Postdoctoral Opportunities

Applications are still being accepted for the following positions

Infectious Disease Bioinformatics Postdoctoral positions

The Omics Data Science Initiative at Simon Fraser University is searching for multiple postdoctoral positions, available immediately.

ODSI comprises a well funded research cluster, with active interdisciplinary research programs and postdocs in data science for molecular level data with focus areas of infectious diseases, precision oncology and heart-lung research. We are currently searching for additional postdoctoral fellows in each area as projects expand.

In infectious disease bioinformatics, faculty members include Fiona Brinkman, Zabrina Brumme, Leonid Chindelevitch, and Will Hsiao, with projects associated with the international IRIDA.ca and GenEpiO.org consortiums they lead, in collaboration with the BC Centre for Disease Control, Public Health Agency of Canada National Microbiology Laboratories, and HIV/AIDS Laboratory Program at the BC Centre for Excellence, plus additional projects in genomic epidemiology and vaccine design. Candidates for each position would become a member of a proposed new Omics and Data Sciences Institute and have some flexibility in choosing supervisors and topics.

In addition, select specific positions include the following (please contact the relevant project leaders for more information, as these projects are newly initiating):

"ODSI-18ARETE" - Genome Canada ARETE project, led by Fiona Brinkman, with Cedric Chauve and researchers across Canada, using rich microbial genomics and metagenomics datasets from the Public Health Agency of Canada, combined with improved prediction of gene mobility, and antimicrobial resistance (AMR) genes, to better track AMR transmission between key habitats of clinical and agricultural interest.

“ODSI-18ML” - Genome Canada ML for drug resistance project, led by Leonid Chindelevitch with Maxwell Libbrecht (SFU) and Jesse Shapiro (U Montreal), along with an international group of collaborators, aiming to use the latest machine learning techniques (including deep learning) to develop accurate yet interpretable predictors of drug resistance in bacterial pathogens, as well as to move the resulting tools closer to the clinical practice. Contact us for more information about this innovative project.

“ODSI-18CHILD” - CIHR/European Commission/Genome Canada CHILD Study and CINECA projects, led by Fiona Brinkman with Will Hsiao, Tim Takaro, National CHILD Study researchers, and researchers in the Europe and Africa, aiming to harmonize components of microbiome and genome data and metadata in birth cohorts - linking microbiome data better to environmental exposure variables and health outcomes and enabling analyses not previously possible. See CHILDdb.ca.

Qualified applicants will have a Ph.D. in a relevant biological/bioinformatics/computing sciences discipline, plus demonstrated experience in relevant research. They will have the opportunity to work with an exceptional, team-based group of interdisciplinary researchers located at SFU, and partner organizations across Canada and internationally.

Salary is based on experience and is competitive. If you are interested in this position, please forward a cover letter with a copy of your CV, noting start date(s) you’d prefer and contact information for two references, to the following email address, quoting in the subject line of your email "ODSI-2018PD” - or quote the ODSI job number above for a specific position. Please also use this email address to make any inquiries about this position: odsi-jobs@sfu.ca

Applications are now being reviewed, and will be reviewed until a suitable candidate has been identified.

We thank all applicants and regret that only those selected for an interview may be contacted further.

The Omics Data Science Initiative at Simon Fraser University is searching for multiple postdoctoral positions, available immediately.

ODSI comprises a well funded research cluster, with active interdisciplinary research programs and postdocs in data science for molecular level data with focus areas of infectious diseases, precision oncology and heart-lung research. We are currently searching for additional postdoctoral fellows in each area as projects expand.

In infectious disease bioinformatics, faculty members include Fiona Brinkman, Zabrina Brumme, Leonid Chindelevitch, and Will Hsiao, with projects associated with the international IRIDA.ca and GenEpiO.org consortiums they lead, in collaboration with the BC Centre for Disease Control, Public Health Agency of Canada National Microbiology Laboratories, and HIV/AIDS Laboratory Program at the BC Centre for Excellence, plus additional projects in genomic epidemiology and vaccine design. Candidates for each position would become a member of a proposed new Omics and Data Sciences Institute and have some flexibility in choosing supervisors and topics.

In addition, select specific positions include the following (please contact the relevant project leaders for more information, as these projects are newly initiating):

"ODSI-18ARETE" - Genome Canada ARETE project, led by Fiona Brinkman, with Cedric Chauve and researchers across Canada, using rich microbial genomics and metagenomics datasets from the Public Health Agency of Canada, combined with improved prediction of gene mobility, and antimicrobial resistance (AMR) genes, to better track AMR transmission between key habitats of clinical and agricultural interest.

“ODSI-18ML” - Genome Canada ML for drug resistance project, led by Leonid Chindelevitch with Maxwell Libbrecht (SFU) and Jesse Shapiro (U Montreal), along with an international group of collaborators, aiming to use the latest machine learning techniques (including deep learning) to develop accurate yet interpretable predictors of drug resistance in bacterial pathogens, as well as to move the resulting tools closer to the clinical practice. Contact us for more information about this innovative project.

“ODSI-18CHILD” - CIHR/European Commission/Genome Canada CHILD Study and CINECA projects, led by Fiona Brinkman with Will Hsiao, Tim Takaro, National CHILD Study researchers, and researchers in the Europe and Africa, aiming to harmonize components of microbiome and genome data and metadata in birth cohorts - linking microbiome data better to environmental exposure variables and health outcomes and enabling analyses not previously possible. See CHILDdb.ca.

Qualified applicants will have a Ph.D. in a relevant biological/bioinformatics/computing sciences discipline, plus demonstrated experience in relevant research. They will have the opportunity to work with an exceptional, team-based group of interdisciplinary researchers located at SFU, and partner organizations across Canada and internationally.

Salary is based on experience and is competitive. If you are interested in this position, please forward a cover letter with a copy of your CV, noting start date(s) you’d prefer and contact information for two references, to the following email address, quoting in the subject line of your email "ODSI-2018PD” - or quote the ODSI job number above for a specific position. Please also use this email address to make any inquiries about this position: odsi-jobs@sfu.ca

Applications will be reviewed starting December 28, 2018 until a suitable candidate has been identified.

We thank all applicants and regret that only those selected for an interview may be contacted further.

Postdoctoral positions: Algorithms for precision oncology

The Omics Data Science Initiative (ODSI) at Simon Fraser University is searching for multiple postdoctoral positions, available immediately. The ODSI comprises a well funded research cluster, with active interdisciplinary research programs in focus areas of precision oncology, infectious diseases and heart-lung research.

The BC Cancer Agency and BC Children’s hospital are collaborating with SFU scientists in Computer Science (Martin Ester) and the Department of Molecular Biology and Biochemistry (Ryan Morin) in pursuit of novel algorithms for application to the general area of precision medicine in oncology. We are searching for a postdoctoral fellow to work on the following two, and possibly additional, research projects.

Non-Hodgkin lymphomas (NHL) represent the sixth most commonly diagnosed type of cancer in Canada. Through large sequencing efforts, we have begun to appreciate the genetic diversity in mutation patterns at the level of non-silent variants, copy number variation and non-coding mutations. Standardized treatments result in variable patient outcomes, with some clear associations between genetic/molecular features and treatment resistance. The Morin laboratory is exploring novel approaches to leverage high-dimensional genetic information along with gene expression profiling to define a more precise system for patient/tumour subgrouping in NHL. This undertaking aims to ultimately discover and validate new prognostic biomarkers and and to reveal key driver mutations and pathways that reveal possible vulnerabilities that can be exploited with existing therapeutics.

Go-PGx is a Genome Canada/CIHR funded research project investigating adverse drug reactions (ADRs) in pediatric cancer patients. Go-PGx and its research collaborators at 10 pediatric hospitals across Canada will generate a comprehensive ADR database of linked clinical and genetic information to provide an accessible resource for to help researchers around the world and will develop tools to educate and inform physicians and patients beginning with a prioritized focus on five severe pediatric oncology ADRs. In this project, the Ester lab is developing machine learning methods for determining genetic causes of adverse drug reactions, exploring quasi-experimental design, biological network analysis, probabilistic graphical models and other paradigms for causal discovery.

Qualified applicants will have a Ph.D. in bioinformatics, computer science or genetics and demonstrated excellence in related research, including a strong publication track record and practical experience. S/he will have the opportunity to work with an exceptional, team-based group of interdisciplinary researchers located at SFU, and partner organizations in Vancouver, across Canada and internationally.

Salary is based on experience and is competitive. To apply, please forward a copy of your CV, a cover letter describing your interest in the position, and contact information for two references, to the following email address. Please also use this email address to make any inquiries about this position: odsi-jobs@sfu.ca. Please quote the code ODSI-PD-APO in the subject line.

We thank all applicants and regret that only those selected for an interview will be contacted further.

Postdoctoral Research Fellow: EpiGenOmics of Developmental Trajectories 

A position is available within the EGODT lab based at SFU and BC Children’s Hospital Research Institute to work on a CIHR funded project focussing on epigenetic changes in adolescents exposed to various types of adversity. This project emerges from a collaboration between Dr. Nadine Provencal and Dr. Isabelle Ouellet-Morin from the University of Montreal and the Research Unit on Children’s Psychosocial Maladjustment (GRIP). We have been funded by CIHR to examine genome-wide patterns of DNA methylation in an extensive collection of several hundreds of samples from adolescents taking part in the Quebec Longitudinal Study of Child Development (QLSCD). The project will integrate methylomic data with existing genome-wide SNP data to identify biological markers informative of aversive exposures in childhood and how they can mediate (explain) the impact of childhood adversity on mental health in adolescence. This opportunity is for individual with expertise in either statistics or bioinformatics working with genome-wide data.

The successful applicant will be involved in analysing methylomic and genotyping data from a unique set of well characterized longitudinal samples. He/she will have a broad understanding of genomics (especially epigenetics) and experience of working on an interdisciplinary project. We are interested in recruiting candidates with expertise in statistics/bioinformatics/computational genetics/epigenetics. Previous experience of high throughput DNA methylation profiling would be an advantage.

This position is available as soon as possible for one year, with a possible extension of one additional year. Salary is competitive and will be based on skills and experience. Before submitting an application you may wish to discuss the post further by contacting Dr. Nadine Provencal, email nadine_provencal@sfu.ca.

If you do not have the right to work in Canada, this appointment will be subject to you obtaining a valid work permit. See http://www.sfu.ca/immigrationservices/incoming/postdocs.html for more information on the processes involved.

We will acknowledge your application by email and will contact you by email to inform you of the results of shortlisting. Applications will be reviewed starting January 15, 2019 and will remained open until the position is filled.

Please send a letter of intent, your full CV as well as the names of two referees to Dr. Nadine Provencal at nadine_provencal@sfu.ca.

Competency

Essential

Desirable

Attainments/Qualifications

PhD or equivalent in genomics/bioinformatics/statistics/computer science, or related field of study

Post-doctoral experience in epigenetics and/or bioinformatics

Skills and Understanding

Understanding of epigenetics, and the role of epigenetic processes in complex disease

Evidence of research activity and published research

Prior Experience

Experience of bioinformatics/computational approaches to genomic data

Experience of working with large sample cohorts / data-sets

DNA methylation and SNPs analysis, especially using genome-wide approaches

Behavioural Characteristics

Excellent written and verbal communication skills.

Actively participate as a member of a research team

Ability to work independently and flexibly