Postdoctoral Fellow – Birney Research (IndiGene)
Location: EMBL-EBI, Hinxton near Cambridge, UK
Staff Category: Postdoctoral Fellow
Contract Duration: Fixed-term for 2 years or until end of grant on 31/01/2024
Grading: Year 1 Stipend - £2,869.24 per month after tax
Closing Date: 15 June 2021
Reference Number: EBI01838
We are looking for an experienced post-doctoral fellow with a strong background in Bioinformatics and a proven track record in genomic data analysis to join the Birney research group at EMBL-EBI as part of an ERC funded project in collaboration with the University of Heidelberg - IndiGene.

Over the last eight years dedicated work has led to the establishment of the first near-isogenic panel from a wild fish population in vertebrates, the inbred medaka MIKK panel. The IndiGene project makes use of this new valuable resource to separate various sources of phenotypic variation, primarily genetic variation, environmental variation and stochastic variation.

We are looking for a highly motivated bioinformatician or computational geneticist to join this exciting project, and to drive specific aspects of this cutting-edge research, including high throughput DNA and RNA bioinformatic analysis using long and short read sequences, genetic association testing using multiple complex traits and the investigation of gene-environment (GxE) effects.

Your role

The primary datasets and analysis areas for this role involve DNA and RNA experiments using Illumina and Nanopore (ONT) sequences both at high depth across all MIKK panel lines and at lower depth across thousands of F2 cross offspring. You will work on the assembly of individual reference genomes for each of the MIKK panel lines using very high depth Illumina and ONT datasets with a focus on graph-based genome representations. Here we will build on initial methods we have piloted using a subset of the MIKK panel to jointly interrogate genetic variation across the panel using genomes graphs.

The second major dataset and research project involves the large-scale analysis of RNA expression level across all MIKK panel lines, in 8 different tissue types across at least 2 different environments. This analysis project will allow us to explore expression differences across panel members, across different tissue types and will allow us to interrogate gene to environment (GxE) effects. Finally, multiple F2 cross experiments will provide additional datasets using high-throughput sequencing and phenotyping for genetic association testing at scale.  

You have

  • PhD in Bioinformatics or related fields and will have a proven track record in genetic research.
  • You should be skilled at developing software in a Unix-based environment, have a detailed knowledge of current genomic techniques and be comfortable coding in either python or R
  • Good interpersonal skills are essential as is the ability to discuss methods and present results to other group members.

You might also have

  • Experience with knowledge transfer, supervision/mentoring is not required but would be considered as a major advantage.

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 and child allowances, annual stipend 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.
For more details please see our employee benefits page

What else you need to know

  • Contract duration: This position is grant-limited for an estimated fixed-term duration of approximately 2 years and 8 months or until end of grant on 31/01/2024. 
  • 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.
  • Your application: 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: 15 June 2021.