PhD (f/m/d) Generative Machine Learning of Time-Lapse Virological Imaging Data / Master’s degree in...

Updated: 11 months ago
Location: Germany,
Job Type: PartTime
Deadline: 31 Dec 2021

Area of research:

PHD Thesis

Part-Time Suitability:

The position is suitable for part-time employment.

Starting date:


Job description:

As a member of the Helmholtz Association of German Research Centers, the HZDR employs about 1,400 people. The Center's focus is on interdisciplinary research in the areas energy, health and matter.

The Center for Advanced Systems Understanding (CASUS) is a German-Polish research center for data-intensive digital systems research. We combine innovative methods from mathematics, theoretical systems research, simulations, data science, and computer science to provide solutions for a range of disciplines – materials science under ambient and extreme conditions, earth system research, systems biology, and autonomous vehicles.

CASUS was jointly founded in August 2019 by the Helmholtz-Zentrum Dresden-Rossendorf, the Helmholtz Centre for Environmental Research, the Max Planck Institute of Molecular Cell Biology and Genetics, the Technical University of Dresden and the University of Wroclaw. The CASUS start-up phase is hosted by the Helmholtz-Zentrum Dresden-Rossendorf and is financed by the Federal Ministry of Education and Research and the Saxon State Ministry of Science and Art.

The Center for Advanced Systems Understanding (CASUS) invites applications as PhD (f/m/d) Generative Machine Learning of Time-Lapse Virological Imaging Data.

The position will be available from 1 April 2022. The employment contract is limited to three years.

The Scope of Your Job

If YOU are passionate about designing the next generation of algorithms in virology and biomedical imaging – we are looking for YOUR talent!

Viruses require host cells to procreate and spread their progeny. For this, they enter cells, replicate and egress in a stepwise process occurring through interactions between molecules of the host cell and the pathogen molecules. These are known as host-pathogen interactions, they include various host mechanisms exploitations by the pathogen. Synchronized with virus entry, uncoating, and replication through a virus genetic program, virus induce dramatic changes of cell morphology. However, such data is scarce and highly irregular for Machine Learning.

Using existing image data from automated time-lapse microscopy, YOU will design novel Generative Machine Learning algorithms capable of producing realistic synthetic data to power the field.



Engage with our international collaborators (London, Zurich, Taipei etc.) to collate time-lapse image-based data


Develop novel data-efficient algorithms for representation learning of host-pathogen interactions


Design novel deep learning architectures suitable for time-lapse microscopy


Publish high-impact peer-reviewed research



Master’s degree in computer science, bioinformatics, computational biology, data science, machine learning or relevant discipline


A solid background in algorithms, software engineering, machine learning, mathematics, or in a related subject


Excellent programming skills in languages such as python and bash


Previous experience or interest in Computer Vision, Deep Learning and cluster environments


Knowledge of modern deep learning frameworks like Tensorflow 2.x.x, PyTorch


Knowledge of C, C++, CUDA, low-level optimization or Biomedical imaging is a plus


Strong motivation to work in a collaborative environment


Excellent communication skills in English in a professional context (presentation of research results at scientific meetings, colloquial discussions, writing of manuscripts)

We offer:

# A vibrant research community in an open, diverse and international work environment
# Scientific excellence and extensive professional networking opportunities
# The employment contract is limited to three years
# Salary and social benefits in conformity with the provisions of the Collective Agreement TVöD-Bund
# 30 days of paid holiday leave
# Company pension scheme (VBL)
# A good work/life balance for which we offer assistance in the form of:


Possibility to work part-time


Flexible working hours


In-house health management

Kindly submit your completed application (including cover letter, CV, diplomas/transcripts, etc.) only via our Online-application-system.

This research center is part of the Helmholtz Association of German Research Centers. With more than 42,000 employees and an annual budget of over € 5 billion, the Helmholtz Association is Germany's largest scientific organisation.

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