Here we list only publications the most relevant to the main theme of Biosoft.Ru expertise.

Kolpakov F.A., Ananko E.A., Kolesov G.B. and Kolchanov N.A.
GeneNet: a database for gene networks and its automated visualization.
Bioinformatics. 1998;14(6):529-537.
[PMID: 9694992] [Abstract]

Kolpakov F.A., Ananko E.A.
Interactive data input into the GeneNet database.
Bioinformatics. 1999;15(7-8):713-714.
[PMID: 10487877] [Abstract] [PDF 120kb]

Kolchanov N.A., Anan'ko E.A., Kolpakov F.A., Podkolodnaia O.A., Ignat'eva E.V., Goriachkovskaia T.N., Stepanenko E.L.
[Gene networks.]
Mol. Biol. (Mosk.). 2000;34(4):533-544. Russian.
[PMID: 11042846]

Ananko E.A., Kolpakov F.A., Kolesov G.B., Kolchanov N.A.
Gene Networks: a database and its automated visualization through the internet in the genenet computing system.
Proc. Int. Conf. Bioinf. of Genome Regulation and Structure (BGRS'98). 1998;1:82-85.
[Abstract] [HTML]

Kolpakov F.A., Kel' A.E., Ponomarenko M.P., Kolchanov N.A.
[High heterogeneity of higher eukaryotic gene promoters, transcribed by RNA polymerase II.]
Dokl Akad Nauk. 1997;375(5):693-995. Russian.
[PMID: 9493004] [Abstract]

Kel A.E., Kondrakhin Yu.V., Kolpakov F.A., Ponomarenko M.P., Wingender E., Kolchanov N.A.
Computer analyses of the structure of transcription factor binding sites.
SAMS. 1995;18-19:819-822. Overseas Publishers Association, Amsterdam.
[Abstract] [PDF 23kb]

Kondrakhin Yu.V., Kolpakov F.A., Kel A.E., Milanesi L., Kolchanov N.A.
Computer analysis and recognition of the transcription regulatory elements in eukaryotic genomes.
Proc. German Conf. on Bioinformatics (GSB'96). 1996; p..
[Abstract] [PDF 77kb]

Seledtsov I.A., Kolpakov F.A.
Rapid estimates of statistical significance of the pairwise nucleotide sequence alignment.
Proc. Int. Conf. Bioinf. of Genome Regulation and Structure (BGRS'98). 1998;2:301-304.
[Abstract] [PDF 57kb] [HTML]

Kolesov G.B., Kolpakov F.A., Kolchanov N.A.
New method for the study of the modular structure of transcription regulatory regions.
Proc. Int. Conf. Bioinf. of Genome Regulation and Structure (BGRS'98). 1998;2:430-433.
[Abstract] [PDF 79kb] [HTML]

Kochetov A.V., Pilugin M.V., Kolpakov F.A., Babenko V.N., Kvashnina E.V., Shumny V.K.
Structural and compositional features of 5' untranslated regions of higher plant mRNAs.
Proc. Int. Conf. Bioinf. of Genome Regulation and Structure (BGRS'98). 1998;1:210-213.
[Abstract] [HTML]

Kolpakov F.A., Babenko V.N.
[The MGL computer system--an instrument for generating, graphically representing, and analyzing regulatory genomic sequences.]
Mol Biol (Mosk). 1997;4(31):647-655. Russian.
[PMID: 9340492] [Abstract]

Kel A.E., Kondrakhin Y.V., Kolpakov F.A., Kel O.V., Romashenko A.G.,Wingender E., Milanesi L., Kolchanov N.A.
Computer tool FUNSITE for analysis of eukaryotic regulatory genomic sequences.
Proc. Int. Conf. Intell. Syst. Mol. Biol. (ISMB). 1995; p.197-205.
[PMID: 7584437] [Abstract] [PDF 110kb]

Kolchanov N.A., Ponomarenko M.P., Frolov A.S., Ananko E.A., Kolpakov F.A., Ignatieva E.V., Podkolodnaya O.A., Goryachkovskaya T.N., Stepanenko I.L., Merkulova T.I., Babenko V.N., Ponomarenko J.V., Kochetov A.V., Podkolodny N.L., Vorobyev D.G., Lavrushev S.V., Grigorovich D.A., Kondrakhin Yu.V., Milanesi L., Wingender E., Solovyev V.V., and Overton G.C.
Integrated databases and computer systems for studying eukaryotic gene expression.
Bioinformatics. 1999;15(7-8):669-686.
[PMID: 99419257] [Abstract]

Kolchanov N.A., Ponomarenko M.P., Kel A.E., Kondrakhin Yu.V., Frolov A.S., Kolpakov F.A., Goriachkovsky T.N., Kel-Margulis O.V., Ananko E.A., Ignatieva E.V., et al.
[GeneExpress: an integrator for databases and computer systems accessible by the Internet and intended for studying eukaryotic gene expression.]
Biofizika. 1999;44(5):837-841. Russian.
[PMID: 10624523] [Abstract]

Kolchanov N.A., Ponomarenko M.P., Kel A.E., Kondrakhin Yu.V., Frolov A.S., Kolpakov F.A., Goryachkovsky T.N., Kel O.V., Ananko E.A., Ignatieva E.V., Podkolodnaya O.A., Babenko V.N., Stepanenko I.L., Romashchenko A.G., Merkulova T.I, Vorobiev D.G., Lavryushev S.V., Ponomarenko Yu.V., Kochetov A.V., Kolesov G.B., Solovyev V.V., Milanesi L., Podkolodny N.L., Wingender E., Heinemeyer T.
GeneExpress: a computer system for description, analysis, and recognition of regulatory sequences in eukaryotic genome.
Proc. Int. Conf. Intell. Syst. Mol. Biol. (ISMB). 1998;6:95-104.
[PMID: 9783214] [Abstract] [PDF 137kb]

Kolpakov F.A., Babenko V.N.
MGL: an object-oriented computer system for molecular genetic data management, analysis, and visualization.
Proc. Int. Conf. Bioinf. of Genome Regulation and Structure (BGRS'98). 1998;2:434-437.
[Abstract] [PDF 70kb] [HTML]

Kolchanov N.A., Podkolodnaya O.A., Ananko E.A., Ignatieva E.V., Stepanenko I.L., Kel-Margoulis O.V., Kel A.E., Merkulova T.I., Goryachkovskaya T.N., Busygina T.V., Kolpakov F.A., Podkolodny N.L., Naumochkin A.N., Korostishevskaya I.M., Romashchenko A.G., Overton G.C.
Transcription regulatory regions database (TRRD): its status in 2000.
Nucleic Acids Res.. 2000;28(1):298-301.
[PMID: 20063287] [Abstract] [PDF 431kb]

Kolchanov N.A., Ananko E.A., Podkolodnaya O.A., Ignatieva E.V., Stepanenko I.L., Kel-Margoulis O.V., Kel A.E., Merkulova T.I., Goryachkovskaya T.N., Busygina T.V., Kolpakov F.A., Podkolodny N.L., Naumochkin A.N., Romashchenko A.G.
Transcription Regulatory Regions Database (TRRD):its status in 1999.
Nucleic Acids Res.. 1999;27(1):303-306.
[PMID: 99063721] [Abstract] [PDF 657kb]

Heinmeyer T., Wingender E., Reuter I., Hermjakob H., Kel A.E., Kel O.V., Ignatieva E.V., Ananko E.A., Podkolodnaya O.A., Kolpakov F.A., Podkolodny N.L., and Kolchanov N.A.
Databases on transcription regulation: TRANSFAC, TRRD and COMPEL.
Nucleic Acids Res.. 1998;26(1):362-367.
[PMID: 98062468] [Abstract] [PDF 80kb]

Kel A.E., Kolchanov N.A., Kel O.V., Romaschenko A.G., Ananko E.A., Ignatieva E.V., Merkulova T.I., Podkolodnaya O.A., Stepanenko I.L., Kochetov A.V., Kolpakov F.A., Podkolodnyi N.L., Naumochkin A.N.
[TRRD: a database of transcription regulatory regions in eukaryotic genes.]
Mol. Biol. (Mosk.). 1997;31(4):626-636.
[PMID: 9340490 ] [HTML]

Kolchanov N.A., Ignatieva E.V., Kel-Margoulis O.V., Kel A.E., Ananko E.A., Podkolodnaya O.A., Stepanenko I.L., Merkulova T.I., Goryachkovsky T.N., Kolpakov F.A., Podkolodny N.L., Lavryushev S.V., Grigorovich D.A., Frolov A.S., Romashchenko A.G.
Transcription Regulatory Regions Database (TRRD): new possibilities provided by release 4.0.
Proc. Int. Conf. Bioinf. of Genome Regulation and Structure (BGRS'98). 1998;1:25-28.
[Abstract] [HTML]