PhD Position - C++ Software Engineering 3D Cell- Tissue Simulation Framework

PhD Position - C++ Software Engineering of a 3D Cell-Based Tissue Simulation Framework

ETH Zürich is a world‑leading university dedicated to advancing science and technology.

We are seeking a highly motivated PhD student to contribute to the further development of SimuCell3D
, a high‑performance C++ framework for simulating 3D tissues of thousands deformable cells—including extracellular matrix and cavities—within a single day [Runser et al., 2024, Nat Comput Sci 4, 299–309;
Tweetorial]. This platform allows investigation of tissue mechanics, cell polarization, and morphogenetic processes at unprecedented scale.

• Extending SimuCell3D with advanced numerical solvers for reaction‑diffusion systems
• Enhancing the biophysical capabilities of the C++ framework
• Applying the framework to morphogenetic questions using real imaging data
• Running large‑scale simulations on ETH’s HPC infrastructure
• Calibrating models, performing parameter screens, and validating predictions against experimental data

We are looking for candidates with:

• Strong computational skills in C++ and software engineering
• Strong background in computational science, applied mathematics, or computational biology
• Ideally, familiarity with numerical methods for PDEs (e.g., finite difference, finite element)
• HPC experience is a plus but not required
• Interest in biophysics, developmental biology, or cell signaling (no prior experience required)
• Independent, proactive, and structured work style
• Master’s students interested in starting with a thesis project on this topic are also encouraged to apply.

• Fully funded PhD with internationally competitive salary and comprehensive benefits, in accordance with ETH Zurich guidelines
• Access to ETH’s HPC clusters and state‑of‑the‑art research infrastructure
• Supportive, interdisciplinary research environment
• In line with our values, ETH Zurich encourages an inclusive culture. We promote equality of opportunity, value diversity and nurture a working and learning environment in which the rights and dignity of all our staff and students are respected. Visit our Equal Opportunities and Diversity website to find out how we ensure a fair and open environment that allows everyone to grow and flourish.
  
  Sustainability is a core value for us – we are consistently working towards a climate‑neutral future.

We look forward to receiving your online application with the following documents:

• Letter of Motivation
• CV
• Contact details of 2 referees

Please note that we exclusively accept applications submitted through our online application portal. Applications via email or postal services will not be considered.

Further information about the group can be found on our website. Questions regarding the position should be directed to Prof Iber by e‑mail: [email protected] (no applications).