DILiS - Theses

Past thesis topics

Master's theses

• Julian Hesse (MSc Informatik, 2026): "Systematic benchmark for contrastive learning methods for drug target prediction"
• Yagmur Simsek (MSc Computational Sciences, 2026): "Extending the Python Package SimbaML: SBML Integration and Steady-State Learning for Systems Biology)
• Xhemal Kodragjini (MSc Data Science, 2025): "Disentangling Signaling Pathway Crosstalk by Universal Differential Equations"
• Swetha Rose Sebastian (MSc Bioinformatik, 2025): "Sample specific drug response prediction by differential analysis of multi-omics data using DrDimont"

Bachelor's theses

• Georg Sommerer (BSc Bioinformatik, 2026): "Using synthetic perturb-seq data derived from biological netwroks to train perturbation prediction ML models"
• Lasse Libisch (BSc Informatik, 2026): "Integrating single-sample molecular networks into DrDimont using LIONESS"
• Tuan Anh Ta (BSc Informatik, 2026): "Source detection in complex networks with GNNs"
• Paul Schatt (BSc Informatik, 2025): "Time Series Forecasting And Feature Attribution with Neural Controlled Differential Equations for Epidemiological Data"
• Zhaoguo Wei (BSc Informatik, 2025): "Quantifying the impact of aleatoric and epistemic uncertainty on drug response prediction in an active learning setting"
• Michael Flanderka (BSc Informatik, 2025): "Active learning in drug response prediction: A divergence-based approach"
• Amma Agyemang (BSc Bioinformatik, 2025): "Enrichment of PAH and extending network-based enrichment methods)
• Sören Seidack (BSc Bioinformatik, 2025): "Entwicklung und Evaluation eines Ensemble-Learning-Moduls für das DrEvalPy Framework"
• Nathan Ritter (BSc Informatik, 2025): "Explaining uncertainty for classification in language models (scoring for reviews (google Bewertungen), reviews von papers)"
• Camila Baselly (BSc Bioinformatik, 2025): "Simulation-Based Transfer Learning in Systems Biology: Modeling Insulin Dynamics with ODE-Generated Data"
• Ma Hoang Vuong Nguyen (BSc Bioinformatik, 2025): "The influence of different human molecular interaction networks on CombDNF’s disease-specific drug combination prediction"
• Bugra Örnek (BSc Informatik, 2025): "Integration und praktische Anwendung der Datenprovenienz"
• Dennis Kragen (BSc Bioinformatik, 2025): "Performance-Analyse von Datenbankoperationen auf synthetischen Patientenakten Einfluss von Normalformen und Datensatzgröße"
• Janina Krentz (BSc Bioinformatik, 2025): "Integration of kinases into analysis of pulmonary arterial hypertension data"
• Annika Malze (BSc Bioinformatik, 2025): "Evaluierung des PaccMann Modells für die Prädiktion der Medikamentensensitivität von Krebszelllinien"
• Gesa Röefzaad (BSc Bioinformatik, 2024): "Evaluation of various disease-specific changes in protein interaction networks regarding drug combination response motifs"
• Jonah Reiner (BSc Bioinformatik, 2024): "Drug Response Prediction in Cancer Cell Lines: Ablation Study and Input Modality Analysis of a Graph-Informed Deep Neural Network Model using Permutations"
• Thea Steuerwald (BSc Bioinformatik, 2024): "Multi-omics Analysis of Pulmonary Arterial Hypertension Data"
• Lilly Wiesman (BSc Bioinformatik, 2024): "Evaluation of different protein interaction networks and their versions regarding drug combination response motifs"
• Carina Fischer (BSc Bioinformatik, 2024): "Effects of single and multiple perturbations within the ERK, PI3K/Akt and Wnt/β-catenin signalling network using ODE vs. network diffusion"
• Irma Klünker (BSc Bioinformatik, 2024): "Sequence data in patent applications for fair and equitable benefit sharing under a potential WHO Pandemic Treaty"
• Janina Hantke (BSc Informatik, 2024): "Analysis of the structure and diversity of electronic health records for their use in research"
• Jan Ehlting (BSc Informatik, 2024): "Computergestützte Methodik zur Simulation und Untersuchung struktureller Veränderungen in Proteinnetzwerken"