European Molecular Biology Laboratory (EMBL)


European Molecular Biology Laboratory (EMBL)

Hinxton, Cambridge, United Kingdom

About the team/job

Are you a Bioinformatician who wants to learn how to collect, integrate and use complex cancer data? Do you desire to collaborate with global partners as well as be part of a dynamic bioinformatics team? If so, this position is for you!

Your role

EMBL-EBI Mouse Informatics is looking for a junior bioinformatician to build off recent successes in developing a cancer model platform within the NIH funded PDX Finder project ( (see Conte et al Nucleic Acids Research, Jan 2019). The PDX Finder team harmonises, analyses and helps disseminate the rich Omic and phenotypical data from Patient derived Xenograft (PDX) models to advance cancer research by adhering to the FAIR data principles (Findable, Accessible, Interoperable, Reusable).

Towards this goal, we are looking for a bioinformatician who will broker the submission of cancer Omic data to the established molecular archives at EMBL-EBI including the European Nucleotide Archive and European Genome-phenome Archive. You will work closely with other members of the Molecular Archive cluster in contributing to a data submission pipeline and with members of the PDX Finder team in the bioinformatic analysis of the archived data.

This opportunity will provide the candidate unfettered access to unique datasets with direct relevance to human health while taking part in global collaborations and publishing in top-tier journals.

You have

The ideal candidate will have at least 1-year experience in bioinformatics and hold a postgraduate degree in Bioinformatics and related fields, although candidates with equivalent experience will also be considered.


  • Experience in processing data from raw NGS QC to annotation and variant prioritisation

  • Proven experience designing and deploying implementation of Java solutions in a production environment

  • Demonstrated skillset and experience in working in Bioinformatics

  • Good communication skills, ability to work as part of a team of people with a range of skills and a diversity of backgrounds

  • A willingness to learn others’ code and participate in design and testing.

  • Proficiency with handling large data sets and developing robust data ingest pipelines

You might also have

  • Familiarity with using ontologies is desirable

  • The ability to build reliable platforms, including unit tests, continuous integration and staged deployment

  • Proficiency with handling large data sets and developing robust analysis pipelines

  • Experience of working in an agile development environment

  • Familiarity with Spring Boot, databases (Neo4J, MongoDB), Semantic technologies such as ontologies

Why join us

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 22 member states and two associate member states. 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.

EMBL is an inclusive, equal opportunity employer offering attractive conditions and benefits appropriate to an international research organisation.

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.

What else you need to know

To view a copy of the full job description please click here

To apply please submit a covering letter and CV through our online system.

Applications are welcome from all nationalities and this will continue after Brexit. For more information please see our website. 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.

Please apply via recruiter’s website.

Quote Reference: embl-EBI01581