Mikhail P. Ponomarenko

According to our database, Mikhail P. Ponomarenko authored at least 25 papers between 1993 and 2015.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2015

Sequence-based prediction of transcription upregulation by auxin in plants.

Petr M. Ponomarenko, Mikhail P. Ponomarenko

J. Bioinform. Comput. Biol., 2015

2013

How Multiple Auxin Responsive Elements May Interact in plant promoters: a Reverse Problem solution.

Victoria V. Mironova, Nadezda A. Omelyanchuk, Maria S. Savina, Petr M. Ponomarenko, Mikhail P. Ponomarenko, Vitali A. Likhoshvai, Nikolay A. Kolchanov

J. Bioinform. Comput. Biol., 2013

2010

Snps in the HIV-1 TATA Box and the Aids pandemic.

Valentin V. Suslov, Petr M. Ponomarenko, Vadim M. Efimov, Ludmila K. Savinkova, Mikhail P. Ponomarenko, Nikolay A. Kolchanov

J. Bioinform. Comput. Biol., 2010

2005

Mining Genome Variation to Associate Genetic Disease with Mutation Alterations and Ortho/Paralogous Polimorphysms in Transcription Factor Binding Site.

Julia V. Ponomarenko, Galina Orlova, Tatyana I. Merkulova, Gennady V. Vasiliev, Mikhail P. Ponomarenko

Int. J. Artif. Intell. Tools, 2005

2003

rSNP_Guide, a database system for analysis of transcription factor binding to DNA with variations: application to genome annotation.

Julia V. Ponomarenko, Tatyana I. Merkulova, Galina Orlova, Oleg N. Fokin, Elena Gorshkova, Anatoly S. Frolov, Vadim P. Valuev, Mikhail P. Ponomarenko

Nucleic Acids Res., 2003

2002

ASPD (Artificially Selected Proteins/Peptides Database): a database of proteins and peptides evolved in vitro.

Vadim P. Valuev, Dmitry A. Afonnikov, Mikhail P. Ponomarenko, Luciano Milanesi, Nikolay A. Kolchanov

Nucleic Acids Res., 2002

SELEX_DB: a database on in vitro selected oligomers adapted for recognizing natural sites and for analyzing both SNPs and site-directed mutagenesis data.

Julia V. Ponomarenko, Galina Orlova, Anatoly S. Frolov, Mikhail S. Gelfand, Mikhail P. Ponomarenko

Nucleic Acids Res., 2002

Mining DNA sequences to predict sites which mutations cause genetic diseases.

Julia V. Ponomarenko, Tatyana I. Merkulova, Galina Orlova, Oleg N. Fokin, Elena Gorshkova, Mikhail P. Ponomarenko

Knowl. Based Syst., 2002

2001

rSNP_Guide, a database system for analysis of transcription factor binding to target sequences: application to SNPs and site-directed mutations.

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

Nucleic Acids Res., 2001

ACTIVITY: a database on DNA/RNA sites activity adapted to apply sequence-activity relationships from one system to another.

Julia V. Ponomarenko, Dagmara P. Furman, Anatoly S. Frolov, Nikolay L. Podkolodny, Galina Orlova, Mikhail P. Ponomarenko, Nikolay A. Kolchanov, Akinori Sarai

Nucleic Acids Res., 2001

Mining SNPs for Associating Disease Penetration with Transcription Factor Binding Site Alterations.

Julia V. Ponomarenko, Tatyana I. Merkulova, Galina Orlova, Oleg N. Fokin, Elena Gorshkova, Mikhail P. Ponomarenko

Proceedings of the Computer science and biology: Proceedings of the German Conference on Bioinformatics, 2001

Mining Genome Variation to Associate Disease with Transcription Factor Binding Site Alteration.

Julia V. Ponomarenko, Tatyana I. Merkulova, Galina Orlova, Elena Gorshkova, Oleg N. Fokin, Mikhail P. Ponomarenko

Proceedings of the 2nd IEEE International Symposium on Bioinformatics and Bioengineering, 2001

2000

Methods for integration of heterogeneous information resources in molecular biology in the digital library GeneExpress.

Fedor A. Kolpakov, N. L. Podkolodnyi, Sergey V. Lavryushev, Dmitry A. Grigorovich, Mikhail P. Ponomarenko, Nikolay A. Kolchanov

Program. Comput. Softw., 2000

SELEX_DB: an activated database on selected randomized DNA/RNA sequences addressed to genomic sequence annotation.

Julia V. Ponomarenko, Galina Orlova, Mikhail P. Ponomarenko, Sergey V. Lavryushev, Anatoly S. Frolov, Svetlana V. Zybova, Nikolay A. Kolchanov

Nucleic Acids Res., 2000

1999

Conformational and physicochemical DNA features specific for transcription factor binding sites.

Julia V. Ponomarenko, Mikhail P. Ponomarenko, Anatoly S. Frolov, Denis G. Vorobiev, G. Christian Overton, Nikolay A. Kolchanov

Bioinform., 1999

Oligonucleotide frequency matrices addressed to recognizing functional DNA sites.

Mikhail P. Ponomarenko, Julia V. Ponomarenko, Anatoly S. Frolov, Olga A. Podkolodnaya, Denis G. Vorobiev, Nikolay A. Kolchanov, G. Christian Overton

Bioinform., 1999

Identification of sequence-dependent DNA features correlating to activity of DNA sites interacting with proteins.

Mikhail P. Ponomarenko, Julia V. Ponomarenko, Anatoly S. Frolov, Nikolay L. Podkolodny, Ludmila K. Savinkova, Nikolay A. Kolchanov, G. Christian Overton

Bioinform., 1999

Nucleosomal DNA property database.

Victor G. Levitsky, Mikhail P. Ponomarenko, Julia V. Ponomarenko, Anatoly S. Frolov, Nikolay A. Kolchanov

Bioinform., 1999

Integrated databases and computer systems for studying eukaryotic gene expression.

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

Bioinform., 1999

Prediction of eukaryotic mRNA translational properties.

Alexey V. Kochetov, Mikhail P. Ponomarenko, Anatoly S. Frolov, L. L. Kisselev, Nikolay A. Kolchanov

Bioinform., 1999

1998

GenExpress: A Computer System for Description, Analysis and Recognition of Regulatory Sequences in Eukaryotic Genome.

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

Proceedings of the 6th International Conference on Intelligent Systems for Molecular Biology (ISMB-98), Montréal, Québec, Canada, June 28, 1998

1997

Generating Programs for Predicting the Activity of Functional Sites.

Mikhail P. Ponomarenko, A. N. Kolchanova, Nikolay A. Kolchanov

J. Comput. Biol., 1997

Identification of the significant conformational features of functional sites in B-DNA.

Mikhail P. Ponomarenko, Julia V. Ponomarenko, Alexander E. Kel, Nikolay A. Kolchanov, N. Karas, Edgar Wingender, Heinz Sklenar

Proceedings of the German Conference on Bioinformatics, 1997

1996

TRRD and COMPEL Databases on Transcription Linked to TRANSFAC as Tools for Analysis and Recognition of Regulatory Sequences.

Alexander E. Kel, O. V. Kel, Oleg V. Vishnevsky, Mikhail P. Ponomarenko, I. V. Ischenko, Holger Karas, Edgar Wingender, Nikolay A. Kolchanov, Heinz Sklenar

Proceedings of the Bioinformatics, German Conference on Bioinformatics, Leipzig, 1996

1993

SITEVIDEO: a computer system for functional site analysis and recognition. Investigation of the human splice sites.

Alexander E. Kel, Mikhail P. Ponomarenko, E. A. Likhachev, Yuri L. Orlov, I. V. Ischenko, Luciano Milanesi, Nikolay A. Kolchanov

Comput. Appl. Biosci., 1993