Publications 2002-2003

Shelest, E., Kel, A., Gößling, E. and Wingender, E.:
Prediction of potential C/EBP/NF-kappaB composite elements using matrix-based search methods.
In Silico Biol. 3, 0007 (2003). link

Wingender, E.:
TRANSFAC®, TRANSPATH® and CYTOMER® as starting points for an ontology of regulatory networks.
In Silico Biology 4, 0006 (2003). link

Kel, A.E., Goessling, E., Reuter, I., Cheremushkin, E., Kel-Margoulis, O.V. and Wingender, E.:
MATCH(TM): a tool for searching transcription factor binding sites in DNA sequences
Nucleic Acids Res. 31, 3576-3579 (2003). Medline

Kel-Margoulis, O.V., Tchekmenev D., Kel, A.E., Goessling, E., Hornischer, K., Lewicki-Potapov, B. and Wingender, E.:
Composition-sensitive analysis of the human genome for regulatory signals
In Silico Biology 3, 0013 (2003). link

Matys, V., Fricke, E., Geffers, R., Gößling, E., Haubrock, M., Hehl, R., Hornischer, K., Karas, D., Kel, A. E., Kel-Margoulis, O. V., Kloos, D.-U., Land, S., Lewicki-Potapov, B., Michael, H., Münch, R., Reuter, I., Rotert, S., Saxel, H., Scheer, M., Thiele, S. and Wingender, E.:
TRANSFAC®: transcriptional regulation, from patterns to profiles
Nucleic Acids Res. 31, 374-378 (2003). Medline

Münch, R., Hiller, K., Barg, H., Heldt, D., Linz, S., Wingender, E. and Jahn, D.:
PRODORIC: prokaryotic database of gene regulation
Nucleic Acids Res. 31, 266-269 (2003) Medline

Krull, M., Voss, N., Choi, V., Pistor, S., Potapov, A. and Wingender, E.:
TRANSPATH®: an integrated database on signal transduction and a tool for array analysis
Nucleic Acids Res. 31, 97-100 (2003). Medline

Potapov, A. P. and Wingender, E.:
Representing the architecture of signal transduction networks in an algebraic form: protein target finding.
Ann. N. Y. Acad. Sci. 973, 1-2 (2002).Medline

Kel-Margoulis, O. V., Ivanova, T., G., Wingender, E. and Kel A. E.:
Automatic annotation of genomic regulatory sequences by searching for composite clusters
Pac. Symp. Biocomput. 7, 187-198 (2002). pdf

Wingender, E.:
Modeling regulatory pathways with the use of the transfac system
Gene Function & Disease 3, 3-11 (2002). link

Liebich, I., Bode, J., Reuter, I. and Wingender, E.:
Evaluation of sequence motifs found in scaffold / matrix atteached regions (S/MARs)
Nucleic Acids Res. 30, 3433-3442 (2002). Medline

Kloos, D.-U., Choi, C. and Wingender, E.:
The TGF-beta Smad network: introducing bioinformatic tools
Trends Genet. 18, 96-103 (2002). Medline

Kel-Margoulis, O. V., Kel, A. E., Reuter, I., Deineko, I. V. and Wingender, E.:
TRANSCompel® – a database on composite regulatory elements in eukaryotic genes.
Nucleic Acids Res. 30, 332-334 (2002). Medline

Frisch, M., Frech, K., Klingenhoff, A., Quandt, K., Liebich, I. and Werner, T.:
In silico prediction of scaffold/matrix attachment regions in large genomic sequences.
Genome Res. 12, 349-354 (2002).Medline

Liebich, I., Bode, J., Frisch,M. and Wingender, E.:
S/MARt DB - A database on scaffold / matrix attached regions.
Nucleic Acids Res. 30, 372-374 (2002). Medline