PhD Positions in Geometric Machine Learning in Medical Image Analysis

University of Amsterdam Informatics Institute

2 PhD Positions in Geometric Machine Learning in Medical Image Analysis

Publication date 6 April 2020

Closing date 6 May 2020

Level of education Master's degree

Hours 38 hours per week

Salary indication €2,325 to €2,972 gross per month

Vacancy number 20-219

Are you interested in finding out how geometry can improve the effectiveness of deep learning with complex data structures and problems? We are looking for two PhD students interested in investigating geometric structure in data (e.g., structure of signals and shapes), machine learning architectures (e.g., group convolutional neural networks, graph neural networks, and representation embeddings), and scientific problems (e.g., with symmetry/equivariance constraints). You will employ the obtained insights to develop machine learning techniques that enable learning-based engineering for new data types and problems, and improve upon existing approaches on a fundamental level.

The primary focus of this project is on the analysis of medical image data for its variety of complex data structures and problems that could benefit from a deep geometric understanding of the data and underlying anatomical structures (e.g. shapes, texture and context). Although this is a core focus, you are encouraged to explore and demonstrate the broader applicability of geometric machine learning beyond medical image analysis, e.g., in computer vision, physics, molecular sciences, and scientific computing.

You are going to carry out research under the supervision of dr Erik Bekkers at the Amsterdam Machine Learning Lab (AMLab) of the Informatics Institute.

What are you going to do?

You are expected to:

  • invent, evaluate, and describe novel algorithms for the analysis of data based on geometric methods;
  • present research results at international conferences, workshops, and journals;
  • become an active member of the research community and collaborate with other researchers, both within and outside the Informatics Institute;
  • pursue, complete, and defend a PhD thesis within the contract duration of four years;
  • assist in teaching activities, such as teaching labs and tutorials or supervising bachelor and master students.

What do we require?

  • A Master’s degree (or close to obtaining one) in Artificial Intelligence, Applied Mathematics, Computer Science, Biomedical Engineering, Physics, or a closely related field;
  • A strong scientific and mathematical background in machine learning, deep learning, medical image analysis or computer vision;
  • You are eager to tackle challenging scientific problems and gain in-depth understanding of complex geometric problems;
  • Good programming skills, experience with Python and deep learning toolkits is preferred;
  • You are able to work well in teams and communicate fluently in written and spoken English.

Creativity and intrinsic motivation are greatly appreciated!

Our offer

A temporary contract, preferably starting as soon as possible (but flexible), for 38 hours per week for the duration of 18 months. After a satisfactory evaluation the contract will be extended by 30 months and should lead to a dissertation (PhD thesis). You will get a customized Training and Supervision Plan, that will be evaluated every year.

The salary, depending on relevant experience before the beginning of the employment contract, will be €2,325 to €2,972 (scale P) gross per month, based on full-time employment (38 hours a week). These amounts are exclusive 8 % holiday allowance and 8,3 % end-of-year bonus. A favorable tax agreement, the ‘30% ruling’, may apply to non-Dutch applicants. The Collective Labour Agreement of Dutch Universities is applicable.

Are you curious about our extensive package of secondary employment benefits like our excellent opportunities for study and development? Then find out more about working at the Faculty of Science.

About the Faculty of Science

The Faculty of Science has a student body of around 6,500, as well as 1,600 members of staff working in education, research or support services. Researchers and students at the Faculty of Science are fascinated by every aspect of how the world works, be it elementary particles, the birth of the universe or the functioning of the brain.


Do you have questions about this vacancy? Or do you want to know more about our organisation? Please contact:

  • Dr Erik Bekkers, Assistant professor 

Job application

The UvA is an equal-opportunity employer. We prioritise diversity and are committed to creating an inclusive environment for everyone. We value a spirit of enquiry and perseverance, provide the space to keep asking questions, and promote a culture of curiosity and creativity.

The Informatics Institute strives for a better gender balance in its staff. We therefore strongly encourage women to apply for this position.

Do you recognize yourself in the job profile? Then we look forward to receiving your CV and cover letter by 6 May 2020. You can apply online by using the link below.

Applications should include (All items should be grouped into a single PDF file):

    • a motivation letter that explains the reasons for applying to the position;
    • a curriculum vitae, including a list of publications if applicable;
    • a complete record of your Bachelor and Master courses, included grades and explanation of the grading system;
    • the names and contact addresses of at least two academic references (please do not include reference letters);
    • a link or copy of your master thesis.