Postdoc in Deep-Learning 3D Image Segmentation of the Brain Circuitry

at DTU Compute
Published December 6, 2022
Location Kgs. Lyngby, Denmark
Category Deep Learning  
Job Type Scholarship  



Do you want to use deep learning to segment the finest cellular structures responsible for the communication speed in the brain network - namely the micrometer-sized myelinated axons and their supporting cells? Are you up for the challenge to deploy your image processing and deep-learning pipelines to handle BIG images acquired at micrometer resolutions? Are you interested in doing all of this to help understand disease-induced effects on the 3D geometry of myelinated axons and cells and their correlation to brain function? Are you eager to work in a dynamic multi-disciplinary research environment with a focus on structural brain imaging? If yes, you should send us your application.

DTU Compute’s Section for Visual Computing is offering a postdoc in deep-learning 3D image segmentation of brain circuitry starting on 1 March 2023 or as soon as possible thereafter. The project is financed by the European Research Council (ERC) consolidator project ”CoM-BraiN” - Conduction Velocity Mapping in Brain Networks of healthy and disease - where we aim to use an MRI scanner to non-invasively map the conduction velocity of neuronal transmissions in the brain network between brain regions. The project will also be carried out at the Danish Research Centre for MR at Copenhagen University Hospital Hvidovre.

Responsibilities and qualifications
The overall focus of your job will be to establish segmentation methods to quantify geometries and organizations of cells and neurons based on ultra-high resolution 3D imaging data using deep learning methods. More specifically, you will combine anatomical feature information from multiple imaging modalities such as diffusion MRI, synchrotron imaging, light-sheet microscopy, and electron microscopy. Furthermore, you will be involved and participate in the data acquisition together with other experts to ensure the best possible data quality for your segmentation and image analysis methods.

We expect

  • You have a background in computer science, engineering, physics, or similar qualifications within image analysis and hold a Ph.D. degree (or equivalent) as a formal qualification
  • You have documented programming experience in e.g., Python or Matlab.
  • As a person, you have a good team spirit, an innovative and constructive thinking, research excitement.
  • You possess good English communication skills.

It will be a benefit if you have experience in data collection, image processing, and analysis of one of the image modalities.

We offer
DTU is a leading technical university globally recognized for the excellence of its research, education, innovation, and scientific advice. We offer a rewarding and challenging job in an international environment. We strive for academic excellence in an environment characterized by collegial respect and academic freedom tempered by responsibility.

Salary and terms of employment
The appointment will be based on the collective agreement with the Danish Confederation of Professional Associations. The allowance will be agreed upon with the relevant union.

The period of employment is 36 months with a start date of 1 March 2023 or as soon as possible thereafter.

You can read more about career paths at DTU here.

Further information
If you have questions concerning the project, you are more than welcome to contact Associate professor Tim Dyrby via mail at

You can read more about the Visual Computing section here and DTU Compute at at DTU as well as the Danish Research Centre for MR (

If you are applying from abroad, you may find useful information on working in Denmark and at DTU at DTU – Moving to Denmark.

Application procedure
Your complete online application must be submitted no later than 8 January 2023 (Danish time). Applications must be submitted as one PDF file containing all materials to be given consideration. To apply, please open the link "Apply online", fill out the online application form, and attach all your materials in English in one PDF file. The file must include:

  • Application (cover letter)
  • CV
  • Academic Diplomas (MSc/PhD – in English)
  • List of publications

Applications received after the deadline will not be considered.

All interested candidates irrespective of age, gender, disability, race, religion or ethnic background are encouraged to apply.

DTU Compute
DTU Compute is a unique and internationally recognized academic department with 385 employees and 11 research sections spanning the science disciplines mathematics, statistics, computer science, and engineering. We conduct research, teaching and innovation of high international standard – producing new knowledge and technology-based solutions to societal challenges. We have a long-term involvement in applied and interdisciplinary research, big data and data science, artificial intelligence (AI), internet of things (IoT), smart and secure societies, smart manufacturing, and life science. At DTU Compute we believe in a diverse workplace with a flexible work-life balance.

Technology for people
DTU develops technology for people. With our international elite research and study programmes, we are helping to create a better world and to solve the global challenges formulated in the UN’s 17 Sustainable Development Goals. Hans Christian Ørsted founded DTU in 1829 with a clear mission to develop and create value using science and engineering to benefit society. That mission lives on today. DTU has 13,400 students and 5,800 employees. We work in an international atmosphere and have an inclusive, evolving, and informal working environment. DTU has campuses in all parts of Denmark and in Greenland, and we collaborate with the best universities worldwide.