol. 2006, v.13:946-964.
18.
Laskin AA, Skryabin KG, Korotkov EV Latent periodicity of
protein families, identified with the indel-aware algorithm.J Proteome Res.
2007 v.6, 862-868.
19.
Shelenkov A, Korotkov A, Korotkov E. MMsat-a database of
potential micro- and minisatellites. 409, 53-60, Gene. 2008.
20.
Shelenkov AA, Skryabin KG, Korotkov EV Search and
classification of potential minisatellite sequences from plants genomes,
Genetikaа (Rus),а v.44, pp.120-136, 2008.
21.
аShelenkov AA, Korotkov EV The search of
regular sequences in promoters from different species with help of run test.
Mathematical Biology and Bioinformatics, v.3, N.1, pp.1-15, 2008.
22.
Frenkel FE, Korotkov EV. Classification analysis of
triplet periodicity in protein-coding regions of genes. Gene. 2008.
15;421(1-2):52-60. 2008.
23.
F. E. Frenkel', E. V. Korotkovаа Classification of triplet periodicity of
gene sequences form KEGG data bank.аа
Molekulyarnaya biologiya, v.42, ╣ 4, pp. 707-720. 2008а
24.
Korotkov E.V., Rudenko V.M. УPhase shift
of triplet periodicityin gene sequences.а
Mathematical Biology and Bioinformatics. (Russian) а2009.v. 4. ╣
2. pp. 66-80.
25.
Shelenkov A, Korotkov E. Search of regular sequences in
promoters from eukaryotic genomes. Comput Biol Chem. 2009;33:196-204
26.
Frenkel FE, Korotkov EV. Using triplet
periodicity of nucleotide sequences for finding potential reading frame
shifts in genes. DNA Res. 2009;16:105-114.
27. EV Korotkov, MA Korotkova аУBioinformatics andа search of shifts of reading frame in genesФ
Information technologies and computation systems (Russian), ╣1, pp.1-23,
2010.
28. EV Korotkov, MA Korotkova лStudy of the triplet periodicity phase
shifts in genes, Journal of Integrative Bioinformatics, v.7,131-141, 2010
29. Y.M..Suvorova, Korotkov E.V. Splicing of the triplet
periodicity in genes from different species. In Proceedings on the 6th International Symposium of Health Informatics and
Bioinformatics, Izmir, Turkey, 2-5 May 2011 (http://hibit.iyte.edu.tr),
pp.246-250
30.
Rudenko V.M. and Korotkov E.V.
УSearch of latent periodicity in the financial time series by the cyclic
decomposition methodФ, Applied Informatics (in Russian), ╣ 3, 2011 а
31.
Korotkov E.V. Rudenko V.M and Suvoriva Yu.G.
УUsing of triplet periodicity of DNA sequences for search of spliced genesФ
in press.
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