Teaching/ Project Supervision

Teaching (Master Bioinformatics)

Broad and comprehensive set of theoretical lectures and practical tutorials in the areas of structural bioinformatics and drug design for the master students of Freie University Berlin. The course begins with a general introduction of the drug design pipeline and an introductory course on the structural bioinformatics research field. I am involved in more specialized topics, amongst others in cheminformatics, natural product based drug discovery and more detailed aspects of toxicity prediction models. Lecture info at FU website : Lectureship

Theses/ Project supervision

Current:

  1. Emanuel Kemmler- Food Allergy (KFO) funded by DFG, PhD thesis (2021- present)

  2. Frederic Denhbostel - Natural Products chemical descriptors, Master thesis (Bioinformatics), Freie Universitaet Berlin, 2023

  3. Daniel Steiert: ProteinLigandHunter- identification of novel drug repurposing opportunities by integrating protein chemistry and protein similarity, Master Thesis (Bioinformatics), Freie Universitaet Berlin, 2022

  4. Alena Rzaeva: Explainable AI in chemical toxicity prediction, Master thesis (Bioinformatics), Freie Universitaet Berlin, 2023

Completed Theses:


  1. Wang- JU- Network-based Analysis of Gene-Protein-Chemical (drugs)involved in Polycystic Ovarian Syndrome (PCOS) Master thesis (Bioinformatics), Freie Universitaet Berlin, 2022

  2. Christina Kirschbaum: Machine Learning models for the prediction of off-target activities, Bachelor Thesis, Freie Universitaet Berlin, 2021

  3. Finnja Becker: Virtual Screening of COVID-19 Main Protease to Identify Potential Inhibitors Using SuperNatural II Database, Bachelor Thesis (Bioinformatics), Freie Universitaet Berlin, 2021

  4. Julian Bunzel- Analysis of molecular target-chemical space of liver toxicity- Master thesis (Bioinformatics), University of Potsdam (2021)

  5. Frederic Dehnbostel -Computational prediction of blood-brain-barrier permeability-Bachelor thesis, Freie Universitaet Berlin (2021)

  6. Alena Rzaeva -Computational prediction of chemical induced T-cell toxicity -Bachelor thesis, Freie Universitaet Berlin, 2021

  7. Emanuel Kemmler - Analysis of CAZymes among halophilic Archaea with Multivariate Statistics and Network Analysis - Master thesis (Bioinformatics), second Supervisor, Freie Universitaet Berlin, 2021

  8. Pon Ganish Prakash -Exhaustive analysis of toxic substructures in chemical data sets- Master thesis (Bioinformatics),Freie Universitaet Berlin, 2020

  9. Nils Wachsmann - Computational prediction of chemical induced nephrotoxicity -Bachelor thesis, Freie Universitaet Berlin, 2020

  10. Renata Abel -Computational prediction of the therapeutic potential of natural products based on Super Natural II database - Visiting researcher, Wroclaw Medical Univeristy, Poland, 2020

  11. Moritz Grahl - Development of novel in silico method for the prediction of biosynthetic pathways -Master thesis, Freie Universitaet Berlin, 2020

  12. Rascha Basaleh - Prediction and Analysis of Drugs Induced Liver Injury using ProTox-II Computational Tool - Bachelor thesis (Bioinformatics), Freie Universitaet Berlin, 2019

  13. Seyma Boz - Classification of the toxicity profile of the withdrawn drugs using computational prediction platform ProTox-II- Bachelor thesis (Bioinformatics), Freie Universitaet Berlin, 2019

  14. Vinoth Mohanakrishnan - Validation and Graphical User Interface Design of OPAS- Master thesis (Bioinformatics), Freie Universitaet Berlin, 2017

  15. Julian Bunzel - Analysis of molecular target-chemical space of DILI drugs- Bachelor thesis (Bioinformatics), Freie Universitaet Berlin, 2017

  16. Ebru Shn - Literature based mining of drug induced liver injury data-Bachelor Thesis (Bioinformatics), Freie Universitaet Berlin, 2016

  17. Franziska Fritz -Development of supersweet database- Bachelor Thesis (Bioinformatics), Freie Universitaet Berlin, 2016

  18. Fred Prackwieser - Machine learning models for prediction of Cytochrome P450 substrate -Bachelor Thesis (Bioinformatics), Freie Universitaet Berlin, 2016