SBI – Department of Systems Biology and Bioinformatics
Faculty of Computer Science and Electrical Engineering
University of Rostock
Ulmenstrasse 69 | 18057 Rostock
Germany
+49 381 498-7571
olaf.wolkenhauer@uni-rostock.de
Projects
Research Projects
Metabolic dysfunction-associated steatotic liver disease (MASLD), formerly known as non-alcoholic fatty liver disease (NAFLD), has a complex pathogenesis that requires an in-depth understanding of diagnostic and prognostic molecular patterns to develop effective clinical treatment strategies. Here, we present the MASLD Map, a comprehensive, web-based to investigate and simulate molecular processes involved in MASLD progression.
In collaboration with the Division of Gastroenterology at the Rostock University Medical Center (as part of the EnErGie project) we are developing an in-depth, standardized, and computationally encoded disease map of the molecular interactions regulating muscle growth and function. We integrated the two disease states intestinal dysfunctions (ID) and liver cirrhosis (LC) into the map to investigate their contribution to the loss of muscle function (sarcopenia).
The AIR is to provide an interactive platform connecting scientific and medical communities.
Academic background
| 2019 - present | PhD Student at the SBI |
| 2017 - 2019 | Master's degree in Medical Biotechnology, University of Rostock |
| 2014 - 2017 | Bachelor's degree in Medical Biotechnology, University of Rostock |
Selected publications
Cell-Type-Specific Gene Regulatory Networks of Pro-Inflammatory and Pro-Resolving Lipid Mediator Biosynthesis in the Immune System
Network analyses reveal new insights into the effect of multicomponent Tr14 compared to single-component diclofenac in an acute inflammation model
DOI: https://doi.org/10.1186/s12950-023-00335-0
Pubmed: 36973809
In silico investigation of molecular networks linking gastrointestinal diseases, malnutrition, and sarcopenia
Frontiers in Nutrition (2022)
Network- and enrichment-based inference of phenotypes and targets from large-scale disease maps
The Atlas of Inflammation-Resolution (AIR)
Large-scale knowledge graph representations of disease processes
NaviCenta – The disease map for placental research
COVID-19 Disease Map, a computational knowledge repository of virus-host interaction mechanisms
A systems appraoch to investigate inflammation resolution by multicomponent medicinal product TR14
(Re-)Programming of Subtype Specific Cardiomyocytes
Advanced Drug Delivery Reviews
Mechanistic Understanding of Inflammation Resolution Using the Atlas of Inflammation Resolution (AIR)
In: Tripathi, A., Dwivedi, A., Gupta, S., Poojan, S. (eds) Inflammation Resolution and Chronic Diseases. Springer, Singapore.
ISBN 13 (print): 978-981-97-0156-8
ISBN 13 (online): 978-981-97-0157-5
DOI: https://doi.org/10.1007/978-981-97-0157-5_13
URL: https://link.springer.com/chapter/10.1007/978-981-97-0157-5_13
Are Multi-Component Drugs Better in Resolving the Inflammation Compared to the Single-Component Drugs?
In: Tripathi, A., Dwivedi, A., Gupta, S., Poojan, S. (eds) Inflammation Resolution and Chronic Diseases. Springer, Singapore.
ISBN 13 (print): 978-981-97-0156-8
ISBN 13 (online): 978-981-97-0157-5
DOI: https://doi.org/10.1007/978-981-97-0157-5_10
URL: https://link.springer.com/chapter/10.1007/978-981-97-0157-5_10
Inflammation Resolution Mediators: Future Prospects
In: Tripathi, A., Dwivedi, A., Gupta, S., Poojan, S. (eds) Inflammation Resolution and Chronic Diseases. Springer, Singapore.
ISBN 13 (print): 9789819701568
ISBN 13 (online): 9789819701575
DOI: https://doi.org/10.1007/978-981-97-0157-5_9
URL: https://link.springer.com/book/10.1007/978-981-97-0157-5
Curation of an immune cell interactome and its analysis
2019
Master thesis within the study degree of Medical Biotechnology
The interconnectivity of immune cells has been the subject of research numerously due to its importance in different diseases such as autoimmune defects, (microbial) infections and cancer. Various cell types have already been identified that are regulated by a complex network of cytokines and small molecules, of which many may not have been discovered yet. Therefore, it is of great interest to understand these mechanisms as they form the basis for drug development and therapy design. In this project, methods were described to create and analyze a cell interactome of molecular intra- and intercellular communication processes. Many molecular interaction maps (MIMs) have already been developed to evaluate molecular processes in certain diseases or cells. However, they either lacked essential information necessary for accurate modeling of cell-cell interactions or were poorly clinically assessed. Here, systems biology-based rules were defined to model the molecular pathways of intercellular interactions of cells in detail. By mapping expression data of immune cell samples, individual cellular MIMs were created automatically and validated by comparing the results with the current knowledge in the field of immunology. In addition to analyzing intracellular signaling pathways, intercellular communication processes were investigated by connecting the MIMs. The outcomes of this work improve the system biology modeling of molecular interaction networks and further provide the basis for the efficient development of complex intercellular networks to investigate biological and molecular processes in silico.
Identification of activated signaling pathways in cardiac stem cell types by using network analysis
2017
Bachelor thesis within the study degree of Medical Biotechnology