Bioinformatician (model organism genomics)

  • EMBL
  • United Kingdom
  • Oct 10, 2020
Science Full Time - Fixed Term

Job Description:

Surrounded by beautiful South Cambridgeshire countryside, our state-of-the-art Campus provides employees with a relaxed atmosphere where the pursuit of scientific discovery and meaningful work, underpin every role. We are seeking an experienced and motivated bioinformatician to work on model organism genome resources at the EMBL European Bioinformatics Institute (EMBL-EBI).

Model organisms (such as mice, rats, zebrafish, flies, worms and yeast) are studied extensively by scientists around the world to reveal fundamental insights into biology. The Alliance of Genome Resources (AGR) is a major initiative to develop tools and services that facilitate the use of model organism genomes for the understanding human biology, health and disease. Data and tools are made available via an integrated portal (, as well as a collection of specialist knowledge bases focused on individual species and communities. These include WormBase (, which focusses on a nematode worm - Caenorhabditis elegans - that has played a key role in our understanding of development and aging, and was the first animal to have its genome completely sequenced.

You will join a team that acts as the bioinformatics hub for WormBase and AGR, analysing and integrating genomic data for C. elegans and other model organisms. The team constantly strives to provide the user community with the most comprehensive and cutting-edge genomic information and tools. Our recent work has included analysis and integration of nanopore transcriptome data for genome annotation, cloud deployment of community genome annotation tools, and standardised analysis and annotation of genomic variation data across model organisms.

The team is part of a cluster of teams and resources at EMBL-EBI that includes Ensembl (, with a culture of collaborative development and shared code, pipelines and processes. Furthermore, AGR is a large consortium of scientists and developers spread across more than ten institutions in Europe and North America. This an outstanding opportunity to work on a dynamic and high-impact international project.  

You will develop software and pipelines for the annotation, integration and analysis of genomic data for WormBase and the wider AGR. Your work will support diverse activities and areas, including gene-structure annotation, regulatory annotation, gene expression, and comparative genomics. You will work with a codebase and database infrastructure that is well-established and complex (with WormBase), at the same time contributing actively to a new and dynamically evolving genomics database platform (with AGR). Your duties will include:

The ideal candidate is an experienced bioinformatician who is well-versed in creating robust, well-designed and well-documented code, pipelines and processes. You should be willing to embrace working in an Agile software development environment and be comfortable switching between different programming languages and database technologies.

You should be able to communicate with with a variety of different stakeholders (from bench biologists to software engineers), and be able to meet deadlines and take responsibility for delivering timely software and data releases.

You have:

You may also have experience in the following areas:

EMBL-EBI is a worldwide leader in bioinformatics. We encourage personal and professional development and are committed to ensuring our employees feel valued, supported and empowered to reach their potential at work. In addition, our employees have access to a wide range of benefits including:

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. This position is limited to the Wormbase project which will end at the end of 2023.