Bioimaging Data Specialist

Job Location
EMBL-EBI Wellcome Genome Campus
CB10 1SD
United Kingdom

EMBL is an inclusive, equal opportunity employer offering attractive conditions and benefits appropriate to an international research organisation. The remuneration package comprises a competitive salary, a comprehensive pension scheme and health insurance, educational and other family related benefits where applicable, as well as financial support for relocation and installation.

We have an informal culture, international working environment and excellent professional development opportunities but one of the really amazing things about us is the concentration of technical and scientific expertise – something you probably won’t find anywhere else.

If you’ve ever visited the campus you’ll have experienced first-hand our friendly, collegial and supportive atmosphere, set in the beautiful Cambridgeshire countryside. Our staff also enjoy excellent sports facilities including a gym, a free shuttle bus, an on-site nursery, cafés and restaurant and a library.

Job Description

Are you a highly motivated Biologist or Bioinformatician with imaging experience who wants to join an exciting international consortium using cutting edge technologies to revolutionise our understanding of the human body? Do you have the motivation and skills necessary to work with new technologies and data types in imaging and genomics to facilitate the data integration this project requires? If so, this position is for you!

The Human Cell Atlas (HCA) is a high profile, multinational project using ground breaking single cell profiling technologies to build a comprehensive reference map of all human cells as a basis for understanding human health and treating disease. Massively multiplexed in situ imaging of gene expression is a critical component of this work. We are looking for a highly-motivated individual to work with the HCA scientific community to design and implement metadata standards to integrate this and other image data into the atlas.

You will be based at EMBL-EBI (Cambridge, UK) where you will join a highly collaborative multinational team developing the HCA Data Coordination Platform. The position involves:

  • Working with HCA imaging projects to capture metadata requirements
  • Developing metadata standards that capture information critical to data re-use and integration within the HCA and beyond.
  • Developing systems to integrate metadata into image processing & analysis pipelines

You should hold an MSc, PhD, or have equivalent experience in biological sciences, biomedical imaging, bioinformatics, or related fields. You should have:

  • working knowledge of image-processing and analysis techniques such as image registration and segmentation. 
  • coding ability relevant to image analysis pipelines, e.g. MatLab, R, Python.
  • a good understanding of single cell transcriptomics including image-based transcriptomics techniques like Seq-FISH or Mer-FISH.
  • excellent communication and interpersonal skills and work well both independently and within a team environment.
  • the ability to use your own own initiative to create and drive projects to a conclusion.

The following skills are desirable:

a working knowledge of bioinformatics; A good general knowledge of anatomy; Some understanding or experience of using ontologies.

How to Apply

To apply please submit a covering letter and CV, with two referees, through our online system at

About Our Organization

At EMBL-EBI, we help scientists realise the potential of ‘big data’ in biology by enabling them to exploit complex information to make discoveries that benefit mankind. Working for EMBL-EBI gives you an opportunity to apply your skills and energy for the greater good. As part of the European Molecular Biology Laboratory (EMBL), we are a non-profit, intergovernmental organisation funded by 23 member states and two associate member states and proud to be an equal-opportunity employer. We are located on the Wellcome Genome Campus near Cambridge in the UK, and our 600 staff are engineers, technicians, scientists and other professionals from all over the world.

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