Bioinformatics Expert for Gene-Drug Exposure Phenotype Analysis

4 weeks ago


Hinxton, United Kingdom European Molecular Biology Laboratory (EMBL) Full time

Job Description:

We are seeking a highly motivated bioinformatics expert or data scientist to join our research project at EMBL-EBI. The successful candidate will work on defining gene x drug exposure x phenotype relationships at scale over continuous time in large human cohorts.

The project involves integrating prescribing data and genetic data into the DELPHI model using UK BioBank data, analysing gene x drug exposure x phenotype relationships over continuous time, and exploring the ability to run the model in other human cohorts with genetic and prescribing data.

Key Responsibilities:

  • Incorporating prescription exposome data into Delphi
  • Developing a pharmacogenetic analysis model correlating genetic variation with exposure to drug outcomes based upon known associations
  • Exploring novel genetic-drug exposure-phenotype associations

Requirements:

  • Advanced degree (MSc, PhD) in computer science, bioinformatics, software development, or a related field
  • Strong proficiency in Python and experience with Large Language Model integration
  • Proficiency in common data preprocessing tasks and normalisation
  • Experience with large scale compute infrastructure, including high performance compute facilities (HPC) and / or cloud based workflow managers such as Nextflow
  • Exposure to source code version control software such as Git and GitHub
  • Fluency in written and spoken English
  • Experience in MLOps including experiment tracking and model deployment
  • Experience with current LLM frameworks, such as LangChain and open-source LLM deployment
  • Experience on working with prescribing data, electronic medical records, large scale cohort biobanks such as UK BioBank
  • Enthusiasm in novel research and discovery

About EMBL-EBI:

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.

Benefits:

  • Monthly family and child allowances, stipends reviewed yearly, death benefit (optional), 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 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)

Contract duration: This position is a fixed-term project-limited contract of 2 years. We recruit internationally and successful candidates are offered visa exemptions.

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.

Salary: £50,000 - £60,000 per annum, depending on experience.



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