UHN AI scientist develops platform to track changes in genetic structure of COVID-19 virus

June 12, 2020

(Toronto - June 12, 2020) - The COVID-19 virus is constantly changing as it moves from person to person. To fight the virus today and prepare for what it may look like tomorrow, researchers need to be able to track its development.

A team of healthcare professionals, led by Dr. Bo Wang, Artificial Intelligence (AI) Lead at the Peter Munk Cardiac Centre, have designed an innovative tool which enables researchers to track changes in the genetic structure of the SARS-CoV-2 virus, responsible for the onset of the COVID-19 global pandemic.

Developed by Dr. Wang's PhD student, Hassaan Maan, alongside colleagues from McMaster University and Sunnybrook Health Sciences Centre,
Before development of the CGT, analysis of the virus could take up to a week. Now, using the AI-driven platform, this analysis takes minutes.

By following these changes, researchers can learn more about how the virus is moving and evolving, which has direct implications for vaccine design, drug development, and our collective effort to combat COVID-19.

Using nasal swab samples from more than 20,000 patients with COVID-19, virus genome sequences were uploaded to the Global Initiative on Sharing All Influenza Data (GISAID) COVID-19 database. The CGT then compares the sequence of the virus in individual hospitals with virus samples obtained from around the world. Results provide researchers with insight on where transmission events likely occurred, when outbreaks happened, and most importantly, alert them of any key changes in the genetic makeup of the virus, which determines how infectious it is.

"As AI researchers, we're accustomed to working with big data," says Dr. Wang, who also holds a Canadian Institute for Advanced Research in Artificial Intelligence Chair at the Vector Institute, and is an Assistant Professor at the University of Toronto Faculty of Medicine.

"The global research community has really embraced the initiative on data sharing during the COVID-19 pandemic; our goal was to design a tool that would help make sense of it."

The CGT is particularly helpful when preparing for a second wave of virus spread, which is often more deadly than the first. By keeping track of mutations in the SARS-CoV-2 virus, the CGT is helping researchers prepare to handle changes that can affect the severity of disease, impact of vaccines, and transmissibility of the virus.

"As the virus spreads throughout the world, it picks up small mutations along the way," says Hassaan Maan, a PhD student in Dr. Wang's lab. "We want to perform surveillance of these mutations in the event a different strain of SARS-CoV-2 arises."

The speed of analysis and volume of data are defining characteristics of the application. The platform quickly processes user-uploaded data and offers immediate insights into the genomic evolution, generating results in less than 15 minutes.

The tool is purposely designed to be open source, as worldwide access will help researchers and healthcare professionals usher an end to this pandemic as quickly as possible. Dr. Wang and his team are funded thanks to the generous support of donors.
-end-
The CGT was the subject of a paper published by
on June 12, 2020.

For more information, or to book an interview with Dr. Wang, please contact:

Rosa Kim
Senior Public Affairs Advisor
University Health Network - Toronto General Hospital and Peter Munk Cardiac Centre
Phone: 416 340 3895
M: 647 669 8416
Email:
rosa.kim@uhn.ca

About the Peter Munk Cardiac Centre

The Peter Munk Cardiac Centre, established through the generous support of The Peter and Melanie Munk Charitable Foundation, is the premier cardiac centre in Canada. Each year, over 163,000 patients receive innovative and compassionate care from a multidisciplinary team who treat some of the most complex cases of heart and vascular disease. Our clinical and research expertise has improved the lives of patients around the world, while we continue to train more cardiologists, cardiovascular surgeons, and vascular surgeons than any other hospital in Canada. The Peter Munk Cardiac Centre is based at Toronto General Hospital, Toronto Western Hospital and Toronto Rehabilitation Institute - all members of University Health Network. For more information, visit http://www.petermunkcardiaccentre.ca

University Health Network

Related Science Articles from Brightsurf:

75 science societies urge the education department to base Title IX sexual harassment regulations on evidence and science
The American Educational Research Association (AERA) and the American Association for the Advancement of Science (AAAS) today led 75 scientific societies in submitting comments on the US Department of Education's proposed changes to Title IX regulations.

Science/Science Careers' survey ranks top biotech, biopharma, and pharma employers
The Science and Science Careers' 2018 annual Top Employers Survey polled employees in the biotechnology, biopharmaceutical, pharmaceutical, and related industries to determine the 20 best employers in these industries as well as their driving characteristics.

Science in the palm of your hand: How citizen science transforms passive learners
Citizen science projects can engage even children who previously were not interested in science.

Applied science may yield more translational research publications than basic science
While translational research can happen at any stage of the research process, a recent investigation of behavioral and social science research awards granted by the NIH between 2008 and 2014 revealed that applied science yielded a higher volume of translational research publications than basic science, according to a study published May 9, 2018 in the open-access journal PLOS ONE by Xueying Han from the Science and Technology Policy Institute, USA, and colleagues.

Prominent academics, including Salk's Thomas Albright, call for more science in forensic science
Six scientists who recently served on the National Commission on Forensic Science are calling on the scientific community at large to advocate for increased research and financial support of forensic science as well as the introduction of empirical testing requirements to ensure the validity of outcomes.

World Science Forum 2017 Jordan issues Science for Peace Declaration
On behalf of the coordinating organizations responsible for delivering the World Science Forum Jordan, the concluding Science for Peace Declaration issued at the Dead Sea represents a global call for action to science and society to build a future that promises greater equality, security and opportunity for all, and in which science plays an increasingly prominent role as an enabler of fair and sustainable development.

PETA science group promotes animal-free science at society of toxicology conference
The PETA International Science Consortium Ltd. is presenting two posters on animal-free methods for testing inhalation toxicity at the 56th annual Society of Toxicology (SOT) meeting March 12 to 16, 2017, in Baltimore, Maryland.

Citizen Science in the Digital Age: Rhetoric, Science and Public Engagement
James Wynn's timely investigation highlights scientific studies grounded in publicly gathered data and probes the rhetoric these studies employ.

Science/Science Careers' survey ranks top biotech, pharma, and biopharma employers
The Science and Science Careers' 2016 annual Top Employers Survey polled employees in the biotechnology, biopharmaceutical, pharmaceutical, and related industries to determine the 20 best employers in these industries as well as their driving characteristics.

Three natural science professors win TJ Park Science Fellowship
Professor Jung-Min Kee (Department of Chemistry, UNIST), Professor Kyudong Choi (Department of Mathematical Sciences, UNIST), and Professor Kwanpyo Kim (Department of Physics, UNIST) are the recipients of the Cheong-Am (TJ Park) Science Fellowship of the year 2016.

Read More: Science News and Science Current Events
Brightsurf.com is a participant in the Amazon Services LLC Associates Program, an affiliate advertising program designed to provide a means for sites to earn advertising fees by advertising and linking to Amazon.com.