Senior Software Developer - European Genome-phenome Archive

Senior Software Developer - European Genome-phenome Archive

European Molecular Biology Laboratory (EMBL)

Hinxton, Cambridge, United Kingdom

About the team/job

The European Bioinformatics Institute (EMBL-EBI) is seeking a Senior Software Developer to join the European Genome-phenome Archive (EGA) to provide the technical leadership for software development and deployment to support a collaboration project between the UK Biobank and the EGA to provide archival and distribution of 50,000 whole-genomes and 500,000 exomes.

The EGA is a resource for permanent secure archiving and sharing of all types of potentially identifiable genetic and phenotypic data resulting from biomedical research projects. Its aim is to provide access to data, to foster data re-use, to enable reproducibility and to speed up biomedical and translational research in line with the ‘FAIR’ (Findable, Accessible, Interoperable, and Reusable) principles. The EGA project is part of the ENA/EGA/EVA Archive Infrastructure team led by Thomas Keane, this is part of the Molecular Archives Cluster at EMBL-EBI. Initial appointment will be for two years with potential for extension up to five years based on successful delivery of the service and external funding availability.

Your role

The main responsibilities on the backend will be the design and implementation of Extract, Transform, and Load (ETL) pipelines and APIs for the management, transfer and analysis of genetic data. Most of the software components are implemented as microservices in Java using Spring Boot and are deployed locally and at remote cloud based data distribution nodes. The team software development life cycle is managed using agile methodologies and will require the structured use of Git, JIRA and Confluence in a collaborative programming environment. Familiarity with Continuous Integration and deployment technologies is desirable.

As Senior Developer, you will have a central role in leading the technical development and deployment of software components at EGA required to deliver the UK Biobank data distribution service. You will work closely with the Project Lead, EGA coordinator, and EGA Software Developers to prioritise, design, implement, and deploy software components.

You will be expected to:

  • Provide technical leadership for the EGA and UK Biobank collaboration project

  • Coordinate with the Project Lead and EGA Coordinator to plan, prioritise, and schedule development tasks based on project deliverables

  • Act as scrum master for the development team

  • Significant input on the overall EGA IT infrastructure design and implementation

  • Interpret high level project requirements, and align with into existing software development goals

  • Participate in Global Alliance for Genomics and Health (GA4GH) efforts to standardise APIs to support bioinformatics applications and pipelines

  • Work with, teach, and learn from a great team that is fun, devoted to personal growth, and committed to building something meaningful, lasting, and impactful

You have

The successful candidate will be expected to have:

  • A degree in Computer Science, Software Engineering, Bioinformatics, or equivalent industry experience

  • Java programming (minimum of 4 years)

  • Experience of the full lifecycle of software architecture, design, and implementation

  • Spring framework, particularly for interaction with databases, REST web services and batch processing. Knowledge of Spring Boot would be beneficial

  • Agile software development teams and acted as scrum master for multiple software projects

  • Relational databases, preferably PostgreSQL

  • Deployment technologies and containerisation

  • Familiarity with working in unix environments

  • Working in a professional or academic context in multi-person team production projects

You might also have

  • Development of distributed applications, e.g. using Spring Cloud

  • Familiarity with continuous Integration

  • Experience using NoSQL databases

  • Scripting languages frequently used in bioinformatics such as Python, Perl or R

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. 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. For more information about pay and benefits click here

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

This will be a busy role with frequently changing priorities. You may from time to time have to attend meetings outside normal working hours and undertake international travel. This role is not suitable for part-time working.

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-EBI01400