PhD position in deep learning for biomedical image analysis bei UKE Universitätsklinikum Hamburg Eppendorf

Main tasks

The University Medical Center Hamburg-Eppendorf (UKE) is one of Europe's most modern clinics. Located close to the city center of Hamburg, the UKE fosters interdisciplinary research bridging medicine, basic and applied biomedical research, and teaching. Medical specialists and research scientists closely collaborate to develop and apply state-of-the-art technology to gain novel insights into human pathology and to provide optimal care for our patients.

The Group of Computational Pathology is part of the Institute of Medical Systems Biology (IMSB), and is a young team working on biomedical image analysis, in particular microscopy images. It is led by Prof. Dr. Marina Zimmermann. The group is also a member of bAIome, the Center for Biomedical AI (www.baiome.org), a platform at UKE where AI and clinical expertise team up with the aim of bringing next-generation software solutions into the clinic.

We currently offer a position in biomedical image analysis using deep learning and are looking for highly motivated students and graduates to complement our lively and enthusiastic team of scientists starting on 1st November 2023. Embedded in our group, the successful candidate will develop state-of-the-art deep learning-based algorithms and apply them to a wide range of medical problems.

The specific topic of interest is:

• Design of novel and application of existing cutting-edge computer vision algorithms (e.g. U-Net, EfficientNet, Vision Transformers) for the automatic classification and segmentation of microscopy data (supervised, weakly supervised and unsupervised), and the subsequent prediction of disease progression in direct collaboration with clinical researchers.

Your Profile

• Master’s degree in computer science, mathematics or related fields.
• Solid understanding of deep learning and relevant frameworks (e.g. Pytorch or Tensorflow, Keras, scikit-learn, scikit-image, OpenCV).
• Good communication skills to interact with collaborators ranging from machine learning researchers to pathologists or medical students.
• Experience in at least one of the following areas: digital image processing and analysis, deep learning, computer vision.
• Knowledge of biology and/or medicine, as well as experience in interdisciplinary teams are a plus.
• Proficiency in Python and Linux environments.
• Highly motivated with an interest to work in an interdisciplinary team spanning machine learning, bioinformatics, and medicine.
• Fluency in English.

Immunity status

Our Offer

• Regular pay according to TVöD/VKA; attractive company pension plan and various employee discounts
• 30 days of vacation; possibility of special leave
• Central location: Our clinic is centrally located at the beautiful Eppendorfer Park