Career

We welcome applications for:

PhD student in Medical Image Analysis with Deep Learning

We are offering a PhD position in the domain of Machine Learning for Medical Imaging. The focus of the research is on Representation Learning (self-supervised learning) techniques from multimodal data (multimodal images and clinical records) to build robust, scalable, and explainable AI for interpreting retinal pathology from large-scale longitudinal 3D optical coherence tomography (OCT) images of human eye. Applications are in learning and predicting patient-specific disease progression and treatment response. These data-driven disease-progression models will allow assessing individualized risk and prognosis of retinal disease and will have a real world impact on clinical management of patients suffering from retinal diseases, a leading cause of blindness today.

The successful candidate will be immersed into an interdisciplinary environment working closely with a team of computer scientists, software engineers and medical doctors in the field of AI in Retina. The work will be part of a joint initiative with Johannes Kepler University (Prof. G√ľnter Klambauer, and Prof. Sepp Hochreiter) funded by FWF Austrian Science Fund.

Representative examples of our prior work: https://arxiv.org/abs/2206.15282 https://arxiv.org/abs/1905.12806 https://arxiv.org/abs/1810.13404 https://www.nature.com/articles/s41598-020-69814-1 https://tinyurl.com/4pychces

Your qualifications

  • MSc degree or equivalent in computer science or related relevant discipline
  • Experience in machine/deep learning, and statistics
  • Experience in computer vision, medical image analysis, biomedical imaging or a related discipline is desirable but not a requirement
  • Strong programming and applied math skills
  • Excellent analytical, interpersonal, as well as written and oral communication skills in English.   

Our offer

  • You will be immersed into an interdisciplinary environment, working closely with a team of computer scientists, software engineers and medical experts.
  • You will have the opportunity to work in the promising and currently exploding fields of deep learning, data science and medical image analysis.
  • Access to extremely large sets of curated and annotated ophthalmic images.
  • The lab is well-equipped with a dedicated high-performance computing cluster containing the latest generation GPUs.
  • The group keeps close collaboration with several high-performance academic research institutions, as well as partnership with imaging device and pharmaceutical companies.

The OPTIMA lab is a world-leading group in ophthalmic image analysis part of the Medical University of Vienna which is an international center of excellence and one of the largest research institutions in Europe located at the heart of historic Vienna. Vienna is regularly declared the world’s most liveable city.

Application

Please apply by May 1st, 2023, by sending an application to
hrvoje.bogunovic (at) meduniwien.ac.at containing:

  • Cover letter indicating your interests and research experience
  • CV
  • Contact information of two references

Postdoc in Deep Learning for Retinal Image Analysis (full time)

We are seeking exceptionally motivated postdocs to strengthen our interdisciplinary team working on machine learning for medical image analysis. As part of a multidisciplinary and multinational project PINNACLE funded by Wellcome Trust, you will be leading exciting research, at the interface of machine learning and medicine. The focus is on automated characterization of retinal pathology from 3D optical coherence tomography (OCT) images of human retina, and on learning to predict patient-specific disease progression from a very large-scale curated longitudinal imaging data and electronic health records.

The successful candidate will be immersed into an interdisciplinary environment working closely with a team of computer scientists, software engineers and medical doctors. Advancements will have a real world impact on clinical management of patients suffering from age-related macular degeneration (AMD), a leading cause of blindness today.

Your profile:

  • PhD degree (or soon to be completed) in a relevant discipline
  • Strong background in machine and deep learning, medical image analysis or computer vision
  • Ability to organize his/her work with minimal supervision and to meet deadlines of the project
  • Relevant publication record in the field
  • Excellent programming skills (Python, Julia, PyTorch, etc.)
  • Excellent analytical, interpersonal, as well as written and oral communication skills in English are essential

Our offer:

  • You will be immersed into an interdisciplinary environment, working closely with a team of computer scientists, software engineers and medical experts.
  • You will have the opportunity to work in the promising and currently exploding fields of deep learning, data science and medical image analysis.
  • Access to extremely large sets of curated and annotated ophthalmic images.
  • The lab is well-equipped with a dedicated high-performance computing cluster containing the latest generation GPUs.
  • The group keeps close collaboration with several high-performance academic research institutions, as well as partnership with imaging device and pharmaceutical companies.

The OPTIMA lab is a world-leading group in ophthalmic image analysis part of the Medical University of Vienna which is an international center of excellence and one of the largest research institutions in Europe located at the heart of historic Vienna. Vienna is regularly declared the world’s most liveable city.

Application:

  • Cover letter, with a summary of your scientific activities and your motivations
  • CV
  • Contact information of three references

The position is opened immediately until filled, early applications will be given priority.

Please send applications to: hrvoje.bogunovic (at) meduniwien.ac.at

Female candidates are explicitly encouraged to apply!

Master Thesis at OPTIMA

A number of thesis topics are available to students interested in the writing of a master thesis with us.

We offer:

  • Wide range of topics suited to different prior knowledge, from practical oriented to deep-dive analyses in:
    • Image segmentation and object detection
    • Automated diagnosis from OCT and image quality assessment
    • Multimodal retinal image registration
    • Generative modeling and synthetic data
  • Close supervision and tight integration with the international research group where MSc students work closely with PhD students and PostDocs.
  • Access to a large set of longitudinal and annotated ophthalmic images (2D and 3D) acquired with multiple state-of-the-art imaging modalities (OCT – optical coherence tomography) and OCT angiography (OCTA).
  • The MSc thesis is expected to contribute to real-world use cases in clinical research. OPTIMA also collaborates with multiple industrial partners from pharmaceutical and imaging device sector.
  • Access to a high-performance GPU computing cluster.

Example of topics:
– Domain adaptation for image segmentation across OCT device manufacturers
– Diffusion models for retinal image generation and anomaly detection
– Anomaly and out of distribution (OOD) detection on retinal OCT scans
– OCTA image quality evaluation and/or OCT denoising

If you are interested, please get in touch with: hrvoje.bogunovic (at) meduniwien.ac.at