Positions

Honours undergrad research students, and graduate students interested in any of our projects should contact Fiona Brinkman directly at brinkman@sfu.ca. For other positions listed below, see the instructions associated with each position. See also further information below for applicants.

Postdoctoral positions (posted late Dec 2018)

Associated with the new Omics Data Science Initiative at Simon Fraser University, and significant new funding recently obtained, we are looking to fill multiple postdoctoral positions associated with our international IRIDA.ca and GenEpiO.org consortiums, and the National CHILD Study / CHILDdb.ca project, in collaboration with the BC Centre for Disease Control, Public Health Agency of Canada, Sick Kids Hospital, and universities across 7 provinces.

Please quote the job code below in the subject line of any email you send regarding a position. For more customized potential projects based on the larger range of research projects we have, you may quote the more general ODSI-2019PD.

“ODSI-19ARETE” – The Genome Canada ARETE project, co-led by Fiona Brinkman and Rob Beiko (Dalhousie University), with researchers across Canada, is 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. This position would include potential opportunities to gain leadership experience with the international IRIDA consortium project and contribute to IRIDA.ca development, which is the primary tool now used by the Public Health Agency of Canada (and select international groups) for infectious disease outbreak investigations using microbial genomic data.

“ODSI-19CHILD” – CIHR/European Commission/Genome Canada CHILD Study and CINECA projects, led by Fiona Brinkman with National CHILD Study researchers, and researchers in the Europe and Africa, are 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 related to allergic disease. See CHILDdb.ca for more information about the CHILD study, the largest richly phenotyped birth cohort in Canada. This project is suitable for a researcher with strong leadership and organizational skills, and either microbiome analysis or ontology development experience, who is interested in capitalizing on diverse birth cohort data integration.

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 a 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 the job code in the subject line of your email , OR “ODSI-2019PD” for a more customized position.

Email brinkman-jobs@sfu.ca.

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

 

 

 

Web Application/ Software Developer

Would you like to play a key role the development of web-based bioinformatics applications to be used internationally for infectious disease research and public health outbreak investigations? The Brinkman Laboratory at Simon Fraser University (Metro Vancouver, BC) has an opening for a member of our team: a software developer who would further develop tools aiding microbial genome analysis for the national IRIDA.ca project and related international initiatives. This person will work with the support of infectious disease researchers in our group, developing new visualizations for our IslandViewer software, and associated tools.

The successful candidate will work as part of an interdisciplinary team of software/database developers, bioinformaticians, data curators and biologists/microbiologists, including our national and international collaborators. Tasks will focus on development of these select web-based bioinformatics tools and providing some support to researchers in our group with related software development needs. The qualified applicant will have a bachelor’s degree in computer science and and experience designing web-based visualization tools based on JavaScript (JQuery, D3.js), HTML/CSS (Bootstrap).  Additional knowledge of web application frameworks (e.g. Django, Flask, Catalyst), MySQL, experience using version control systems (Git) and/or containerization (Docker) is an asset. Bioinformatics experience is beneficial but not essential for this position since mentorship will be provided.

Salary is based on experience and is competitive. Please quote “position WASD2019” in the subject line of your email if you are interested in this position and email your resume to: brinkman-jobs (at) sfu.ca

We thank all applicants and regret that only those selected for an interview may be contacted further. Note: In accordance with immigration requirements, preference will be given to Canadian citizens, landed immigrants and permanent residents of Canada.  The Brinkman lab is committed to providing employees with a positive working environment supporting growth and flexibility. Simon Fraser is located in a beautiful conservation area in metro Vancouver with access to a wide range of recreational opportunities. Contact us to learn more.

 

 


Aerial view of SFU facing north

 

More information for potential applicants

The Brinkman Laboratory comprises an interdisciplinary computer lab and molecular microbiology lab environment, with access to notable additional resources, including our Computing Cluster (“Buster the Cluster”), Compute Canada resources (including the largest academic cluster in Canada: CEDAR, which is hosted at SFU, and new SFU-hosted Cloud resources), and departmental facilities. The Department of Molecular Biology and Biochemistry (MBB) at Simon Fraser University is housed in the South Science Building. MBB and the institute it formed from has produced a significant number of prominent bioinformaticists/genomicists who have gone on to become a coordinator of NCBI’s Genbank, coordinator or instructor of the Canadian Bioinformatics Workshop, or play leadership roles in international pharmaceutical companies, public health agencies, genome sequence centres and other genomics/bioinformatics facilities. In addition to the department’s interest in genomics and bioinformatics, the university has also indicated its strong interest in fostering interdisciplinary health-related research: It formed an interdisciplinary Faculty of Health Sciences, the IRMACS (Integrated Research in the Mathematics and Computing Sciences) facility and Big Data Hub (part of our research group is located there) and SFU recently further strengthened its mandate to support interdisciplinary, engaged research through its strategic vision.

Simon Fraser University is located within wonderful greenspace within the Burnaby Mountain Conservation Area in Greater Vancouver, British Columbia, Canada, approximately 5 km from the edge of the city of Vancouver (and a three hour drive north of Seattle, Washington, in the US). SFU has been consistently ranked by respected national surveys, such as Maclean’s, as one of Canada’s top three comprehensive universities for over 20 years. In the past few years SFU was listed among Canada’s top 100 employers (Mediacorp Canada); named one of Canada’s top 10 family-friendly employers (Today’s Parent magazine) and has won the YWCA’s Innovative Workplace of the Year award, among others. Note that Vancouver has been chosen as the world’s “Most Liveable City” the majority of times in the past decade by the Economist Intelligence Unit (EIU).

Please see Student Central, the MBB website and SFU Bioinformatics for more information regarding graduate student admissions, M.Sc./Ph.D. degree requirements, etc. For those interested in interdisciplinary work, note that the MBB graduate program is flexible, allowing (with permission) students to take courses for their degree from other departments and even other institutions. Students interested in bioinformatics have a few options including getting accepted in the competitive SFU/UBC bioinformatics graduate program (which includes an internship program). Another option, suitable for those interested in starting on thesis work right away with a specific thesis supervisor, involves completing bioinformatics training through the MBB graduate program or newly forming Bioinformatics program, which several very high caliber students have successfully done (like Jennifer Gardy, Brinkman Lab Ph.D. student, Governor General’s Gold Medal winner for top graduate student across all SFU faculties in 2006, and now a Research Scientist at the BC Centre for Disease Control and occasional host of major science shows like The Nature of Things – yeay Jenn!).

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