Pathogen Project Lead

  • EMBL
  • United Kingdom
  • Nov 11, 2020
Science Full Time - Fixed Term

Job Description:

The European Bioinformatics Institute (EMBL-EBI) is seeking an enthusiastic Pathogen  Project Lead to lead the coordination of our pathogen projects within the Data Coordination and Archiving Team.

You will work alongside the team’s Biocurators, Bioinformaticians and Software Engineers to oversee and coordinate the provision of innovative data services from our “COMPARE Data Hubs” technology to support our user communities in the pathogen domain.

This is an opportunity to make a significant contribution to EMBL-EBI’s infectious disease data services, including those relating to COVID-19.  Our infectious disease services cover pathogen data management, sharing, analysis and visualisation and include the Pathogen Portal (, the COMPARE Data Hubs (10.1093/database/baz136), the European COVID-19 Data Platform ( and the SARS-CoV-2 Data Hubs ( These services are supported and developed under the VEO, ReCoDID, ELIXIR-CONVERGE and EOSC-Life projects.

You will be responsible for leading on the coordination and tracking of a variety of data flows across these services. You will liaise with public health agencies and other scientific groups responsible for generating pathogen sequence data under surveillance programmes and outbreak investigations at national or regional levels for inclusion in COMPARE or SARS-CoV-2 Data Hubs to enable further analysis.

You will seek out and initiate new collaborations, both national and international, as well as maintain existing ones by overseeing the provision of support for users with a range of services, from account management, data upload, data request, sharing controls, compute, search, retrieval and cloud access.

You will advise on the development of scripts and tools to support the flow and presentation of data and think of ways to automate and streamline processes. You will coordinate the pathogen helpdesk ensuring queries are answered in a timely manner, oversee the quality of data and metadata submissions and work closely with technology developers to provide content support.

The main activities that you will be involved in are:

You will have biological and bioinformatics experience and a strong interest in interacting with our services’ user community. It is likely you will hold a higher degree in biological sciences or bioinformatics and 5+ years working in a bioinformatics environment.

It is likely you will also have experience in the following:

The candidate is expected to:


EMBL-EBI is a worldwide leader in bioinformatics. As part of the European Molecular Biology Laboratory (EMBL), we are a non-profit, intergovernmental organisation funded by over 27 member states and two associate member states. We encourage personal and professional development and are committed to ensuring our employees feel valued, supported and empowered to reach their potential at work. 

Surrounded by picturesque South Cambridgeshire countryside, our Campus provides employees with a relaxed atmosphere where the pursuit of scientific discovery and meaningful work, underpin every role. In addition, our employees have access to a wide range of benefits including:    

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

At EMBL-EBI, we strongly believe that inclusive and diverse teams benefit from higher levels of innovation and creative thought. We encourage applications from women, LGBTQ and individuals from all nationalities. Applications are encouraged from all nationalities and this continues after Brexit. Visa information will be discussed in more depth with applicants selected for interview.

This position is limited to a 3 year duration in the first instance. The role is based in Hinxton, UK and you will be required to relocate at an appropriate time, if not based locally. There will be a relocation package including installation grant (if applicable). More info on how we are recruiting in this period is available on our page: Recruitment and Onboarding during Covid19.

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

Appointment will be based on merit alone.

Reference: EBI01733