PhD Position Bayesian Modeling and Counterfactual Methods for Nanoparticle Transport in Human Tissue

Delft University of Technology via AcademicTransfer; Netherlands; On-site; EUR 36,000 - 45,000; Full time

Job summary

Delft University of Technology (TU Delft) invites applications for a PhD candidate to build a computational model central to a Horizon Europe project on nanoparticle transport in human tissue. You will join the SYNERGIE consortium and lead in silico work within TU Delft, collaborating with international partners.

The role involves Bayesian inference, Python programming, and developing predictive models of particle transport, with a start date in January 2027.

Qualifications

• MSc in a quantitative field is required.
• 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.

Responsibilities

• 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: assess smallest changes to fix issues and when results cannot be trusted.
• Release the model as open‑source software and support its use in regulatory dialogue.

Skills

Bayesian inference in PyMC/Stan/NumPyр

Python programming

ODE/dynamical systems modelling

English communication

Education

MSc in applied mathematics, computational science, physics, systems biology, or related quantitative field

Job description

Delft University of Technology (TU Delft)

Organisation/Company Delft University of Technology (TU Delft) Research Field Engineering » Biomedical engineering Engineering » Chemical engineering Computer science » Programming Computer science » Modelling tools Researcher Profile First Stage Researcher (R1) Application Deadline 29 Nov 2026 - 22:59 (UTC) Country Netherlands Type of Contract Temporary Job Status Not Applicable Hours Per Week 38.0 Is the job funded through the EU Research Framework Programme? Not funded by a EU programme Is the Job related to staff position within a Research Infrastructure? No

Offer Description

Shape the future of nanoparticle safety and design. Join TU Delft as a PhD researcher using Bayesian and counterfactual modelling to predict nanoparticle transport in human tissue.

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.

Conditions of employment

Doctoral candidates will be offered a 4-year period of employment in principle, but in the form of 2 employment contracts. An initial 1,5 year contract with an official go/no go progress assessment within 15 months. Followed by an additional contract for the remaining 2,5 years assuming everything goes well and performance requirements are met.

Salary and benefits are in accordance with the Collective Labour Agreement for Dutch Universities, increasing from €3204 - €4051 gross per month, from the first year to the fourth year based on a fulltime contract (38 hours), plus 8% holiday allowance and an end‑of‑year bonus of 8.3%.

As a PhD candidate you will be enrolled in the TU Delft Graduate School. The TU Delft Graduate School provides an inspiring research environment with an excellent team of supervisors, academic staff and a mentor. The Doctoral Education Programme is aimed at developing your transferable, discipline-related and research skills.

The TU Delft offers a customisable compensation package, discounts on health insurance, and a monthly work costs contribution. Flexible work schedules can be arranged.

Will you need to relocate to the Netherlands for this job? TU Delft is committed to make your move as smooth as possible! The HR unit, Coming to Delft Service , offers information on their website to help you prepare your relocation. In addition, Coming to Delft Service organises events to help you settle in the Netherlands, and expand your (social) network in Delft. A Dual Career Programme is available, to support your accompanying partner with their job search in the Netherlands.

If you would like more information about this vacancy or the selection procedure, please contact Dr. Sepinoud Azimi, via [e-mail] .