Postdoctoral Position in Infectious Disease Evolutionary Genomics

Institution/Company:
Université de Montréal / Simon Fraser University
Location:
Montreal, QC, Canada
Job Type:
  • Postdoctoral
Degree Level Required:
PhD
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Postdoctoral Position in Infectious Disease Evolutionary Genomics

Pathogenic microbial organisms cause a significant burden of disease, particularly due to the problem of drug resistance, whereby a pathogen no longer responds to treatment by one or more available drugs. The availability of fast, reliable and affordable whole-genome sequencing (WGS) methods has the potential to be a major boon for public health authorities attempting to control the evolution of drug resistance and the spread of epidemic outbreaks. 

However, in order to fully harness the power of these methods there is an urgent need for novel machine learning and algorithmic techniques for microbial WGS data. Machine learning (in particular, deep learning) provides a tool to predict and understand the relationship between drug resistance and genotype. 

The position will be based in Montreal, QC in the group of Jesse Shapiro (Universite de Montreal, Biological Sciences Department), with frequent communication and occasional visits to Vancouver, BC to the groups of Maxwell Libbrecht and Leonid Chindelevitch (Simon Fraser University, School of Computing Science), and funded by a Bioinformatics/Computational Biology grant from Genome Canada.

For more about our research groups see: www.shapirolab.ca www.cs.sfu.ca/~maxwl/ www.sfu.ca/~leonid/

Responsibilities:

The successful applicant will develop and apply deep learning methods for this task. The project will involve developing new neural network strategies and architectures and applying these methods to improve understanding and treatment of drug resistance in bacterial pathogens.

Qualifications:

The ideal candidate will have a PhD in computational biology, statistics, applied mathematics, or a related field. The candidate should be a self-starter, able to work independently and assist in supervising MSc or PhD students. Experience working with genomic data, and a knowledge of machine learning, GWAS, or other relevant methodologies is an asset. The candidate will be based in the Montreal area, but must be willing to occasionally travel to the Vancouver location.

  • How to Apply

    The position will come with a competitive postdoctoral-level compensation for two years, with possibility of extension. Applications will be considered on a rolling basis starting immediately. Please send a CV and two relevant peer-reviewed publications to jesse.shapiro@umontreal.ca and maxwl@sfu.ca