Imaging Informatician
Location:EMBL-EBI Hinxton near Cambridge, UK
Staff Category:Staff Member
Contract Duration:3 years
Grading:6 (monthly salary starting at £2,855 after tax). For more information about pay and benefits click here
Closing Date:31 January 2018
Reference Number:EBI_01100

Job Description

Do you want to work as part of the HCA project to define comprehensive reference maps of all human cells? The HCA is using single cell gene expression techniques as the basis for both understanding human health and understanding different disease mechanisms. We are building and supporting the infrastructure and content standards which will be used by the HCA.

We are looking for a highly motivated Imaging informatics specialist with a background in biology to help integrate imaging and spatial transcriptomics data into the Data Coordination Platform (DCP) for the HCA. You will work at EMBL-EBI located on the Wellcome Genome Campus, near Cambridge, in the UK.

This position involves the following responsibilities:

  • Working with HCA imaging projects to capture metadata requirements.
  • Developing metadata standards to capture key information about imaging
    experiments and image data in order to facilitate data re-use and integration
    within the Human Cell Atlas project and beyond.
  • Working with the developers of informatics processing pipelines to incorporate
    systems for capturing metadata into their pipelines.

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.

Qualifications and Experience

You should hold an MSc, PhD, or have equivalent experience in biological sciences, biomedical Imaging, bioinformatics or related fields. You should have experience of image-processing and analysis techniques and some coding ability relevant to image analysis pipelines (R, Python; use of Jupyter notebooks). You should also have a good understanding of modern image-based transcriptomics techniques such as Seq-FISH or Mer-FISH.

A good knowledge of human or mouse anatomy would be an advantage as would some background and experience in bioinformatics. Some experience in working with ontologies would also be an advantage but is not essential.

You should possess excellent communication and interpersonal skills and should also work well both independently and within a team environment. The ideal candidate will be able to use their own initiative to create and drive projects to a conclusion.


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.

Application Instructions

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

Additional Information

Applications are welcome from all nationalities - visa information will be discussed in more depth with applicants selected for interview.

EMBL-EBI is committed to achieving gender balance and strongly encourages applications from women, who are currently under-represented at all levels. Appointment will be based on merit alone.

This position is limited to the project duration specified.

Applications will close at 23:00 GMT on the date listed above.