Text miner (Data Scientist)


2017-12-12 07:07:46

Job location London City, England, United Kingdom

Job type: fulltime

Job industry: Science & Technology

Job description

Text miner (Data Scientist)Location:EMBL-EBI Hinxton near Cambridge, UK Staff Category:Staff Member
Contract Duration:3 years
Grading:5 or 6 (monthly salary starting at £2,552 or £2,856 after tax). For more information about pay and benefits click here
Closing Date:5th January
Reference Number:EBI_01085
Job Description

We are seeking to recruit a senior text and data mining specialist to join the Literature Services Team at the European Bioinformatics Institute (EMBL-EBI) located on the Wellcome Trust Genome Campus near Cambridge in the UK.

Manual curation by expert biologists is a critical approach to developing quality public data resources in the life sciences. As the team at the EBI responsible for running Europe PMC (the database of research articles incorporating both PubMed and PMC; ), our goal is to integrate the open research literature with public data resources, supporting better search technologies, browse experiences, and database curation workflows. Based on Europe PMC content, we: (1) enable the text mining community to extract named entities, relationships, or events extracted from the content and highlight these on article; (2) text mine content daily to extract entities such as genes/proteins, organism names, chemicals, Gene Ontology terms, diseases, and data citations; (3) participate in a variety of projects that address supporting curator workflows through text and data mining. Examples include the extraction of gene-disease relationships, protein-protein interactions, variations and mutations. We are therefore looking for a versatile text miner who is ambitious to use their skills to build text and data mining solutions both directly and collaboratively, in order to improve open data resources.

Specific job responsibilities include:

  • Lead the development new text mining services;
  • Improve existing core text mining services;
  • Data analysis and evaluation of extraction results;
  • Iterative improvement of solutions, with key stakeholders;
  • Participation in project meetings and conferences to present work;
  • Produce publications on developments.

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.

Qualifications and Experience

The successful candidate must be able to demonstrate most of the following:

  • MSc or PhD in a related field (computer science, information science, bioinformatics)
  • Proven experience of a range of methodologies such as NLP, pattern mining, dictionary-based techniques, machine learning, deep learning, ranking systems.
  • Experience of text-mining applied to curation of biological data resources, or similar, in an academic, industrial or publishing setting;
  • Technical ability e.g. Perl, Java, R, XML parsing;
  • Flexible approach and ability to take on new skills;
  • Self-starter and able to manage multiple projects;
  • Team player and good communicator


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.

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.

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.

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