We are looking for a data engineer to join the International Mouse Phenotyping Consortium, as part of the EMBL-EBI Sample, Phenotypes and Ontologies team. This role would be ideal for someone with a strong background in using R and Python.
The International Mouse Phenotyping Consortium (IMPC) is a G7 recognised global research infrastructure that coordinates the production and phenotyping of thousands of new mutant mouse strains to better understand human health. Over the last 10 years the consortium has identified over 100,000 phenotypes that are linked to the 8,483 genes analysed in our latest data release, uncovering genes that have a role in deafness, diabetes, and rare diseases.
Visit here for more info on the IMPC. An overview of the IMPC data resource and web platform can also be found in the following publication:
Groza T, Gomez FL, Mashhadi HH, Muñoz-Fuentes V, Gunes O, Wilson R, Cacheiro P, Frost A, Keskivali-Bond P, Vardal B, McCoy A, Cheng TK, Santos L, Wells S, Smedley D, Mallon AM, Parkinson H. The International Mouse Phenotyping Consortium: comprehensive knockout phenotyping underpinning the study of human disease. Nucleic Acids Res. 2023 Jan 6;51(D1):D1038-D1045. doi: 10.1093/nar/gkac972. PMID: 36305825; PMCID: PMC9825559.
Your role
This opportunity will enable you to apply your skills acquired in supporting production systems in an academic or commercial setting to improve the resources that play a crucial role into research with human genetic diseases and ageing.
As data engineer, you will manage the existing IMPC statistical data pipeline, and there will be scope to work on analysis of the data.
Within the mouse-informatics team we deliver the production data for the multimillion dollar consortium in the form of discrete data releases. You will work on extending our existing analysis pipeline which uses the R package OpenStats. The data analysis work will involve collaborating with other groups at EMBL-EBI and external collaborators, both within the UK and internationally.
Detailed job description can be found here.
Apply now
Closing date: 17 September 2023
- Contract duration: 2 years
- Grading: Grade 5 or 6 depending on qualifications and experience (monthly salary starting at £3,090 or £3,456 per month after tax) plus benefits
- Reference number: EBI02156
Related
You have
- Strong programming skills in R preferably in a production environment
- Strong programming skills in Python preferably in a production environment
- Data analysis skills preferably applied to biomedical datasets
- Experience of statistical modelling
- Experience of workflow management software or HPC frameworks for data analyses such as SLURM
- Familiar with version control (such as Git, GitHub)
- Able to work with shell scripts
- Ability to think critically and creatively and work as a specialist in a team
- Excellent communication and teamwork skills (e.g. presentation experience and collaborative analysis development)
- Comfortable writing technical documentation for experts and non experts
You might also have
- An interest in functional programming
- Knowledge of bioinformatics or biomedical data
- Prior experience working in a multidisciplinary scientific environment
- Worked with relational (PostgreSQL) and NoSQL (MongoDB) databases
- Used Python libraries such as Pandas, NumPy
- Worked with Bioconductor R packages
Why join us
Do something meaningful
At EMBL-EBI you can apply your talent and passion to accelerate science and tackle some of humankind’s greatest challenges. EMBL-EBI, part of the European Molecular Biology Laboratory, is a worldwide leader in the storage, analysis and dissemination of large biological datasets. We provide the global research community with access to publicly available databases and tools which are crucial for the advancement of healthcare, food security, and biodiversity.
Join a culture of innovation
We are located on the Wellcome Genome Campus, alongside other prominent research and biotech organisations, and surrounded by beautiful Cambridgeshire countryside. This is a highly collaborative and inclusive community where our employees enjoy a relaxed atmosphere. We are committed to ensuring our employees feel valued, supported and empowered to reach their professional potential.
Enjoy lots of benefits:
- Financial incentives: Monthly family, child and non-resident allowances, annual salary review, pension scheme, death benefit, long-term care, accident-at-work and unemployment insurances
- Flexible working arrangements
- Private medical insurance for you and your immediate family (including all prescriptions and generous dental & optical cover)
- Generous time off: 30 days annual leave per year, in addition to eight bank holidays
- Relocation package including installation grant (if required)
- Campus life: Free shuttle bus to and from work, on-site library, subsidised on-site gym and cafeteria, casual dress code, extensive sports and social club activities (on campus and remotely)
- Family benefits: On-site nursery, 10 days of child sick leave, generous parental leave, holiday clubs on campus and monthly family and child allowances
- Benefits for non-UK residents: Visa exemption, education grant for private schooling, financial support to travel back to your home country every second year and a monthly non-resident allowance.
For more details please see our employee benefits page.
Developers at EMBL-EBI
What it is like to be a developer at EMBL-EBI?
Anja Thormann, Software Developer, Variation team
What else you need to know
- Contract duration: This position is a 2 year fixed-term contract, grant-limited.
- International applicants: We recruit internationally and successful candidates are offered visa exemptions. Read more on our page for international applicants.
- Diversity and inclusion: 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.
- EMBL is a signatory of DORA. Find out how we implement best practices in research assessment in our recruitment processes here.
- Job location: This role is based in Hinxton, near Cambridge, UK. You will be required to relocate if you are based overseas and you will receive a generous relocation package to support you.
- How to apply: To apply please submit a cover letter and a CV through our online system. We aim to provide a response within two weeks after the closing date.