With pleasure the Department of Toxicogenomics (TGX) in collaboration with the School for Oncology and Developmental Biology (GROW) would like to invite you to a lecture “Network-based analysis of 'omics data in toxicology” by Dr. Ralf Herwig, Max-Planck-Institute for Molecular Genetics.

Date: December 7th Time: 10:00 - 11:00 Room: UNS40 C5.553a

In his lecture Dr. Ralf Herwig will focus on results for the computational analysis of human in vitro toxicogenomics data from several projects funded by the European Commission (carcinoGENOMICS, diXA, HeCaToS). The first part of the talk presents recent results on epigenome analysis. While the use of transcriptome data is fairly elaborated in toxicogenomics, epigenomic applications for example with methylation assays are still rare. We describe the use of whole-genome methylation assays in the context of human cancer and drug profiling. In particular, we have developed a computational method, QSEA, to analyse and quantify genome-wide methylation [1]. The second part of the talk presents a network-based approach for the interpretation and integration of different 'omics data. For a given experiment, for example a drug treatment, we map 'omics data onto molecular interaction networks and use network propagation in order to derive network modules that are primarily influenced by the experiment under study. This allows i) prioritization and biomarker discovery as well as ii) connecting different complementary bits of information from different 'omics experiments. Since the approach builds on pre-annotated networks, we introduce our computational resource for human molecular interactions, the ConsensusPathDB, that integrates the content of thirty publicly available interaction databases and that holds functionality for interpreting high-throughput data at the network level [2].

Dr. Ralf Herwig studied mathematics and computer science at the Free University of Berlin and, since 2001, heads a bioinformatics group at the Max-Planck-Institute for Molecular Genetics. The group develops methods, tools and resources for genome analysis in order to interpret genome data in the context of human diseases and to build predictive computational models for the underlying disease processes. The Herwig group contributed software development for genome analysis such as the BioConductor packages MEDIPS and QSEA for epigenome analysis and hosts the molecular interaction resource ConsensusPathDB. Herwig is involved, among others, in several toxicogenomics projects and received the 31st Animal Protection Research Prize of the German Ministry of Education in 2012.

References: [1] Lienhard M, Grasse S, Rolff J, Frese S, Schirmer U, Becker M, Börno S, Timmermann B, Chavez L, Sültmann H, Leschber G, Fichtner I, Schweiger MR, Herwig R. QSEA - modelling of genome-wide DNA methylation from sequencing enrichment experiments. Nucleic Acids Res. 2017 Apr 7;45(6):e44. doi: 10.1093/nar/gkw1193. [2] Herwig R, Hardt C, Lienhard M, Kamburov A. Analyzing and interpreting genome data at the network level with ConsensusPathDB. Nat Protoc. 2016 Oct;11(10):1889-907. doi: 10.1038/nprot.2016.117. Epub 2016 Sep 8.

Posted on Nov 27, 2017