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ORCIDMikhail P. Ponomarenko
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2010 – 2019
- 2015
[j20]Petr M. Ponomarenko, Mikhail P. Ponomarenko
:
Sequence-based prediction of transcription upregulation by auxin in plants. J. Bioinform. Comput. Biol. 13(1): 1540009:1-1540009:24 (2015)- 2013
- [j19]Victoria V. Mironova, Nadezda A. Omelyanchuk, Maria S. Savina, Petr M. Ponomarenko, Mikhail P. Ponomarenko, Vitali A. Likhoshvai, Nikolay A. Kolchanov:
How Multiple Auxin Responsive Elements May Interact in plant promoters: a Reverse Problem solution. J. Bioinform. Comput. Biol. 11(1) (2013) - 2010
- [j18]Valentin V. Suslov, Petr M. Ponomarenko, Vadim M. Efimov, Ludmila K. Savinkova, Mikhail P. Ponomarenko, Nikolay A. Kolchanov:
Snps in the HIV-1 TATA Box and the Aids pandemic. J. Bioinform. Comput. Biol. 8(3): 607-625 (2010)
2000 – 2009
- 2005
- [j17]Julia V. Ponomarenko, Galina Orlova, Tatyana I. Merkulova, Gennady V. Vasiliev, Mikhail P. Ponomarenko:
Mining Genome Variation to Associate Genetic Disease with Mutation Alterations and Ortho/Paralogous Polimorphysms in Transcription Factor Binding Site. Int. J. Artif. Intell. Tools 14(4): 599-620 (2005) - 2003
- [j16]Julia V. Ponomarenko, Tatyana I. Merkulova, Galina Orlova, Oleg N. Fokin, Elena Gorshkova, Anatoly S. Frolov, Vadim P. Valuev, Mikhail P. Ponomarenko:
rSNP_Guide, a database system for analysis of transcription factor binding to DNA with variations: application to genome annotation. Nucleic Acids Res. 31(1): 118-121 (2003) - 2002
- [j15]Julia V. Ponomarenko, Tatyana I. Merkulova, Galina Orlova, Oleg N. Fokin, Elena Gorshkova, Mikhail P. Ponomarenko:
Mining DNA sequences to predict sites which mutations cause genetic diseases. Knowl. Based Syst. 15(4): 225-233 (2002) - [j14]Julia V. Ponomarenko, Galina Orlova, Anatoly S. Frolov, Mikhail S. Gelfand, Mikhail P. Ponomarenko:
SELEX_DB: a database on in vitro selected oligomers adapted for recognizing natural sites and for analyzing both SNPs and site-directed mutagenesis data. Nucleic Acids Res. 30(1): 195-199 (2002) - [j13]Vadim P. Valuev, Dmitry A. Afonnikov, Mikhail P. Ponomarenko, Luciano Milanesi, Nikolay A. Kolchanov:
ASPD (Artificially Selected Proteins/Peptides Database): a database of proteins and peptides evolved in vitro. Nucleic Acids Res. 30(1): 200-202 (2002) - 2001
- [j12]Julia V. Ponomarenko, Dagmara P. Furman, Anatoly S. Frolov, Nikolay L. Podkolodny, Galina Orlova, Mikhail P. Ponomarenko, Nikolay A. Kolchanov, Akinori Sarai:
ACTIVITY: a database on DNA/RNA sites activity adapted to apply sequence-activity relationships from one system to another. Nucleic Acids Res. 29(1): 284-287 (2001) - [j11]Julia V. Ponomarenko, Tatyana I. Merkulova, Gennady V. Vasiliev, Zoya B. Levashova, Galina Orlova, Sergey V. Lavryushev, Oleg N. Fokin, Mikhail P. Ponomarenko, Anatoly S. Frolov, Akinori Sarai:
rSNP_Guide, a database system for analysis of transcription factor binding to target sequences: application to SNPs and site-directed mutations. Nucleic Acids Res. 29(1): 312-316 (2001) - [c5]Julia V. Ponomarenko, Tatyana I. Merkulova, Galina Orlova, Elena Gorshkova, Oleg N. Fokin, Mikhail P. Ponomarenko:
Mining Genome Variation to Associate Disease with Transcription Factor Binding Site Alteration. BIBE 2001: 153-160 - [c4]Julia V. Ponomarenko, Tatyana I. Merkulova, Galina Orlova, Oleg N. Fokin, Elena Gorshkova, Mikhail P. Ponomarenko:
Mining SNPs for Associating Disease Penetration with Transcription Factor Binding Site Alterations. German Conference on Bioinformatics 2001: 112-117 - 2000
- [j10]Julia V. Ponomarenko, Galina Orlova, Mikhail P. Ponomarenko, Sergey V. Lavryushev, Anatoly S. Frolov, Svetlana V. Zybova, Nikolay A. Kolchanov:
SELEX_DB: an activated database on selected randomized DNA/RNA sequences addressed to genomic sequence annotation. Nucleic Acids Res. 28(1): 205-208 (2000) - [j9]Fedor A. Kolpakov, N. L. Podkolodnyi, Sergey V. Lavryushev, Dmitry A. Grigorovich, Mikhail P. Ponomarenko, Nikolay A. Kolchanov:
Methods for integration of heterogeneous information resources in molecular biology in the digital library GeneExpress. Program. Comput. Softw. 26(3): 170-176 (2000)
1990 – 1999
- 1999
- [j8]Victor G. Levitsky, Mikhail P. Ponomarenko, Julia V. Ponomarenko, Anatoly S. Frolov, Nikolay A. Kolchanov:
Nucleosomal DNA property database. Bioinform. 15(7): 582-592 (1999) - [j7]Mikhail P. Ponomarenko, Julia V. Ponomarenko, Anatoly S. Frolov, Olga A. Podkolodnaya, Denis G. Vorobiev, Nikolay A. Kolchanov, G. Christian Overton:
Oligonucleotide frequency matrices addressed to recognizing functional DNA sites. Bioinform. 15(7): 631-643 (1999) - [j6]Julia V. Ponomarenko, Mikhail P. Ponomarenko, Anatoly S. Frolov, Denis G. Vorobiev, G. Christian Overton, Nikolay A. Kolchanov:
Conformational and physicochemical DNA features specific for transcription factor binding sites. Bioinform. 15(7): 654-668 (1999) - [j5]Nikolay A. Kolchanov, Mikhail P. Ponomarenko, Anatoly S. Frolov, Elena A. Ananko, Fedor A. Kolpakov, Elena V. Ignatieva, Olga A. Podkolodnaya, T. N. Goryachkovskaya, Irina L. Stepanenko, Tatyana I. Merkulova, V. V. Babenko, Y. V. Ponomarenko, Alexey V. Kochetov, Nikolay L. Podkolodny, Denis G. Vorobiev, Sergey V. Lavryushev, Dmitry A. Grigorovich, Yury V. Kondrakhin, Luciano Milanesi, Edgar Wingender, Victor V. Solovyev, G. Christian Overton:
Integrated databases and computer systems for studying eukaryotic gene expression. Bioinform. 15(7): 669-686 (1999) - [j4]Mikhail P. Ponomarenko, Julia V. Ponomarenko, Anatoly S. Frolov, Nikolay L. Podkolodny, Ludmila K. Savinkova, Nikolay A. Kolchanov, G. Christian Overton:
Identification of sequence-dependent DNA features correlating to activity of DNA sites interacting with proteins. Bioinform. 15(7): 687-703 (1999) - [j3]Alexey V. Kochetov, Mikhail P. Ponomarenko, Anatoly S. Frolov, L. L. Kisselev, Nikolay A. Kolchanov:
Prediction of eukaryotic mRNA translational properties. Bioinform. 15(7): 704-712 (1999) - 1998
- [c3]Nikolay A. Kolchanov, Mikhail P. Ponomarenko, Alexander E. Kel, Yury V. Kondrakhin, Anatoly S. Frolov, Fedor A. Kolpakov, T. N. Goryachkovskaya, O. V. Kel, Elena A. Ananko, Elena V. Ignatieva, Olga A. Podkolodnaya, Vladimir N. Babenko, Irina L. Stepanenko, Aida G. Romashchenko, Tatyana I. Merkulova, Denis G. Vorobiev, Sergey V. Lavryushev, Y. V. Ponomarenko, Alexey V. Kochetov, G. B. Kolesov, Victor V. Solovyev, Luciano Milanesi, Nikolay L. Podkolodny, Edgar Wingender, T. Heinemeyer:
GenExpress: A Computer System for Description, Analysis and Recognition of Regulatory Sequences in Eukaryotic Genome. ISMB 1998: 95-104 - 1997
- [j2]Mikhail P. Ponomarenko, A. N. Kolchanova, Nikolay A. Kolchanov:
Generating Programs for Predicting the Activity of Functional Sites. J. Comput. Biol. 4(1): 83-90 (1997) - [c2]Mikhail P. Ponomarenko, Julia V. Ponomarenko, Alexander E. Kel, Nikolay A. Kolchanov, N. Karas, Edgar Wingender, Heinz Sklenar:
Identification of the significant conformational features of functional sites in B-DNA. German Conference on Bioinformatics 1997: 171 - 1996
- [c1]Alexander E. Kel, O. V. Kel, Oleg V. Vishnevsky, Mikhail P. Ponomarenko, I. V. Ischenko, Holger Karas, Edgar Wingender, Nikolay A. Kolchanov, Heinz Sklenar:
TRRD and COMPEL Databases on Transcription Linked to TRANSFAC as Tools for Analysis and Recognition of Regulatory Sequences. German Conference on Bioinformatics - Selected Papers 1996: 99-105 - 1993
- [j1]Alexander E. Kel, Mikhail P. Ponomarenko, E. A. Likhachev, Yuri L. Orlov, I. V. Ischenko, Luciano Milanesi, Nikolay A. Kolchanov:
SITEVIDEO: a computer system for functional site analysis and recognition. Investigation of the human splice sites. Comput. Appl. Biosci. 9(6): 617-627 (1993)
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