Scientific Programmer - Cambridge, UK
Location: EMBL-EBI Hinxton near Cambridge, UK
Staff Category: Staff Member
Contract Duration: 3 Years
Grading: 5 (monthly salary starting at £2,507 after tax). For more information about pay and benefits click here
Closing Date: 13th November 2016
Reference Number: EBI_00823
The Ensembl Project, based at the European Bioinformatics Institute (EMBL-EBI), is one of the leading providers of genome annotation. We seek a talented and experienced programmer to join our Variation Annotation team.
Large-scale sequencing projects are producing genomic data on an unprecedented scale, providing extensive variant catalogues in many species and leading to the discovery of rare human variants. These data have the potential to drive an improved understanding of genetic disease, evolution and population genetics. The Ensembl Team aggregates and annotates large quantities of data from public archives and develops tools for data access, visualisation and variant interpretation, including the Ensembl Variant Effect Predictor.
The Scientific Programmer will work as part of the Variation Annotation team whose responsibilities will include:
- Developing efficient methods for the management of large scale variation data;
- Developing and maintaining tools for the functional annotation of variants;
- Designing and building databases of genomic variation;
- Developing and maintaining our Perl and REST APIs;
- Identifying and integrating of new sources of variation and phenotype data;
- Developing effective ways of displaying variation data;
- Liaising with members of the broader Ensembl team and other groups at EMBL-EBI;
- Teaching API courses, providing user support and presenting at conferences;
- Collaborating on international projects including GA4GH, GWAS Catalog, LRG.
The EMBL-EBI is part of the European Molecular Biology Laboratory (EMBL) and is Europe's leading provider of information services to biological researchers in academia and industry. The institute is located on the Wellcome Genome Campus at Hinxton, near Cambridge, UK. We enjoy many benefits including sports facilities, a free shuttle bus to Cambridge and other nearby centres, and an attractive working environment set in 55 acres of parkland. Our salary scales are very competitive. For further information please visit www.ebi.ac.uk
Qualifications and Experience
You should have a first degree and either a higher degree or equivalent experience in genetics, biological or computational sciences.
You will have proven experience of working in a production development environment, ideally creating both efficient large-scale data analysis pipelines and user-friendly tools and APIs. You should be familiar with all stages of the software development process and be used to working to deadlines. Experience of managing genomics data and working with bioinformatics or statistical tools will be an advantage.
You will be comfortable working in a UNIX/Linux environment and have extensive programming experience, preferably using OOP. Ideally, you will have a strong knowledge of Perl; familiarity with Python and C will also be an advantage. You will have experience of RDMS, preferably with MySQL. Familiarity with the Ensembl APIs will be an advantage.
We are seeking highly motivated candidates with good communication and interpersonal skills. You must have scientific curiosity and initiative. You will work both independently and as part of a closely interacting team of international scientists. Skill in delivering a high quality product with excellent attention to detail is essential.
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.
Please apply online by clicking on the 'Apply' button.
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.
The initial contract is for a period of three years with the possibility of a fixed-term extension.
Applications will close at 23:00 GMT on the date listed above.