Publications 2006-2007

Wingender, E., Hogan, J., Schacherer, F., Potapov, A.P. and Kel-Margoulis, O.:
Integrating pathway data for systems pathology
In Silico Biol. 7 S1, 03 (2007). link

Degenhardt, J., Haubrock, M., Dönitz, J., Wingender, E. and Crass, T.:
DEEP--A tool for differential expression effector prediction
Nucleic Acids Res. 35, W619-W624 (2007). link

Wingender, E., Crass, T., Hogan, J. D, Kel, A. E., Kel-Margoulis, O. V. and Potapov, A. P.:
Integrative content-driven concepts for bioinformatics "beyond the cell"
J. Biosci. 32, 169-180 (2007). pdf

Seibel P.N., Kruger J., Hartmeier S., Schwarzer K., Löwenthal K., Mersch H., Dandekar T., Giegerich R.:
XML schemas for common bioinformatic data types and their application in
workflow systems

BMC Bioinformatics 7, 490 (2006). link

Kel, A., Voss, N., Jauregui, R., Kel-Margoulis, O. and Wingender, E.:
Beyond microarrays: Find key transcription factors controlling signal
transduction pathways

BMC Bioinformatics 7(Suppl. 2), S13 (2006). link

Sauer, T.:
Evaluierung des phylogenetischen Footprintings und dessen Anwendung zur
verbesserten Vorhersage von Transkriptionsfaktor-Bindestellen

PhD Thesis, Georg August University Göttingen (2006). link pdf

Waleev, T., Shtokalo, D., Konovalova, T., Voss, N., Cheremushkin, E., Stegmaier,
P., Kel-Margoulis, O., Wingender, E. and Kel, A.:
Composite Module Analyst: identification of transcription factor binding
site combinations using genetic algorithm

Nucleic Acids Res. 34, W541-W545 (2006). link

Shelest, E.:
Genetic networks of antibacterial responses of eukaryotic cells. Bioinformatics analysis and modeling
PhD Thesis, Technical University of Braunschweig (2006). link pdf

Potapov, A. P. and Wingender, E.:
Mining the genome and regulatory networks
Genome Biol. 7, 309 (2006). link

Kel, A., Konovalova, T., Waleev, T., Cheremushkin, E., Kel-Margoulis, O. and Wingender, E.:
Composite Module Analyst: a fitness-based tool for identification of transcription factor binding site combinations
Bioinformatics 22, 1190-1197 (2006). link

Sauer, T., Shelest, E. and Wingender, E.:
Evaluating phylogenetic footprinting for human-rodent comparisons
Bioinformatics 22, 430-437 (2006). link

Krull, M., Pistor, S., Voss, N., Kel, A., Reuter, I., Kronenberg, D., Michael, H., Schwarzer, K., Potapov, A., Choi, C., Kel-Margoulis, O. and Wingender, E.:
TRANSPATH®: An Information Resource for Storing and Visualizing Signaling Pathways and their Pathological Aberrations
Nucleic Acids Res. 34, D546-D551 (2006). link

Potapov, A., Liebich, I., Dönitz, J., Schwarzer, K., Sasse, N., Schoeps, T., Crass, T. and Wingender, E.:
EndoNet: An information resource about endocrine networks
Nucleic Acids Res. 34, D540-D545 (2006). link

Chen, X., Wu, J.-m., Hornischer, K., Kel, A. and Wingender, E.:
TiProD: The Tissue-specific Promoter Database
Nucleic Acids Res. 34, D104-D107 (2006). link