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Nikolay A. Kolchanov: [Publications] [Author Rank by year] [Co-authors] [Prefers] [Cites] [Cited by]

Publications of Author

  1. Nikolay A. Kolchanov, Elena A. Ananko, Vitali A. Likhoshvai, Olga A. Podkolodnaya, Elena V. Ignatieva, Alexander V. Ratushny, Yuri G. Matushkin
    Gene Networks Description and Modeling in the GeneNet System. [Citation Graph (0, 0)][DBLP]
    Gene Regulations and Metabolism, 2002, pp:149-179 [Conf]
  2. Dmitry A. Afonnikov, Y. V. Kondrakhin, I. I. Titov, Nikolay A. Kolchanov
    Detecting direct correlations between positions in multiple alignments of amino acid sequences. [Citation Graph (0, 0)][DBLP]
    German Conference on Bioinformatics, 1997, pp:87-98 [Conf]
  3. Elena A. Ananko, Elena V. Ignatieva, Alexander E. Kel, Nikolay A. Kolchanov
    WWWTRRD: Hypertext Information System an Transcription Regulation. [Citation Graph (0, 0)][DBLP]
    German Conference on Bioinformatics, 1996, pp:153-155 [Conf]
  4. I. V. Ischenko, Alexey V. Kochetov, Alexander E. Kel, Nikolay A. Kolchanov, L. L. Kisselev
    Comparative Analysis of the Secondary Structure of mRNA Encoded by High- and Low-Expression Eukaryotic Genes. [Citation Graph (0, 0)][DBLP]
    German Conference on Bioinformatics, 1996, pp:124-129 [Conf]
  5. Alexander E. Kel, Olga V. Kel-Margoulis, Vladimir N. Babenko, Nikolay A. Kolchanov, Edgar Wingender
    Combinatorial identification of promoters induced upon immune cell activation. [Citation Graph (0, 0)][DBLP]
    German Conference on Bioinformatics, 1998, pp:- [Conf]
  6. Alexander E. Kel, O. V. Kel, I. V. Ischenko, Nikolay A. Kolchanov, Holger Karas, Edgar Wingender, Heinz Sklenar
    TRRD and COMPEL Databases an Transcription Linked to TRANSFAC as Tools for Analysis and Recognition of Regulatory Sequences. [Citation Graph (0, 0)][DBLP]
    German Conference on Bioinformatics, 1996, pp:113-117 [Conf]
  7. 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. [Citation Graph (0, 0)][DBLP]
    German Conference on Bioinformatics - Selected Papers, 1996, pp:99-105 [Conf]
  8. Alexander E. Kel, M. Philipenko, Vladimir N. Babenko, Nikolay A. Kolchanov
    Genetic Algorithm for Selection of Oligonucleotides for Identification by Hybridisation of Genomic DNA Fragments Possessing Gene Potential. [Citation Graph (0, 0)][DBLP]
    German Conference on Bioinformatics, 1996, pp:238-240 [Conf]
  9. Y. V. Kondrakhin, F. A. Kolpakov, Alexander E. Kel, Nikolay A. Kolchanov, Luciano Milanesi
    Computer Analysis and Recognition of the Transcription Regulatory Elements in Eukaryotic Genomes. [Citation Graph (0, 0)][DBLP]
    German Conference on Bioinformatics, 1996, pp:247-250 [Conf]
  10. Elena V. Ignatieva, Alexander E. Kel, Nikolay A. Kolchanov
    Lipid Metabolism Transcription Regulatory Regions Database (LM-TRRD). [Citation Graph (0, 0)][DBLP]
    German Conference on Bioinformatics, 1997, pp:153-154 [Conf]
  11. Yuri L. Orlov, V. P. Filippov, V. N. Potapov, Nikolay A. Kolchanov
    Construction of stochastic context trees for genetical texts. [Citation Graph (0, 0)][DBLP]
    German Conference on Bioinformatics, 2001, pp:212-215 [Conf]
  12. Yuri L. Orlov, Eugenii E. Vityaev, Oleg V. Vishnevsky, A. S. Belenok, Boris Kovalerchuk, Mikhail A. Pozdnyakov, Nikolay A. Kolchanov
    Program "Gene Discovery" for Pattern Matching in Promoter Sequences. [Citation Graph (0, 0)][DBLP]
    German Conference on Bioinformatics, 2001, pp:215-217 [Conf]
  13. 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. [Citation Graph (0, 0)][DBLP]
    German Conference on Bioinformatics, 1997, pp:171- [Conf]
  14. O. V. Kel, A. G. Romachenko, Alexander E. Kel, Andrey N. Naumochkin, Nikolay A. Kolchanov
    Data representation in the TRRD-a database of transcription regulatory regions of the eukaryotic genomes. [Citation Graph (0, 0)][DBLP]
    HICSS (5), 1995, pp:42-51 [Conf]
  15. Alexander E. Kel, Y. V. Kondrakhin, Ph. A. Kolpakov, O. V. Kel, Aida G. Romashchenko, Edgar Wingender, Luciano Milanesi, Nikolay A. Kolchanov
    Computer Tool FUNSITE for Analysis of Eukaryotic Regulatory Genomic Sequences. [Citation Graph (0, 0)][DBLP]
    ISMB, 1995, pp:197-205 [Conf]
  16. Nikolay A. Kolchanov, Mikhail P. Ponomarenko, Alexander E. Kel, Y. V. Kondrakhin, Anatoly S. Frolov, F. 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. [Citation Graph (0, 0)][DBLP]
    ISMB, 1998, pp:95-104 [Conf]
  17. Nikolay A. Kolchanov, Oleg V. Vishnevsky, Vladimir N. Babenko, Alexander E. Kel, Ilya N. Shindyalov
    Identification of CDNA Sequences by Specific Oligonucleotide Sets - A Computer Tool and Application. [Citation Graph (0, 0)][DBLP]
    ISMB, 1995, pp:206-214 [Conf]
  18. Dmitry A. Afonnikov, D. Yu. Oshchepkov, Nikolay A. Kolchanov
    Detection of conserved physico-chemical characteristics of proteins by analyzing clusters of positions with co-ordinated substitutions. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2001, v:17, n:11, pp:1035-1046 [Journal]
  19. Nikolay A. Kolchanov, Mikhail P. Ponomarenko, Anatoly S. Frolov, Elena A. Ananko, F. 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, Y. V. Kondrakhin, Luciano Milanesi, Edgar Wingender, Victor V. Solovyev, G. Christian Overton
    Integrated databases and computer systems for studying eukaryotic gene expression. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 1999, v:15, n:7, pp:669-686 [Journal]
  20. 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. [Citation Graph (0, 0)][DBLP]
    Computer Applications in the Biosciences, 1993, v:9, n:6, pp:617-627 [Journal]
  21. Alexey V. Kochetov, Mikhail P. Ponomarenko, Anatoly S. Frolov, L. L. Kisselev, Nikolay A. Kolchanov
    Prediction of eukaryotic mRNA translational properties. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 1999, v:15, n:7, pp:704-712 [Journal]
  22. Nikolay A. Kolchanov, Charlie Hodgman
    The 2nd international conference on the Bioinformatics of Genome Regulation and Structure (BGRS-2000), Novosibirsk, August 2000. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2001, v:17, n:11, pp:997- [Journal]
  23. F. A. Kolpakov, Elena A. Ananko, G. B. Kolesov, Nikolay A. Kolchanov
    GeneNet: a gene network database and its automated visualization. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 1998, v:14, n:6, pp:529-537 [Journal]
  24. Y. V. Kondrakhin, Alexander E. Kel, Nikolay A. Kolchanov, Aida G. Romashchenko, Luciano Milanesi
    Eukaryotic promoter recognition by binding sites for transcription factors. [Citation Graph (0, 0)][DBLP]
    Computer Applications in the Biosciences, 1995, v:11, n:5, pp:477-488 [Journal]
  25. Y. V. Kondrakhin, V. V. Shamin, Nikolay A. Kolchanov
    Construction of a generalized consensus matrix for recognition of vertebrate pre-mRNA 3'-terminal processing sites. [Citation Graph (0, 0)][DBLP]
    Computer Applications in the Biosciences, 1994, v:10, n:6, pp:597-603 [Journal]
  26. Victor G. Levitsky, Olga A. Podkolodnaya, Nikolay A. Kolchanov, Nikolay L. Podkolodny
    Nucleosome formation potential of eukaryotic DNA: calculation and promoters analysis. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2001, v:17, n:11, pp:998-1010 [Journal]
  27. Victor G. Levitsky, Olga A. Podkolodnaya, Nikolay A. Kolchanov, Nikolay L. Podkolodny
    Nucleosome formation potential of exons, introns, and Alu repeats. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 2001, v:17, n:11, pp:1062-1064 [Journal]
  28. Victor G. Levitsky, Mikhail P. Ponomarenko, Julia V. Ponomarenko, Anatoly S. Frolov, Nikolay A. Kolchanov
    Nucleosomal DNA property database. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 1999, v:15, n:7, pp:582-592 [Journal]
  29. Mikhail P. Ponomarenko, Julia V. Ponomarenko, Anatoly S. Frolov, Nikolay L. Podkolodny, L. K. Savinkova, Nikolay A. Kolchanov, G. Christian Overton
    Identification of sequence-dependent DNA features correlating to activity of DNA sites interacting with proteins. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 1999, v:15, n:7, pp:687-703 [Journal]
  30. 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. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 1999, v:15, n:7, pp:631-643 [Journal]
  31. 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. [Citation Graph (0, 0)][DBLP]
    Bioinformatics, 1999, v:15, n:7, pp:654-668 [Journal]
  32. Igor B. Rogozin, Luciano Milanesi, Nikolay A. Kolchanov
    Gene structure prediction using information on homologous protein sequence. [Citation Graph (0, 0)][DBLP]
    Computer Applications in the Biosciences, 1996, v:12, n:3, pp:161-170 [Journal]
  33. Victor B. Strelets, Ilya N. Shindyalov, Nikolay A. Kolchanov, Luciano Milanesi
    Fast, statistically based alignment of amino acid sequences on the base of diagonal fragments of DOT-matrices. [Citation Graph (0, 0)][DBLP]
    Computer Applications in the Biosciences, 1992, v:8, n:6, pp:529-534 [Journal]
  34. Nikolay A. Kolchanov, Ralf Hofestädt
    The 3rd International Conference on Bioinformatics of Genome Regulation and Structure (BGRS 2002) - Preface. [Citation Graph (0, 0)][DBLP]
    In Silico Biology, 2003, v:3, n:, pp:1- [Journal]
  35. Nikolay A. Kolchanov, Eugenia A. Nedosekina, Elena A. Ananko, Vitali A. Likhoshvai, Nikolay L. Podkolodny, Alexander V. Ratushny, Irina L. Stepanenko, Olga A. Podkolodnaya, Elena V. Ignatieva, Yuri G. Matushkin
    GeneNet database: description and modeling of gene networks. [Citation Graph (0, 0)][DBLP]
    In Silico Biology, 2002, v:2, n:, pp:9- [Journal]
  36. Yuri L. Orlov, V. P. Filippov, V. N. Potapov, Nikolay A. Kolchanov
    Construction of stochastic context trees for genetical texts. [Citation Graph (0, 0)][DBLP]
    In Silico Biology, 2002, v:2, n:, pp:22- [Journal]
  37. Ralf Hofestädt, Nikolay A. Kolchanov, John Reinitz
    Information and simulation systems for the analysis of gene regulation and metabolic pathways (Preface). [Citation Graph (0, 0)][DBLP]
    In Silico Biology, 2002, v:2, n:, pp:4- [Journal]
  38. Eugenii E. Vityaev, Yuri L. Orlov, Oleg V. Vishnevsky, Mikhail A. Pozdnyakov, Nikolay A. Kolchanov
    Computer system "Gene Discovery" for promoter structure analysis. [Citation Graph (0, 0)][DBLP]
    In Silico Biology, 2002, v:2, n:, pp:24- [Journal]
  39. Mikhail P. Ponomarenko, A. N. Kolchanova, Nikolay A. Kolchanov
    Generating Programs for Predicting the Activity of Functional Sites. [Citation Graph (0, 0)][DBLP]
    Journal of Computational Biology, 1997, v:4, n:1, pp:83-0 [Journal]
  40. Dmitry A. Afonnikov, Nikolay A. Kolchanov
    CRASP: a program for analysis of coordinated substitutions in multiple alignments of protein sequences. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2004, v:32, n:Web-Server-Issue, pp:64-68 [Journal]
  41. Elena A. Ananko, Nikolay L. Podkolodny, Irina L. Stepanenko, Elena V. Ignatieva, Olga A. Podkolodnaya, Nikolay A. Kolchanov
    GeneNet: a database on structure and functional organisation of gene networks. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2002, v:30, n:1, pp:398-401 [Journal]
  42. T. Heinemeyer, Edgar Wingender, Ingmar Reuter, Henning Hermjakob, Alexander E. Kel, Olga V. Kel-Margoulis, Elena V. Ignatieva, Elena A. Ananko, Olga A. Podkolodnaya, F. A. Kolpakov, Nikolay L. Podkolodny, Nikolay A. Kolchanov
    Databases on transcriptional regulation: TRANSFAC, TRRD and COMPEL. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 1998, v:26, n:1, pp:362-367 [Journal]
  43. Vladimir A. Ivanisenko, Sergey S. Pintus, Dmitry A. Grigorovich, Nikolay A. Kolchanov
    PDBSiteScan: a program for searching for active, binding and posttranslational modification sites in the 3D structures of proteins. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2004, v:32, n:Web-Server-Issue, pp:549-554 [Journal]
  44. Olga V. Kel-Margoulis, Aida G. Romashchenko, Nikolay A. Kolchanov, Edgar Wingender, Alexander E. Kel
    COMPEL: a database on composite regulatory elements providing combinatorial transcriptional regulation. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2000, v:28, n:1, pp:311-315 [Journal]
  45. Nikolay A. Kolchanov, Elena A. Ananko, Olga A. Podkolodnaya, Elena V. Ignatieva, Irina L. Stepanenko, Olga V. Kel-Margoulis, Alexander E. Kel, Tatyana I. Merkulova, T. N. Goryachkovskaya, T. V. Busygina, F. A. Kolpakov, Nikolay L. Podkolodny, Andrey N. Naumochkin, Aida G. Romashchenko
    Transcription Regulatory Regions Database (TRRD): its status in 1999. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 1999, v:27, n:1, pp:303-306 [Journal]
  46. Nikolay A. Kolchanov, Elena V. Ignatieva, Elena A. Ananko, Olga A. Podkolodnaya, Irina L. Stepanenko, Tatyana I. Merkulova, Mikhail A. Pozdnyakov, Nikolay L. Podkolodny, Andrey N. Naumochkin, Aida G. Romashchenko
    Transcription Regulatory Regions Database (TRRD): its status in 2002. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2002, v:30, n:1, pp:312-317 [Journal]
  47. Nikolay A. Kolchanov, Olga A. Podkolodnaya, Elena A. Ananko, Elena V. Ignatieva, Irina L. Stepanenko, Olga V. Kel-Margoulis, Alexander E. Kel, Tatyana I. Merkulova, T. N. Goryachkovskaya, T. V. Busygina, F. A. Kolpakov, Nikolay L. Podkolodny, Andrey N. Naumochkin, I. M. Korostishevskaya, Aida G. Romashchenko, G. Christian Overton
    Transcription Regulatory Regions Database (TRRD): its status in 2000. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2000, v:28, n:1, pp:298-301 [Journal]
  48. 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. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2001, v:29, n:1, pp:284-287 [Journal]
  49. 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. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2000, v:28, n:1, pp:205-208 [Journal]
  50. 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. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2002, v:30, n:1, pp:200-202 [Journal]
  51. Edgar Wingender, Alexander E. Kel, Olga V. Kel-Margoulis, Holger Karas, T. Heinemeyer, P. Dietze, R. Knüppel, Aida G. Romashchenko, Nikolay A. Kolchanov
    TRANSFAC, TRRD and COMPEL: towards a federated database system on transcriptional regulation. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 1997, v:25, n:1, pp:265-268 [Journal]
  52. Vladimir A. Ivanisenko, Sergey S. Pintus, Dmitry A. Grigorovich, Nikolay A. Kolchanov
    PDBSite: a database of the 3D structure of protein functional sites. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2005, v:33, n:Database-Issue, pp:183-187 [Journal]
  53. Victor G. Levitsky, Aleksey V. Katokhin, Olga A. Podkolodnaya, Dagmara P. Furman, Nikolay A. Kolchanov
    NPRD: Nucleosome Positioning Region Database. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2005, v:33, n:Database-Issue, pp:67-70 [Journal]
  54. Elena A. Ananko, Nikolay L. Podkolodny, Irina L. Stepanenko, Olga A. Podkolodnaya, D. A. Rasskazov, D. S. Miginsky, Vitali A. Likhoshvai, Alexander V. Ratushny, N. N. Podkolodnaya, Nikolay A. Kolchanov
    GeneNet in 2005. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2005, v:33, n:Database-Issue, pp:425-427 [Journal]
  55. Oleg V. Vishnevsky, Nikolay A. Kolchanov
    ARGO: a web system for the detection of degenerate motifs and large-scale recognition of eukaryotic promoters. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2005, v:33, n:Web-Server-Issue, pp:417-422 [Journal]
  56. Vladimir A. Ivanisenko, Alexey M. Eroshkin, Nikolay A. Kolchanov
    WebProAnalyst: an interactive tool for analysis of quantitative structure-activity relationships in protein families. [Citation Graph (0, 0)][DBLP]
    Nucleic Acids Research, 2005, v:33, n:Web-Server-Issue, pp:99-104 [Journal]

  57. Analysis of Protein Functional Site Distribution on Gene Structure. [Citation Graph (, )][DBLP]


  58. Combined experimental and computational approaches to study the regulatory elements in eukaryotic genes. [Citation Graph (, )][DBLP]


  59. Recognition of interferon-inducible sites, promoters, and enhancers. [Citation Graph (, )][DBLP]


  60. AUG_hairpin: prediction of a downstream secondary structure influencing the recognition of a translation start site. [Citation Graph (, )][DBLP]


  61. Effective transcription factor binding site prediction using a combination of optimization, a genetic algorithm and discriminant analysis to capture distant interactions. [Citation Graph (, )][DBLP]


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