Bioinformatician
Location:EMBL-EBI Hinxton near Cambridge, UK
Staff Category:Staff Member (Part time 19.5 hours per week)
Contract Duration:2 years
Grading:5 (monthly salary starting at £1,276 after tax). For more information about pay and benefits click here
Closing Date:4th February 2018
Reference Number:EBI_01118

Job Description

We are seeking an outstanding bioinformatician to join the Computational Microbial Genomics group at the European Bioinformatics Institute (EMBL-EBI), located on the Wellcome Trust Genome Campus, near Cambridge, in the UK.

The bioinformatician will participate in a project to develop two pilots: a real-time search index of the European Nucleotide Archive (ENA), and a tuberculosis surveillance tool built above such an index. The aim is to lead the development of a global diagnostics and surveillance tool for TB, and in collaboration with the ENA team, to make all microbial sequence data searchable.

The post-holder's responsibilities will primarily revolve around the implementation, test and development of a cloud platform for global data sharing and surveillance for tuberculosis genomic data, which integrates with an offline diagnostic tool. In addition the post-holder will provide technical support and advice for the ENA team using the same underlying technology (Bitsliced Genomic Signature Index (BIGSI), https://goo.gl/bzEYb1) to provide online and continuously updated sequence search for the ENA.

Duties will involve working with collaborators in Oxford, Vietnam and Mumbai on pilot implementations, and leading the development work done by an external development team. Expertise in the BIGSI codebase would be a considerable advantage, along with C or C++, Python, Docker, MongoDB.

The successful candidate will be initially offered a 2 years contract, at 50% FTE, with possibility for extension depending on funding availability.

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 23 member states and two associate member states and proud to be an equal-opportunity employer. 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.

Benefits

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.

Qualifications and Experience

Applicants should have a strong computational background (PhD level) in microbial genomics, multi-coloured de Bruijn graph algorithms and implementations, genotyping methodologies for drug resistance prediction using both Illumina and nanopore technologies, and bit-sliced signatures as applied to DNA search. Experience and expertise in species identification and drug resistance prediction for M. tuberculosis is essential.

The post-holder must possess excellent communication and interpersonal skills.
Computational skills in Python, C are essential.

Application Instructions

To apply please submit a covering letter and CV, with two referees, through our online system.

Additional Information

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.

This position is limited to the grant duration specified.

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