Bachelor's theses

Contact: Manfred.Claassen (at) med.uni-tuebingen.de

Contact: tjeerd.dijkstra (at) uni-tuebingen.de

Lab name: Health NLP Lab
Website: https://health-nlp.org

Contact: carsten.eickhoff (at) uni-tuebingen.de

Research keywords:

• Natural Language Processing
• Explainable AI
• AI Safety
• Clinical AI

Theses in 2025:

• Agentic Document Textualization with Small Vision-Language Models: An Agentic Pipeline for Scientific Visual Content
• Information Extraction from Breast Cancer Reports for Tumor Boards
• Iterative Retrieval Augmented Generation for Multi-Hop Question Answering
• Using Machine Learning to predict adverse events in patients over 65 years undergoing cardiac surgery
• Christmas is coming bald: Exploring Representations of True Cognates and False Friends in Multilingual LLMs
• Machine learning based investigation of physical activity in mid-life parents: A multi-factorial approach
• Privacy in Medical AI: Evaluating Risks and Countermeasures for Protecting Patient Information
• Information Extraction from Radiation Oncology Reports
• From Geometry to Performance - Analyzing Embedding Space Structure in Large Language Models
• Understanding Unreliability of Steering Vectors in Language Models
• TruthAlign: Enhancing Fact-Checking Using Conflicting Words
• SPOT: Sparse Parameter-efficient Outlier-guided Tuning
• Contrastive Attribution Learning in Explainable Neural Text Classification
• Developing an Intelligent Search Engine for Cancer Therapy and Medication Documents Using Lucene and Advanced Relevance Algorithms

Contact: daniel.huson (at) uni-tuebingen.de

Research keywords:

• Phylogenetics
• Metagenomics
• Algorithms
• Software

Bachelor's theses in 2025:

• WebSplits - Platform for Phylogenetic Trees and Networks
• Extracting phylogenies from images using AI
• Development of pipeline for gene tree calculation from annotated long read MAGs and their visualization
• Evaluating the utility of DuckDB for on-demand querying and efficient storage of metagenomic alignments
• Assessing the viability of SQLite in the context of on-demand alignment for large genomic datasets
• Visualization of Phylogenetic Trees in Phylogenetic Networks

Contact: oliver.kohlbacher (at) uni-tuebingen.de

Research keywords:

• Translational bioinformatics
• Computational mass spectrometry
• Personalized medicine
• Research data infrastructures

Bachelor's theses in 2025:

• PDB2Net: Automated extraction of protein interaction networks from Three-Dimensional Structure
• Pipeline Entwicklung für Local Energy Decomposition (LED) mit Orca

Our group would be fine with either bachelor's or master's theses, as long as the students write their thesis in English.
We offer thesis topics on infection biology, computational drug discovery and method development for molecular dynamics and simulations. We are happy to discuss specifics over coffee and would appreciate it if the students sent a short motivation letter and CV.

Contact: thales.kronenberger (at) uni-tuebingen.de

Our research topics:

• AI for Medical Imaging (MRI, CT, PET)
• Multimodal Data Integration (Imaging + Clinical Data)
• Clinical Applications & Large-Scale Cohort Studies (NAKO, UK Biobank) 

Current topic information can be found here: https://www.medizin.uni-tuebingen.de/de/das-klinikum/einrichtungen/kliniken/radiologie/allgemeine-radiologie/forschung/ag-midas/teaching

Applications including topic(s) of interest, CV and transcript of records should be send to: midaslabthesis (at) gmail.com

Bachelor's theses in 2025:

• Investigation of biological age in large-scale population studies
• The aging heart: Associations between cardiac structure, function, and demographic factors in a population-based study

Research keywords:

• Protein sequence and structure analyses
• Machine learning approaches to protein structure prediction and design
• Prediction and classification of protein-protein interactions

Contact: andrei.lupas (at) tuebingen.mpg.de

When submitting your request for a thesis topic, please include your CV, transcripts, and a list of research methods you can carry out without extensive supervision. 

Bachelor's theses in 2025:

• Integrating Evolutionary Coupling and AlphaFold for the Discovery of Protein–Protein Interactions
• Assessing AlphaFold For Protein-Protein Interactions Involving Intrinsically Disordered Regions
• Functional Contextualization of the Signal Transduction Model Protein Af1503 by Interaction and Homolog Screening

Contact: sven.nahnsen (at) uni-tuebingen.de

Link: https://uni-tuebingen.de/de/140699

Research key words:

• Analysis and visualization of genomics
• Transcriptomics and/or proteomics data
• Analysis of (ancient) (pan-)genomic data, of expression data and of the transcriptome's architecture of prokaryotes
• Development of machine learning methods for dimensionality reduction and for analysis of proteomics data.

Former bachelor's theses

Contact: Dr. Thorsten Schmidt

Contact: nico.pfeifer (at) uni-tuebingen.de

Research keywords:

• Genome graphs
• Pangenomes
• Hyperdiverse regions of the genome

Theses in 2025:

• Genomic diversity of a local blast fungus population in Italy
• Genomic hypervariability of the essential gene P5CR in Arabidopsis thaliana
• Identification of novel gene duplication events in Arabidopsis thaliana genomes

According to the Max Planck Institute's website, applications should be sent directly to the relevant group leader.

Contact: nadine.ziemert (at) uni-tuebingen.de