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Semantic Web Developer

Organization

EMBL-EBI

Job Location

EMBL-EBI
Wellcome Trust Genome Campus
Cambridge
CB10 1SD
United Kingdom

Job Description

Would you like to play a key role in integrating the data required to build an atlas of human cell types?  The single cell revolution in biology has the potential to revolutionise our understanding of the human body at the cellular level, with important implications for medicine.  Massive efforts are under way to generate transcriptional profiles of all cell types in the human body, but these efforts require mechanisms to unify data and annotations.  The Cell Annotation Platform (CAP) promises to be a key element in this unification effort.

This is an opportunity to work on the semantic infrastructure required to support the CAP and related efforts.  Enabling the data integration, re-use and reanalysis required to build an integrated atlas of human cells.

Your role

  • Working with CAP developers to incorporate cell ontology terms into annotation autosuggestion/autocomplete (re-using EBI ontology tooling infrastructure used by HCA/DCP) allowing options for annotating with cell ontology terms.
  • Building a pipeline to extract CAP annotations for potential incorporation of new cell types to the cell ontology & track mappings of new Cell Ontology terms to CAP annotations.
  • Working with CAP developers to leverage the Cell Ontology  and the EBI ontology tools suite to enhance term suggestion for CAP users.
  • Building and maintaining ontology term templating and build pipelines to support the work of Cell Ontology editors

You have

  • A degree in computer science
  • High proficiency and experience in Python development
  • Proficiency in shell scripting
  • A good understanding of semantic technologies covering one or more of: OWL, RDF, knowledge graphs

You might also have

  • A higher degree in computer science, ideally with some specialisation in semantics
  • Experience with gathering user requirements and developing specifications
  • Experience with using Makefiles to run software builds.
  • Javascript development experience

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 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 including 17% employer contribution, 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 (as applicable)
  • 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, 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.

What else you need to know

  • Contract duration: This position is a 2-year grant limited fixed term contract (estimated 01/09/2021-31/08/2023).
  • 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. 
  • Job location: This role is based in Hinxton, UK and you will be required to relocate once it is safe to do so, if you are currently based abroad. Read more about how we are recruiting during the pandemic
  • 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: 18 August 2021. 

How to Apply

Apply through our website - https://www.embl.org/jobs/position/EBI01867

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