DG Hebels et al. (2014) Evaluation of database-derived pathway development for enabling biomarker discovery for hepatotoxicity. Biomark Med., 8 (2): 185-200
G Reiner et al. (2014) Identification of QTL affecting resistance/susceptibility to acute Actinobacillus pleuropneumoniae infection in swine. Mamm Genome,25 (3-4): 180-91
M Lienhard, C Grimm, M Morkel, R Herwig, L Chavez (2014) MEDIPS: Genome wide differential coverage analysis of sequencing data derived from DNA enrichment experiments. Bioinformatics, 30 (2): 284-6
V Jankowski et al. (2013) The enzymatic activity of the VEGFR2 receptor for the biosynthesis of dinucleoside polyphosphates. J Mol Med (Berl), 91 (9): 1095-107.
ML Fogeron et al. (2013) LGALS3BP regulates centriole biogenesis and centrosome hypertrophy in cancer cells. Nat Commun., 4: 1531
C Grimm et al. (2013) DNA-methylome analysis of mouse intestinal adenoma identifies a tumour-specific signature that is partly conserved in human colon cancer. PLoS Genet., 9 (2): e1003250
TY Doktorova et al. (2013) Transcriptomic responses generated by hepatocarcinogens in a battery of liver-based in vitro models. Carcinogenesis, 34 (6): 1393-402
B Suter et al. (2012) Development and application of a DNA microarray-based yeast two-hybrid system. Nucleic Acids Res., 41 (3): 1496-507
A Kamburov, U Stelzl, H Lehrach, R Herwig (2012) The ConsensusPathDB interaction database: 2013 update. Nucleic Acids Res., 41 (D1): D793-800
A Kamburov, A Grossmann, R Herwig, U Stelzl (2012) Cluster-based assessment of protein-protein interaction confidence. BMC Bioinformatics, 13 (1): 262
F Dreher et al. (2012) DIPSBC - data integration platform for systems biology collaborations. BMC Bioinformatics, 13 (1): 85
J van Delft, S Gaj, M Lienhard et al. (2012) RNA-seq provides new insights in the transcriptome responses induced by the carcinogen benzo[a]pyrene. Toxicol Sci., 130 (2): 427-39
A Kamburov, U Stelzl, R Herwig (2012) IntScore: a web tool for confidence scoring of biological intractions. Nucleic Acids Res., 40 (Web Server issue): W140-6
F Dreher et al (2012) DIPSBC - Data Integration Platform for Systems Biology Collaborations. BMC Bioinformatics, 13 (1): 85
F Dreher, A Kamburov, R Herwig (2012) Construction of a pig physical interactome using a sequence homology and a comprehensive reference human interactome. Evol Bioinform Online., 8: 119-26
C Wierling et al. Prediction in the face of uncertainty: a Monte Carlo-based approach for systems biology of cancer treatment. Mutat Res., 746 (2): 163-70
T Meinel, MR Schweiger, AH Ludewig, R Chenna, S Krobitsch, R Herwig (2011) Ortho2ExpressMatrix - a web server that interprets cross-species gene expression data by gene family information. BMC Genomics, 12 (1): 483
H Müller, D Schmidt, F Dreher, R Herig, A Ploubidou, BM Lange (2011) Gene ontology analysis of the centrosome proteomes of Drosophila and human. Commun Integr Biol., 4 (3): 308-11
M Kerick et al. (2011) Targeted high throughput sequencing in clinical cancer settings: formaldehyde fixed-paraffin embedded (FFPE) tumor tissues, input amount and tumor heterogeneity. BMC Med Genomics., 4 (1): 68
A Kamburov, R Cavill, TM Ebbels, R Herwig, HC Keun (2011) Integrated pathway-level analysis of transcriptomics and metabolomics data with IMPaLA. Bioinformatics, 27 (20): 2917-8
R Yildirimman et al. (2011) Human embryonic stem cell derived hepatocyte-like cells as a tool for in vitro hazard assessment of chemical carcinogenicity. Toxicol Sci., 124 (2): 278-90
M Vilardell, A Rasche, A Thormann, E Maschke-Dutz, LA Pérez-Jurado, H Lehrach, R Herwig (2011) Meta-analysis of heterogeneous Down Syndrome data reveals consistent genome-wide dosage effects related to neurological processes. BMC Genomics, 12: 229
R Cavill, A Kamburov, JK Ellis, TJ Athersuch, MS Blagrove, R Herwig, TM Ebbels, HC Keun (2011) Consensus-phenotype integration of transcriptomics and metabolomic data implies a role for metabolism in the chemosensitivity of tumour cells. PLoS Comput Biol., 7 (3): e1001113
The 1000 Genomes Project Consortium (2010) A map of human genome variation from population-scale sequencing. Nature, 467(7319):1061-73
A Kamburov, K Pentchev, H Galicka, C Wierling, H Lehrach, R Herwig (2010) ConsensusPathDB: toward a more complete picture of cell biology. Nucleic Acids Res.39 (Database issue): D712-7
K Pentchev, K Ono, R Herwig, T Ideker, A Kamburov (2010) Evidence mining and novelty assessment of protein-protein interactions with the ConsensusPathDB plugin for Cytoscape. Bioinformatics, 26(21):2796-7
H Müller et al. (2010) Proteomic and functional analysis of the mitotic Drosophila centrosome. EMBO J., 29(19):3344-57
L Chavez, J Jozefczuk, C Grimm, J Dietrich, B Timmermann, H Lehrach, R Herwig, J Adjaye (2010) Computational analysis of genome-wide DNA methylation during the differentiation of human embryonic stem cells along the endodermal lineage. Genome Res.20(10):1441-50
J Jozefczuk, H Stachelscheid, L Chavez, R Herwig, H Lehrach, K Zeilinger, JC Gerlach, J Adjaye (2010) Molecular characterization of cultured adult human liver progenitor cells. Tissue Eng Part C Methods
A Rasche, R Herwig (2010) ARH: predicting splice variants from genome-wide data with modified entropy Bioinformatics, 26(1): 84-90
L Chavez, AS Bais, M Vingron, H Lehrach, J Adjaye, R Herwig (2009) In silico identification of a core regulatory network of OCT4 in human embryonic stem cells using an integrated approach. BMC Genomics, 10:314
H Hache, C Wierling, H Lehrach, R Herwig (2009) GeNGe: systematic generation of gene regulatory networks. Bioinformatics, 25(9):1205-7
H Hache, H Lehrach, R Herwig (2009) Reverse engineering of gene regulatory networks: a comparative study. EURASIP J Bioinform Syst Biol.: 617281
A Kamburov, C Wierling, H Lehrach and R Herwig (2009) ConsensusPathDB - a database for integrating human functional interaction networks. Nucleic Acids Res., 37 (Database issue): D623-8
A Rasche, H Al-Hasani, R Herwig (2008) Meta-analysis approach identifies candidate genes and associated molecular networks for type-2 diabetes mellitus. BMC Genomics, 9:310
A Rasche, R Herwig (2007) Identification of marker genes for type 2 diabetes. Genes Nutr., 2(1): 137
Hache, H., Wierling, C., Lehrach, H., Herwig, R. (2007) Reconstruction and Validation of Gene Regulatory Networks with Neural Networks. Proceedings of the 2nd Foundations of Systems Biology in Engineering Conference (FOSBE), Stuttgart, 319-324.
Wierling, C. and Herwig, R. (2006) Systems biology and drug discovery - A new path in genome research. Screening - Trends in drug discovery, 7(3):39-41.
Herwig, R., and Lehrach, H. (2006) Expression profiling of drug response - from genes to pathways. Dialogues in Clinical Neuroscience, 8(3):283-293.
Dickmeis, T., Plessy, C., Rastegar, S., Aanstad, P., Herwig, R., Chalmel, F., Fischer, N. and Strähle, U. (2004). Expression profiling and comparative genomics identify a conserved regulatory region controlling midline expression in the zebrafish embryo. Genome Res.14, 228-238
Panopoulou, G., Hennig, S., Groth, D., Krause, A., Poustka, A., Herwig, R., Vingron, M. and Lehrach, H. (2003). New Evidence for Genome-Wide Duplications at the Origin of Vertebrates Using an Amphioxus Gene Set and Completed Animal Genomes. Genome Res.13, 1056-1066.
Gitton, Y., Dahmane, N., Baik, S. and Altaba, R. (Group 1), Neidhardt, L., Scholze, M. and Herrmann, B. (Group 2), Kahlem, P., Ben-Kahla, A., Schrinner, S., Yildirimman, R., Herwig, R., Lehrach, H. and Yaspo, M.-L. (Group 3) (Groups contributed equally) (2002). A gene expression map of human chromosome 21 orthologues in the mouse. Nature420, 586-590
Wierling, C.K., Steinfath, M., Elge, T., Schulze-Kremer, S., Aanstad, P., Clark, M., Lehrach, H. and Herwig, R. (2002). Simulation of DNA array hybridization experiments and evaluation of critical parameters during subsequent image and data analysis. BMC Bioinformatics3, 29
Herwig, R., Aanstad, P., Clark, M. and Lehrach, H. (2001). Statistical evaluation of differential expression on cDNA nylon arrays with replicated experiments. Nucleic Acids Res. 29, e117.
Clark, M., Hennig, S., Herwig, R., Clifton, S., Marra, M., Lehrach, H., Johnson, S. and the WU-GSC EST Group. (2001). An Oligonucleotide Fingerprint Normalized and Expressed Sequence Tag Zebrafish cDNA Library. Genome Res.11, 1594-1602
Herwig, R., Schmitt, A.O., Steinfath, M., O'Brien, J., Seidel, H., Meier-Ewert, S., Lehrach, H. and Radelof, U. (2000). Information theoretical probe selection for hybridisation experiments. Bioinformatics16, 890-898
Hennig, S., Herwig, R., Clark, M., Aanstad, P., Musa, A., O'Brien, J., Bull, C., Radelof, U., Panopoulou, G., Poustka, A. and Lehrach, H. (2000). A data-analysis pipeline for large-scale gene expression analysis. In Proceedings of the 4th Annual International Conference on Research in Computational Molecular Biology RECOMB 2000 (eds R. Shamir et al.), 165-173. ACM Press, New York.
Herwig, R., Poustka, A., Müller, C., Bull, C., Lehrach, H. and O'Brien, J. (1999). Large-scale clustering of cDNA fingerprinting data. Genome Res.9, 1093-1105
Meier-Ewert, S., Lange, J., Gerst, H., Herwig, R., Schmitt, A.O., Freund, J., Elge, T., Mott, R., Herrmann, B., and Lehrach, H. (1998). Comparative gene expression profiling by oligonucleotide fingerprinting. Nucleic Acids Res.26, 2216-2223