Open Position for Bioinformatician/Ontologist

We are seeking to recruit an experienced Bioinformatician/Ontologist to work on the eNanoMapper EU project. This project is building a computational infrastructure for toxicological data management of engineered nanomaterials (ENMs) based on open standards, ontologies and an interoperable design to enable a more effective, integrated approach to European research in nanotechnology. You will join the Cheminformatics & Metabolism team at the European Bioinformatics Institute (EMBL-EBI) located at the Wellcome Genome Campus near Cambridge in the UK.

Our group is leading work package 2 of this project, which is developing an ontology for the full domain of nanosafety research, based on existing ontologies and using the standard Semantic Web ontology language OWL. You will work with the eNanoMapper partners on ontology software development and editing, addressing the requirements outlined by the consortium.

The EBI is part of the European Molecular Biology Laboratory (EMBL) and it is a world-leading bioinformatics centre providing biological data to the scientific community with expertise in data storage, analysis and representation. EMBL-EBI provides freely available data from life science experiments, performs basic research in computational biology and offers an extensive user training programme, supporting researchers in academic and industry.

Qualifications and Experience

You will be a capable software engineer, able to work comfortably in Java, and be familiar with the OWL language and associated APIs such as the OWL API. You furthermore need to be familiar with version control (GitHub) and continuous integration systems (Jenkins). You will also need to be able to use the Protégé ontology editing tool to create ontology content according to user requirements.

In addition to your technical expertise some familiarity with the biomedical domain is required; domain expertise in an area closely related to nanosafety would be a bonus.

You will have also experience with:
• Maven
• Batch/Script/Shell programming

You will have a strong interest in ontologies, solid technical skills, and an outgoing, collaborative personality. You must be able to work as part of a team but at the same time be self-driven, trustworthy and able to make progress towards objectives independently. You must also be meticulous and careful, with good communication skills, and willing to travel to European project meetings.


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 provide a dynamic, international working environment and have close ties with both the University of Cambridge and the Wellcome Trust Sanger Institute.
EMBL-EBI staff also enjoy excellent sports facilities, a free shuttle bus to Cambridge and other nearby centres, an active sports and social club and an attractive working environment set in 55 acres of parkland.
The initial contract is for a period of 1 year and 4 months with the possibility of a fixed-term extension.

Application Instructions

We welcome applications irrespective of gender and appointment will be based on merit alone. Applications are welcome from all nationalities – visa information will be discussed in more depth with applicants selected for interview.
Please apply online through

Categorised as: Careers, EMBL-EBI, Job Openings, Open Science

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