On April 23, 2020, the Canadian Federal Government committed $40 million (http://www.cgen.ca/nr-april-23-2020) to support Genome Canada’s launch of the newly formed Canadian COVID Genomics Network (CanCOGeN). As Canada’s national facility for genome sequencing and analysis, CGEn will lead a nation-wide Host Genome Sequencing Initiative within this framework to sequence genomes of 10,000 Canadians to help understand the genomic architecture of the host response to SARS-Cov-2. CGEn is mandated to develop regional, national, and international linkages to ensure that this investment has maximal impact for the health of all Canadians.
Area of Research
The Genetic Epidemiology Committee of the CGen HostSeq project (http://www.cgen.ca/project-overview) is now looking to build a team of talented data scientists to work together to identify genetic variation that contributes to SARS-Cov-2 infection, susceptibility, and COVID-19 disease severity by supporting ongoing investigations and by addressing independent research questions. Successful candidates will join a team of internationally recognized scientists in genetic epidemiology and statistical genetics and may be located in Vancouver, Montreal or Toronto.
Currently, the committee is looking to hire statisticians, bioinformaticians, epidemiologists, programmers, infectious disease researchers and human geneticists for staff or post-doctoral fellowship positions, and we have several openings for these positions. We may require the work to be done remotely, and we may provide access to super computers and secure servers.
The skills required for these roles are any subset of the following:
Experience with imputation of missing phenotype data
Familiarity with genotype imputation and phasing (software lines such as IMPUTE, SHAPEIT, PHASE and BEAGLE)
Manipulating whole genome sequences using software such as Burrows Wheeler Aligner, samtools, Rainbow or related software (including R package such as SNPAssoc, sequinR)
Computation of polygenic risk scores
Genome-wide association studies using software such as plink, plink2, bgenie, snptest, ldak or qctool
Genome-wide association studies using whole genome sequencing
Rare and common variant analysis
Computation of genetic correlation using software such as LDSC/LDSR, GCTA, GEMMA or phenix
Functional annotation of genetic variants
Imputation of HLA serotypes from sequencing data
Database management and data preprocessing in R, matlab, python or SQL.
Website development, including backend development using python or administration of apache servers (or prior experience with the pheweb software)
X chromosome analysis (working knowledge of inactivation, formats and methods for pseudoautosomal regions, the XG blood group system, whole genome analysis of X orinteraction between X and immunity)
The term of the contract is up to two (2) years. The initial contract will be one (1) year, with the possibility of extending to two years based on progress.
A Master’s or PhD Degree in a relevant discipline.
Experience analyzing genetic data or developing genetic software.
Demonstrated problem-solving skills, time management and written and oral communication skills.
Demonstrated ability to think and work independently solving analytic challenges.
The salary will be determined based on the position and previous experience plus benefits.
Individuals interested in these openings should submit a cover letter indicating the specific skills they possess (from the Required Skills section, above). They should also list their interest and experience in the research area, a curriculum vitae, and a copy of a scientific paper they contributed to with a description of their role. This letter should explicitly address previous experience analyzing large scale genetic data, such as performing GWAS, calculating genetic risk scores and experience with study design. Applicants should include name and e-mail addresses of two potential referees and indicate the date they will be available to begin. All application materials must be submitted as PDFs in a single email to firstname.lastname@example.org. Review of application will begin immediately and continue until the openings are filled. We appreciate all expressed interest in these positions but only those candidates short listed for an interview will be contacted.
All qualified candidates are encouraged to apply; however, Canadians and permanent residents will be given priority.
Diversity Statement The team is strongly committed to diversity within its community and especially welcomes applications from racialized persons / persons of colour, women, Indigenous / Aboriginal People of North America, persons with disabilities, LGBTQ persons, and others who may contribute to the further diversification of ideas.
Accessibility Statement The team strives to be an equitable and inclusive community, and proactively seeks to increase diversity among its community members. Our values regarding equity and diversity are linked with our unwavering commitment to excellence in the pursuit of our academic mission.
We are committed to the principles of the Accessibility for Ontarians with Disabilities Act (AODA). As such, we strive to make our recruitment, assessment and selection processes as accessible as possible and provide accommodations as required for applicants with disabilities.
About The Hospital for Sick Children
The SickKids Research Institute is Canada’s largest, hospital-based child health research institute. Our commitment is to improve the health of children, here in Canada and in the global community.
Our history is one of research innovation. The Research Institute was founded in 1954 with the belief that innovation was critical to the hospital’s mission to improve child health. We share the SickKids vision of Healthier Children. A Better World.
Our values are research excellence and integrity and our strength is collaboration. We have created an environment where top researchers and health care experts work closely together as a team to improve children’s health.
Advancement of child health through global leadership in innovation, research and discovery.
Translation of research knowledge to benefit children and families everywhere.
Our research is supported by the generosity of donors who contribute to SickKids Foundation, as well as government agencies, non-profit foundations and companies and organizations that share our goals of improving child health outcomes.
Housed in the Peter Gilgan Centre for Research and Learning, the SickKids Re...search Institute community includes approximately 2,000 staff including:
approximately 1,150 trainees, including graduate students, research fellows and summer students;
administrative assistants; and
other professional and support staff.
Our research ranges from basic discovery research all the way to clinical care and is supported by state-of-the-art expertise, technologies and facilities.
Our research activities are coordinated under seven major research programs, which range from basic science at the sub-molecular level, to organ systems, to population health. The seven programs cover the spectrum of child health from wellness and normal development to causes of diseases, diagnostics, treatments and therapies. Through these programs we cohesively and collaboratively bring together the more than 1,600 funded research projects and these internationally competitive and highly integrated research activities approach child health from all angles and disciplines.
Our scientists collaborate on hospital-wide interdisciplinary projects focusing on molecular therapies, cancer, brain, genetics, organs and chronic diseases and health care policies and practice. To support their research we provide our scientists with access to research expertise, state-of-the art equipment, technologies and services provided by core facilities and other resources.