Edgar Wingender

Anirban Bhar, Martin Haubrock, Anirban Mukhopadhyay, Ujjwal Maulik, Sanghamitra Bandyopadhyay, Edgar Wingender: Coexpression and coregulation analysis of time-series gene expression data in estrogen-induced breast cancer cell. Algorithms for Molecular Biology 8: 9 (2013)

Edgar Wingender: Criteria for an updated Classification of Human transcription factor DNA-binding Domains. J. Bioinformatics and Computational Biology 11(1) (2013)

Edgar Wingender, Torsten Schoeps, Jürgen Dönitz: TFClass: an expandable hierarchical classification of human transcription factors. Nucleic Acids Research 41(Database-Issue): 165-170 (2013)

Jie Li, Xu Hua, Martin Haubrock, Jin Wang, Edgar Wingender: The architecture of the gene regulatory networks of different tissues. Bioinformatics 28(18): 509-514 (2012)

Anirban Bhar, Martin Haubrock, Anirban Mukhopadhyay, Ujjwal Maulik, Sanghamitra Bandyopadhyay, Edgar Wingender: δ-TRIMAX: Extracting Triclusters and Analysing Coregulation in Time Series Gene Expression Data. WABI 2012: 165-177

Edgar Wingender: The TRANSFAC project as an example of framework technology that supports the analysis of genomic regulation. Briefings in Bioinformatics 9(4): 326-332 (2008)

Holger Michael, Jennifer Hogan, Alexander E. Kel, Olga V. Kel-Margoulis, Frank Schacherer, Nico Voss, Edgar Wingender: Building a knowledge base for systems pathology. Briefings in Bioinformatics 9(6): 518-531 (2008)

Anatolij Potapov, Björn Goemann, Edgar Wingender: The pairwise disconnectivity index as a new metric for the topological analysis of regulatory networks. BMC Bioinformatics 9 (2008)

Jürgen Dönitz, Björn Goemann, Muriel Lizé, Holger Michael, Nicole Sasse, Edgar Wingender, Anatolij Potapov: EndoNet: an information resource about regulatory networks of cell-to-cell communication. Nucleic Acids Research 36(Database-Issue): 689-694 (2008)

Jost Degenhardt, Martin Haubrock, Jürgen Dönitz, Edgar Wingender, Torsten Crass: DEEP - A tool for differential expression effector prediction. Nucleic Acids Research 35(Web-Server-Issue): 619-624 (2007)

Tilman Sauer, Ekaterina Shelest, Edgar Wingender: Evaluating phylogenetic footprinting for human-rodent comparisons. Bioinformatics 22(4): 430-437 (2006)

Alexander E. Kel, Tatiana Konovalova, T. Waleev, Evgeny Cheremushkin, Olga V. Kel-Margoulis, Edgar Wingender: Composite Module Analyst: a fitness-based tool for identification of transcription factor binding site combinations. Bioinformatics 22(10): 1190-1197 (2006)

Alexander E. Kel, Nico Voss, Ruy Jauregui, Olga V. Kel-Margoulis, Edgar Wingender: Beyond microarrays: Finding key transcription factors controlling signal transduction pathways. BMC Bioinformatics 7(S-2) (2006)

Xin Chen, Jian-min Wu, Klaus Hornischer, Alexander E. Kel, Edgar Wingender: TiProD: the Tissue-specific Promoter Database. Nucleic Acids Research 34(Database-Issue): 104-107 (2006)

V. Matys, Olga V. Kel-Margoulis, Ellen Fricke, Ines Liebich, Sigrid Land, A. Barre-Dirrie, Ingmar Reuter, D. Chekmenev, Mathias Krull, Klaus Hornischer, Nico Voss, Philip Stegmaier, Birgit Lewicki-Potapov, H. Saxel, Alexander E. Kel, Edgar Wingender: TRANSFAC^® and its module TRANSCompel^®: transcriptional gene regulation in eukaryotes. Nucleic Acids Research 34(Database-Issue): 108-110 (2006)

Anatolij Potapov, Ines Liebich, Jürgen Dönitz, Knut Schwarzer, Nicole Sasse, Torsten Schoeps, Torsten Crass, Edgar Wingender: EndoNet: an information resource about endocrine networks. Nucleic Acids Research 34(Database-Issue): 540-545 (2006)

Mathias Krull, Susanne Pistor, Nico Voss, Alexander E. Kel, Ingmar Reuter, Deborah Kronenberg, Holger Michael, Knut Schwarzer, Anatolij Potapov, Claudia Choi, Olga V. Kel-Margoulis, Edgar Wingender: TRANSPATH^®: an information resource for storing and visualizing signaling pathways and their pathological aberrations. Nucleic Acids Research 34(Database-Issue): 546-551 (2006)

T. Waleev, D. Shtokalo, Tatiana Konovalova, Nico Voss, Evgeny Cheremushkin, Philip Stegmaier, Olga V. Kel-Margoulis, Edgar Wingender, Alexander E. Kel: Composite Module Analyst: identification of transcription factor binding site combinations using genetic algorithm. Nucleic Acids Research 34(Web-Server-Issue): 541-545 (2006)

Alexander E. Kel, Tatiana Konovalova, Tagir Valeev, Evgeny Cheremushkin, Olga V. Kel-Margoulis, Edgar Wingender: Composite Module Analyst: A Fitness-Based Tool for Prediction of Transcription Regulation. German Conference on Bioinformatics 2005: 63-75

Torsten Crass, Iris Antes, Rico Basekow, Peer Bork, Christian Buning, Maik Christensen, Holger Claussen, Christian Ebeling, Peter Ernst, Valérie Gailus-Durner, Karl-Heinz Glatting, Rolf Gohla, Frank Gößling, Korbinian Grote, Karsten R. Heidtke, Alexander Herrmann, Sean O'Keeffe, O. Kießlich, Sven Kolibal, Jan O. Korbel, Thomas Lengauer, Ines Liebich, Mark van der Linden, Hannes Luz, Kathrin Meissner, Christian von Mering, Heinz-Theodor Mevissen, Hans-Werner Mewes, Holger Michael, Martin Mokrejs, Tobias Müller, Heike Pospisil, Matthias Rarey, Jens G. Reich, Ralf Schneider, Dietmar Schomburg, Steffen Schulze-Kremer, Knut Schwarzer, Ingolf Sommer, Stephan Springstubbe, Sándor Suhai, Gnanasekaran Thoppae, Martin Vingron, Jens Warfsmann, Thomas Werner, Daniel Wetzler, Edgar Wingender, Ralf Zimmer: The Helmholtz Network for Bioinformatics: an integrative web portal for bioinformatics resources. Bioinformatics 20(2): 268-270 (2004)

Alexander E. Kel, Yuri Tikunov, Nico Voss, Edgar Wingender: Recognition of multiple patterns in unaligned sets of sequences: comparison of kernel clustering method with other methods. Bioinformatics 20(10): 1512-1516 (2004)

Holger Michael, Xin Chen, Ellen Fricke, Martin Haubrock, Remko Ricanek, Edgar Wingender: Deriving an ontology for human gene expression sources from the CYTOMER? database on human organs and cell types. In Silico Biology 5 (2004)

Takako Takai-Igarashi, Toshihisa Takagi, Holger Michael, Edgar Wingender: Preface - Third "Ontology Workshop on Ontology and Genomes". In Silico Biology 5 (2004)

Holger Karas, Michael Tysiak, Edgar Wingender: Quo Vadis Bioinformatik, neue Konzepte und Arbeitsbereiche (Quo Vadis Bioinformatics - New Concepts and Areas). it - Information Technology 46(1): 48-50 (2004)

Alexander E. Kel, Nico Voss, Tatiana Konovalova, Dmitri Tchekmenev, P. Wabnitz, Olga V. Kel-Margoulis, Edgar Wingender: From Composite Patters to Pathways - Prediction of Key Regulators of Gene Expression. German Conference on Bioinformatics 2004: 189-198

Alexander E. Kel, Yuri Tikunov, Nico Voss, Jürgen Borlak, Edgar Wingender: Application of Kernel Method to Reveal Subtypes of TF Binding Motifs. Regulatory Genomics 2004: 42-51

Ekaterina Shelest, Alexander E. Kel, Ellen Gößling, Edgar Wingender: Prediction of potential C/EBP/NF-kappaB composite elements using matrix-based search methods. In Silico Biology 3: 7 (2003)

Olga V. Kel-Margoulis, Dmitri Tchekmenev, Alexander E. Kel, Ellen Gößling, Klaus Hornischer, Birgit Lewicki-Potapov, Edgar Wingender: Composition-sensitive analysis of the human genome for regulatory signals. In Silico Biology 3: 13 (2003)

Takako Takai-Igarashi, Toshihisa Takagi, Edgar Wingender: Preface. In Silico Biology 4 (2003)

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

Mathias Krull, Nico Voss, Claudia Choi, Susanne Pistor, Anatolij Potapov, Edgar Wingender: TRANSPATH: An integrated database on signal transduction and a tool for array analysis. Nucleic Acids Research 31(1): 97-100 (2003)

Richard Münch, Karsten Hiller, Heiko Barg, Dana Heldt, Simone Linz, Edgar Wingender, Dieter Jahn: PRODORIC: prokaryotic database of gene regulation. Nucleic Acids Research 31(1): 266-269 (2003)

V. Matys, Ellen Fricke, R. Geffers, Ellen Gößling, Martin Haubrock, R. Hehl, Klaus Hornischer, Dagmar Karas, Alexander E. Kel, Olga V. Kel-Margoulis, Dorothee-U. Kloos, Sigrid Land, Birgit Lewicki-Potapov, Holger Michael, Richard Münch, Ingmar Reuter, Stella Rotert, H. Saxel, Maurice Scheer, S. Thiele, Edgar Wingender: TRANSFAC®: transcriptional regulation, from patterns to profiles. Nucleic Acids Research 31(1): 374-378 (2003)

Alexander E. Kel, Ellen Gößling, Ingmar Reuter, Evgeny Cheremushkin, Olga V. Kel-Margoulis, Edgar Wingender: MATCHTM: a tool for searching transcription factor binding sites in DNA sequences. Nucleic Acids Research 31(13): 3576-3579 (2003)

Alexander E. Kel, Yuri Tikunov, Nico Voss, Edgar Wingender: Recognition of multiple patterns in unaligned sets of sequences. Comparison of kernel clustering method with other methods. German Conference on Bioinformatics 2003: 63-68

Edgar Wingender: The German Conference on Bioinformatics 2001. In Silico Biology 2: 14 (2002)

Olga V. Kel-Margoulis, Alexander E. Kel, Ingmar Reuter, Igor Deineko, Edgar Wingender: TRANSCompel®: a database on composite regulatory elements in eukaryotic genes. Nucleic Acids Research 30(1): 332-334 (2002)

Ines Liebich, Jürgen Bode, Matthias Frisch, Edgar Wingender: S/MARt DB: a database on scaffold/matrix attached regions. Nucleic Acids Research 30(1): 372-374 (2002)

Olga V. Kel-Margoulis, T. G. Ivanova, Edgar Wingender, Alexander E. Kel: Automatic Annotation of Genomic Regulatory Sequences by Searching for Composite Clusters. Pacific Symposium on Biocomputing 2002: 187-198

Frank Schacherer, Claudia Choi, Ulrike Götze, Mathias Krull, Susanne Pistor, Edgar Wingender: The TRANSPATH signal transduction database: a knowledge base on signal transduction networks. Bioinformatics 17(11): 1053-1057 (2001)

Edgar Wingender, Xin Chen, Ellen Fricke, R. Geffers, R. Hehl, Ines Liebich, Mathias Krull, V. Matys, Holger Michael, R. Ohnhäuser, M. Prüß, Frank Schacherer, S. Thiele, S. Urbach: The TRANSFAC system on gene expression regulation. Nucleic Acids Research 29(1): 281-283 (2001)

Anatolij Potapov, Edgar Wingender: Modeling the Architecture of Regulatory Networks. German Conference on Bioinformatics 2001: 6-10

Alexander E. Kel, Olga V. Kel-Margoulis, T. G. Ivanova, Edgar Wingender: ClusterScan: A Tool for Automatic Annotation of Genomic Regulatory Sequences by Searching for Composite Clusters. German Conference on Bioinformatics 2001: 96-101

Ellen Fricke, Sigrid Land, Stella Rotert, Dagmar Karas, Edgar Wingender: Cytomer: A database on gene expression sources. German Conference on Bioinformatics 2001: 149-151

Ellen Gößling, Olga V. Kel-Margoulis, Alexander E. Kel, Edgar Wingender: MATCH^TM - a tool for searching transcription factor binding sites in DNA sequences. Application for the analysis of human chromosomes. German Conference on Bioinformatics 2001: 158-161

Ulrike Götze, Susanne Pistor, Claudia Choi, Mathias Krull, Frank Schacherer, Nico Voss, Edgar Wingender: TRANSPATH - a database on signal transduction networks. German Conference on Bioinformatics 2001: 162-163

Olga V. Kel-Margoulis, Igor Deineko, Ingmar Reuter, Edgar Wingender, Alexander E. Kel: TRANSCompel® - a professional database on composite regulatory elements in eukaryotic genes. German Conference on Bioinformatics 2001: 185-187

Dorothee-U. Kloos, Claudia Choi, Edgar Wingender: The SMAD-TGF-beta SignallingNetwork: TRANSFAC meets TRANSPATH. German Conference on Bioinformatics 2001: 198-199

Ines Liebich, Maik Christensen, Edgar Wingender: ReAlSplice: A database on regulated alternative splicing. German Conference on Bioinformatics 2001: 206-207

Holger Michael, S. Thiele, Edgar Wingender: TRANSFAC®_YEAST. German Conference on Bioinformatics 2001: 208

Anatolij Potapov, Klaus Seidl, Maik Christensen, Volker Drewes, Frank Schacherer, Edgar Wingender: The integrated TRANSFAC system as a basis for modeling the architecture of gene regulatory networks. German Conference on Bioinformatics 2001: 218

Klaus Seidl, Edgar Wingender: -PheGe- a novel concept for in-silico analyses of genotype/phenotype relations. German Conference on Bioinformatics 2001: 226-227

Edgar Wingender (Ed.): Computer science and biology: Proceedings of the German Conference on Bioinformatics, GCB 2001, October 7-10, 2001, Braunschweig, Germany. German Research Center for Biotechnology 2001, isbn 3-00-008114-3

Edgar Wingender, Thomas Werner: In Memory of Dan Prestridge. In Silico Biology 1: 22 (2000)

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. Nucleic Acids Research 28(1): 311-315 (2000)

Edgar Wingender, Xin Chen, R. Hehl, Holger Karas, Ines Liebich, V. Matys, T. Meinhardt, M. Prüß, Ingmar Reuter, Frank Schacherer: TRANSFAC: an integrated system for gene expression regulation. Nucleic Acids Research 28(1): 316-319 (2000)

Alexander E. Kel, Igor Deineko, Olga V. Kel-Margoulis, Edgar Wingender, Vadim Ratner: Modeling of Gene Regulatory Network of Cell Cycle Control. Role of E2F Feedback Loops. German Conference on Bioinformatics 2000: 107-114

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. Bioinformatics 15(7): 669-686 (1999)

T. Heinemeyer, Xin Chen, Holger Karas, Alexander E. Kel, Olga V. Kel-Margoulis, Ines Liebich, T. Meinhardt, Ingmar Reuter, Frank Schacherer, Edgar Wingender: Expanding the TRANSFAC database towards an expert system of regulatory molecular mechanisms. Nucleic Acids Research 27(1): 318-322 (1999)

Alexander E. Kel, Olga V. Kel-Margoulis, Edgar Wingender: E2F composite units in promoters of cell cycle genes. German Conference on Bioinformatics 1999: 148-154

Xin Chen, Andreas W. M. Dress, Holger Karas, Ingmar Reuter, Edgar Wingender: A database framework for mapping expression patterns. German Conference on Bioinformatics 1999: 174-178

Xin Chen, Edgar Wingender: CYTOMER® : A database on gene expression sources. German Conference on Bioinformatics 1999: 182-183

Ines Liebich, Jürgen Bode, Edgar Wingender: S/MARt DB: A database on chromatin organizing S/MAR regions. German Conference on Bioinformatics 1999: 210-212

T. Meinhardt, M. Prüß, Edgar Wingender: PathoDB - a database that combines pathological data with molecular information. German Conference on Bioinformatics 1999: 212-213

Frank Schacherer, Edgar Wingender: The Transpath Signal Transduction Database. German Conference on Bioinformatics 1999: 223-225

L. Pickert, Ingmar Reuter, Frank Klawonn, Edgar Wingender: Transcription regulatory region analysis using signal detection and fuzzy clustering. Bioinformatics 14(3): 244-251 (1998)

Edgar Wingender: ISB: Just another journal? In Silico Biology 1: 1 (1998)

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. Nucleic Acids Research 26(1): 362-367 (1998)

Alexander E. Kel, Olga V. Kel-Margoulis, Vladimir N. Babenko, Nikolay A. Kolchanov, Edgar Wingender: Combinatorial identification of promoters induced upon immune cell activation. German Conference on Bioinformatics 1998

Edgar Wingender, Xin Chen, T. Heinemeyer, Alexander E. Kel, Ines Liebich, T. Meinhardt: A hierarchy of databases for modeling gene regulatory mechanisms. German Conference on Bioinformatics 1998

Edgar Wingender: Eine Hierarchie molekularbiologischer Datenbanken zur Beschreibung genregulatorischer Prozesse (Zusammenfassung). Workshop Data Mining und Data Warehousing 1998: 11

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. ISMB 1998: 95-104

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. Nucleic Acids Research 25(1): 265-268 (1997)

L. Pickert, Ingmar Reuter, Frank Klawonn, Edgar Wingender: Transcription regulation regions revealed by Signal detection and fuzzy clusterfng. German Conference on Bioinformatics 1997: 99-101

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. German Conference on Bioinformatics 1997: 171

Holger Karas, R. Knüppel, W. Schulz, Heinz Sklenar, Edgar Wingender: Combining structural analysis of DNA with search routines for the detection of transcription regulatory elements. Computer Applications in the Biosciences 12(5): 441-446 (1996)

Edgar Wingender, P. Dietze, Holger Karas, R. Knüppel: TRANSFAC: a database on transcription factors and their DNA binding sites. Nucleic Acids Research 24(1): 238-241 (1996)

Edgar Wingender, Holger Karas, P. Dietze, R. Knüppel, Heinz Sklenar: Combined Approaches for the Detection of Regulatory Genomic Signals. German Conference on Bioinformatics 1996: 58-63

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. German Conference on Bioinformatics - Selected Papers 1996: 99-105

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. German Conference on Bioinformatics 1996: 113-117

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. ISMB 1995: 197-205

R. Knüppel, P. Dietze, W. Lehnberg, Kornelie Frech, Edgar Wingender: TRANSFAC Retrieval Program: A Network Model Database of Eukaryotic Transcription Regulating Sequences and Proteins. Journal of Computational Biology 1(3): 191-198 (1994)