Website European Molecular Biology Laboratory
Job: Postdoctoral Fellow – Birney Research (IndiGene)
Type: Postdoctoral Fellowships
Location: Hinxton, UK
Closing date: 23 March 2023
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 ten 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 to jointly interrogate genetic variation across the panel using genome graphs.
The second research project involves the large-scale analysis of an already generated RNA sequencing dataset across all MIKK panel lines, in 8 different tissue types across 2 different environments and at high replicate number. This analysis project will allow us to explore expression differences across panel members, across different tissue types and environments, and to perform eQTL analysis interrogating 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.
To apply for this job please visit www.embl.org.
