PhD Position Bayesian Modeling and Counterfactual Methods for Nanoparticle Transport in Human Tissue (Delft, NL, 2628 CD)

Job description 

We are looking for a PhD candidate to build the computational model at the center of a European project on nanoparticle transport in human tissue. You will join the research group of Dr. Sepinoud Azimi, working within the SYNERGIE project (Horizon Europe), a consortium of thirteen partners including Fraunhofer, Roche, the Karolinska Institute, University Hospital Aachen, Mimetas, Ruhr University Bochum and Maastricht University.

Small particles from the environment have been detected in human blood, placenta and brain tissue, but it is still not clear what they do there. Dose-response data for humans does not exist and animal studies have not transferred well, and as a result there is no exposure limit for these particles.

Part of the reason prediction is so hard is that a particle changes as it moves through the body. It acquires a layer of proteins, it aggregates with other particles, and depending on the material it may partly degrade, so that the particle reaching a given tissue is not the same object that was administered or characterised at the start. Most transport models do not account for this. They treat the particle as fixed, which means they are predicting the fate of something that has already changed.

The same difficulty affects engineered nanoparticles for drug delivery, and it is one of the reasons so few of them reach their intended target.

SYNERGIE is building a platform of nine human tissue-on-chip models that can be connected to follow a particle through uptake, circulation and storage. TU Delft leads the in silico work package.

As a PhD candidate, you will:

• Build a mechanistic model of how particles move between nine human tissues, and calibrate it against experimental data using Bayesian inference.
• Work out which physical and chemical properties of a particle decide where it ends up.
• Develop methods that go beyond prediction: for a particle that behaves badly, what is the smallest change that would fix it, and when should that answer not be trusted.
• Release the model as open-source software and support its use in regulatory dialogue.

You will also contribute to teaching in the department and to the supervision of BSc projects.

You will work alongside a postdoctoral researcher and PhD candidates on related problems, and interact with experimental partners across the SYNERGIE consortium. You will have access to the DelftBlue high-performance computing cluster.

The intended start date is January 2027.     

Job requirements 

• MSc in applied mathematics, computational science, physics, systems biology, or a closely related quantitative field.
• Demonstrated experience building and solving ODE or dynamical systems models.
• Demonstrated experience with Bayesian inference in a probabilistic programming framework such as PyMC, Stan or NumPyro.
• Strong scientific programming in Python. Please point us to a repository.
• Excellent written and spoken English.

Preferred qualifications:

• Continuous optimization or optimal control.
• Causal inference or counterfactual reasoning.
• Surrogate modelling, Gaussian processes, or emulation.
• Physiologically based pharmacokinetic modelling or systems pharmacology.
• Experience packaging and documenting scientific software.
• No background in toxicology, nanomaterials, chemistry or biology is required.  

TU Delft (Delft University of Technology) 

Working at TU Delft means contributing to solutions that really make a difference. 

For over 180 years, we have been training engineers who make an impact worldwide in companies, government bodies, or as entrepreneurs. Our alumni turn knowledge into concrete solutions for the challenges of today and tomorrow. These challenges are changing rapidly. That is why we focus on themes such as energy, climate, digitalisation, artificial intelligence (AI), and smart mobility every day. Our education and research are directly aligned with what society needs now and in the future. 

At TU Delft, our people make the difference. With their knowledge and curiosity, our staff provide a high-quality education and conduct pioneering research that extends beyond the campus. You will have the opportunity to take the initiative, work with others, and grow as a professional. Working at TU Delft means join an international community of professionals and students. Together, we create knowledge, innovations, and solutions that help move the world forward. 

Faculty Technology, Policy & Management 

The Faculty of TPM provides an important contribution to solving complex technical-social issues, such as energy transition, mobility, digitalisation, water management and (cyber) security. TPM does this with its excellent education and research at the intersection of technology, society and policy. We combine insights from both engineering and social sciences as well as the humanities. TPM develops robust models and designs, is internationally oriented and has an extensive network of knowledge institutions, companies, social organisations and governments. 

Click here to go to the website of the Faculty of Technology, Policy and Management.