Dr. Josch K. Pauling

LipiTUM - Computational Systems Medicine on Lipids and Metabolism

The Team  

My name is Tim Rose. I'm a PhD student in the LipiTUM group. I received my Bachelor's degree in Quantitative Biology in Düsseldorf, where I did my thesis on equilibrium behavior of the Pentose Phosphate Pathway. After that, I worked on a master's project in modeling of radiation response of cancer cells to obtain a M.Sc. degree in Biophysics. My research interests are analysis and modeling of multi-omics data, development of software tools for simulations/analysis and HPC. I think the utilization of multi-omics data is the key to infer the complexity of cells and get an understanding of how the different levels relate to each other and result in a specific phenotype. In my PhD project I work on data mining, analysis pipelines and the integration of lipidomics with other omics data.

I am Kundai Sachikonye, a PhD student in the LipiTUM group. My PhD project aims at developing methods for the identification and quantification of lipid species in (LC-)MSn by contributing to develop the LipiTUM platform which will encompass the following features: instrument independent peak list extraction from raw data, feature finding algorithms for deisotoping and quantification, fragmentation rules and deep learning, statistical routines for feature scoring, identification confidence and quality control, and web service-based applications for visualization of results. I did my Bachelor's degree in Biochemistry and Cell Biology at Jacobs University Bremen and graduate studies in Pharmaceutical Biotechnology, Clinical Chemistry and Bioinformatics at HAW Hamburg,  UKE Hamburg and  Eberhard Karls Universität Tübingen. Up until my new position at TUM I worked as a scientific assistant at the Fraunhofer IGB in Stuttgart.

My name is Nikolai Köhler. I started my PhD in the LipiTUM group in November 2020, after completing a Master's degree in Molecular Biotechnology at TUM. My Master's Thesis, which I also conducted in the LipiTUM group, was focussing on the computational analysis of multi-organ lipidome changes in response to Hepatocellular Carcinoma and Cachexia. During my studies I also gained practical experience in mass spectrometry through an internship in the lab of Ute Roessner at the University of Melbourne. In my time as a PhD student I will be working on the development of data analysis methods for lipidomic and metabolomic data and their integration with other types of omics data in the context of microbiota. By applying these methods in collaborations they can hopefully contribute to the mechanistic understanding of various diseases and thereby help improve diagnostic procedures and treatments.

My name is Lisa Falk, a master student in Molecular Biotechnology with a background in Bioinformatics. I received my Bachelor’s degree at the University of Tübingen with a thesis on Qualitative Models. As a HiWi I contribute to existing projects. Currently, I work with lipid related databases, extract and map relevant data and make them easier accessible.

My name is Vivian Würf. I’m a bachelor student in Bioinformatics at the LMU and TUM with a background in molecular biotechnology. I received my Master’s degree in Nutrition and Biomedicine from the Technical University of Munich with a thesis on the effects of the cytokine GDF15 on energy balance and chronic inflammatory response. As a HiWi I will contribute to existing projects and collaborations. For my bachelors thesis here at the LipiTUM group I will work on a deep learning model for the identification and prediction of characteristic mass spectrometry fragmentation patterns of lipids for the LipiTUM platform. 

My name is Lucie Klischat, I am a bachelor student in Bioinformatics at TUM and LMU. I study Medicine at TUM additionally. In my bachelor thesis I will create a lipid-enzyme-network for a disease and search for important lipids in this disease. Recently I started to work as a HiWi at LipiTUM as well. In the current project I will take a close look at lipid related databases and contribute to create a database containing as much lipid-enzyme information as possible.

Former Members

Dr. Evans Kataka (2020)