Publications of Ralf Herwig

Journal Article (106)

Journal Article
Dieterich, C.; Herwig, R.; Vingron, M.: Exploring potential target genes of signaling pathways by predicting conserved transcription factor binding sites. Bioinformatics 19 (Suppl. 2), pp. ii50 - ii56 (2003)
Journal Article
Panopoulou, G.; Hennig, S.; Groth, D.; Krause, A.; Poustka, A. J.; Herwig, R.; Vingron, M.; Lehrach, H.: New evidence for genome-wide duplications at the origin of vertebrates using an amphioxus gene set and completed animal genomes. Genome Research 13 (6), pp. 1056 - 1066 (2003)
Journal Article
Herwig, R.; Schulz, B.; Weisshaar, B.; Hennig, S.; Steinfath, M.; Drungowski, M.; Stahl, D.; Wruck, W.; Menze, A.; O'Brien, J. et al.; Lehrach, H.; Radelof, U.: Construction of a 'unigene' cDNA clone set by oligonucleotide fingerprinting allows access to 25 000 potential sugar beet genes. The Plant Journal 32 (5), pp. 845 - 857 (2002)
Journal Article
Wierling, C. K.; Steinfath, M.; Elge, T.; Schulze-Kremer, S.; Aanstad, P.; Clark, M.; Lehrach, H.; Herwig, R.: Simulation of DNA array hybridization experiments and evaluation of critical parameters during subsequent image and data analysis. BMC Bioinformatics 3 (1), p. 29 - 29 (2002)
Journal Article
Gitton, Y.; Dahmane, N.; Baik, S.; i Altaba, A. R.; Neidhardt, L.; Scholze, M.; Herrmann, B. G.; Kahlem, P.; Benkhala, A.; Schrinner, S. et al.; Yildirimman, R.; Herwig, R.; Lehrach, H.; Yaspo, M.-L.: A gene expression map of human chromosome 21 orthologues in the mouse. Nature 420 (6917), pp. 586 - 590 (2002)
Journal Article
Fuchs, T.; Malecova, B.; Linhart, C.; Sharan, R.; Khen, M.; Herwig, R.; Shmulevich, D.; Elkon, R.; Steinfath, M.; O'Brien, J. K. et al.; Radelof, U.; Lehrach, H.; Lancet, D.; Shamir, R.: DEFOG: A Practical Scheme for Deciphering Families of Genes. Genomics 80 (3), pp. 295 - 302 (2002)

Book (2)

Klipp, E.; Liebermeister, W.; Wierling, C.; Kowald, A.; Lehrach, H.; Herwig, R.: Systems Biology: A Textbook. Wiley-VCH, Weinheim (2009), XXI, 569 pp: Ill., graphs. pp.
Klipp, E.; Herwig, R.; Kowald, A.; Wierling, C.; Lehrach, H.: Systems biology in practice: concepts, implementation and application. Wiley-VCH, Weinheim (2005), 466 pp pp.

Book Chapter (6)

Book Chapter
Hoehe, M. R.; Herwig, R.: Analysis of 1276 Haplotype-Resolved Genomes Allows Characterization of Cis- and Trans-Abundant Genes. In: Haplotyping. Methods in Molecular Biology (Springer Protocols), Vol. 2590, pp. 237 - 272 (Eds. Peters, B. A.; Drmanac, R.). Humana Press (Springer Science+Business Media, Springer-Verlag GmbH), New York, NY (2022)
Book Chapter
Hebels, D. G.; Rasche, A.; Herwig, R.; van Westen, G. J.; Jennen, D. G.; Kleinjans, J. C.: A Systems Biology Approach for Identifying Hepatotoxicant Groups Based on Similarity in Mechanisms of Action and Chemical Structure. In: In Silico Methods for Predicting Drug Toxicity (Ed. Benfenati , E.) (2016)
Book Chapter
Vilardell, M.; Herwig, R.: Predictive mechanisms in stem cells: an in vitro system based method for testing carcinogenicity. In: Handbook of Nanotoxicology, Nanomedicine and Stem Cell Use in Toxicology, pp. 337 - 346 (Eds. Sahu, . C.; Casciano, D. A.). John Wiley & Sons, Ltd, Hoboken, NJ (2014)
Book Chapter
Bauer, O.; Janitz, M.; Guerasimova, A.; Herwig, R.; Lehrach, H.; Radelof, U.: Oligonucleotide fingerprinting including differental cDNA library screning. In: Analysing gene expression. A handbook of methods: Possibilities and, pp. 463 - 471 (Eds. Lorkowski, S.; Cullen, P.). Wiley-VCH, Weinheim (2002)
Book Chapter
Herwig, R.; Lehrach, H.: Clustering gene expression profiles. In: Analysing gene expression. A handbook of methods: Possibilities and, pp. 790 - 798 (Eds. Lorkowski, S.; Cullen, P.). Wiley-VCH, Weinheim (2002)
Book Chapter
Herwig, R.; Schuchhardt, J.; Eickhoff, H.; Herzel, H.; Lehrach, H.: Datenanalyse von Biochips: Von der Sequenz zum System. In: Grundlagen der Molekularen Medizin, pp. 360 - 387 (Eds. Ganten, D.; Ruckpaul, K.). Springer Verlag, Berlin [u.a.] (2002)

Proceedings (1)

Reconstruction and validation of gene regulatory networks with neural networks. The 2nd Foundations of Systems Biology in Engineering Conference, FOSBE 2007, Stuttgart, September 09, 2007 - September 12, 2007. Universität Stuttgart, Stuttgart (2007), ? pp.

Thesis - PhD (1)

Thesis - PhD
Kamburov, A.: More complete and more accurate interactomes for elucidating the mechanisms of complex diseases. Dissertation (2012)

Other (1)

31st Animal Protection Research Prize of the Federal Ministry of Food, Agriculture and Consumer Protection for “A systems biology approach for predicting carcinogenesis of chemicals in the liver. (accepted)

Preprint (1)

Lienhard, M.; van den Beucken, T.; Timmermann, B.; Hochradel, M.; Boerno, S.; Caiment, F.; Vingron, M.; Herwig, R.: Long-read transcriptome sequencing analysis with IsoTools. (2021)
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