Posts Tagged: COVID-19

The year ahead: Q-and-A with U of T Engineering Dean Christopher Yip

Dean Christopher Yip in December 2020. (Photo: Daria Perevezentsev)

 

By Tyler Irving

A lot of adjectives have been used to describe the year 2020 — unprecedented, unusual, challenging — but Dean Chris Yip would choose a different one: inspiring.

“What I saw across our Faculty was people rising to the challenge,” he says. “That innovative spirit is what engineering is all about, and I think many of the creative solutions we developed will still be valuable when the pandemic is over.”

Writer Tyler Irving sat down with Dean Yip to reflect on the past few months and look forward to the next year at U of T Engineering.

Read their conversation in the U of T Engineering News.


Making the most of an unusual semester: How EngSci students are adapting to remote learning

Left to right: Brothers Arnaud Deza (Year 3 EngSci), Daniel Deza (Year 1 EngSci) and Gabriel Deza (Year 4 EngSci) are all studying from home this semester. Their sister Anna Deza (EngSci 2T0) joins them online. (Photo: Emmanuel Deza)

 

Like students around the world, U of T Engineering students have had to find new and creative ways to manage their studies and extra-curricular activities during this challenging and unusual Fall term.

See the different ways EngSci students have adapted to a remote academic year in this story in the U of T Engineering News.


flatten: Leveraging big data to fight COVID-19 in Mogadishu


A volunteer uses digital tools created by flatten.ca to collect information on COVID-19 symptoms and spread in Mogadishu, Somalia. (Photo: Durable Solutions Unit)

By Tyler Irving

Six months ago, Shrey Jain (Year 2 EngSci) was a first-year engineering student who just wanted to do his part to help reduce the spread of COVID-19. He could never have imagined that doing so would take him halfway around the world, into the heart of Mogadishu, Somalia. 

“It’s been really amazing to see the realness of it, the tangible outcomes we can have by applying what we know about gathering and analyzing data,” says Jain. 

Back in March, as the world awoke to the threat posed by the pandemic, Jain led a team of volunteers in an initiative that would become known as flatten, as in “flattening the curve.” 

Their first project was a real-time heatmap of potential and confirmed COVID-19 cases in Toronto, created from self-reported, anonymized data via screening questions developed in consultation with public health officials. 

Within days, flatten had garnered national headlines, and the team was fielding calls from public health officials who wanted to work with them. 

“We had collaborated with the City of Montreal and other public health bodies in Canada,” says Jain. “That was great, but what we really wanted to do was use our tool in a way that would lead to concrete changes in policy.” 

The opportunity came when the team was contacted by Dr. Ian Furst, a Canadian oral and maxillofacial surgeon who is also CEO of the Swisscross Foundation, which provides access to high quality healthcare for victims of war. 

Via a group called Global Women Leaders, Furst had been working with Hodan Ali, a Senior Advisor to the mayor of Mogadishu and a key member of the Durable Solutions Unit, part of the local Benadir Regional Administration (BRA). 

“Our models indicated that social measures could be key to reducing the spread, but they needed to be guided by information on disease prevalence,” says Furst. “Since Mogadishu had little access to testing, we thought that tracking the disease via symptom surveillance might be possible. The flatten project was an exact match to what Hodan and I thought might help.”

Adapting the tools that flatten had developed for Mogadishu meant building and drafting a new set of screening questions, but it also required a new approach to deal with challenges related to access and use of the technology. 

“In Mogadishu, not everybody has a smartphone, and internet access can be unreliable,” says Jain. “To get robust, valuable data, we realized that we needed people to mediate the collection process.” 

 Funding from the European Union and the United Nations Development Program enabled the BRA to provide stipends for 400 local volunteers to survey citizens across the city for two months. 

 Using customized tools created by flatten, these volunteers gathered data on COVID-19 symptoms and other public health parameters from more than 115,000 people, including many living in Internally Displaced Persons camps. Throughout the data collection process, members of the flatten team were responsible for data monitoring, cleaning and quality assurance.  

 Insights extracted from this data informed practical strategies that have already been implemented in the city by the BRA, including rapid emergency shelters in areas where household overpopulation was identified as a risk factor, and 205 wash stations set up in districts where hand hygiene was a key need. 

 Other key findings of the project included a recognition that health literacy and income were key factors affecting both testing and infection, and the BRA is working to develop programs to address these needs. 

 Jain says that the flatten technical team as well as the multidisciplinary advisory team were key to the success of the project. Members included: 

  • U of T Assistant Professor Dr. Marzyeh Ghassemi (Department of Computer Science and Department of Medicine), Canada Research Chair in Machine Learning for Health and Canada CIFAR AI Chair 
  • Professor Leo Anthony Celi, Principal Research Scientist at the MIT Institute for Medical Engineering and Science and an Associate Professor at Harvard Medical School 
  • Marie-Laure Charpignon, PhD candidate at MIT Institute for Data, Systems, and Society (IDSS) 
  • Mathew Samuel, Data Scientist at Facebook  
  • Nick Frosst, Founder of Cohere.AI and a former researcher at Google Brain 

Going forward, Jain hopes the project can serve as a model for anyone interested in leveraging the power of big data to improve public health in resourceconstrained settings. 

With this international collaboration, we have set a precedent for data collection in Sub-Saharan Africa, and demonstrated that even a small start-up like flatten can make positive difference globally, says Jain.  

“We’re already talking to academics who work in global health about further anonymizing and characterizing this dataset, and using it to promote open science research in public health. This approach can continue providing beneficial insights to humanitarian aid organizations, like the BRA.”  

Furst also sees a lot of potential for the tools that flatten has developed. 

“Imagine a nimble, scalable, mobile system that captures and organizes humanitarian health needs so that local healthcare workers can act on them, but also match them to organizations in a position to help,” he says. “I think that would make a big difference, and flatten is the first step toward that dream.” 

This story was originally published in the U of T Engineering News.


Student research: smart UV lamp to fight COVID-19

smart UV lamp

This prototype UV lamp, designed by a team including undergraduate student Bipasha Goyal (Year 3 EngSci), is part of a smart robotic assembly that is designed to sterilize surfaces in hospitals, schools and even residential buildings. (Image: Junho (Dave) Jeong)

 

Bipasha Goyal (Year 3 EngSci) is working on a new tool to help defend against COVID-19.  The smart UV lamp she is designing under the supervision of Professor Joyce Poon (ECE, EngSci 0T2) will use sensors for optimal disinfection in health care settings.

The innovative system, called LumineSense, is one of dozens of student-led projects funded through Mitacs Research Training Awards.

To learn how Goyal plans to integrate smart sensors and algorithms into the device, read the full story in the U of T Engineering News.


What undergraduate summer research looks like in the time of COVID-19

By Tyler Irving

KMUTT virtual research meeting

 

Lauren Streitmatter (Year 2 EngSci) thought she’d be heading to Imperial College London this summer, but the pandemic had other plans.

“I was really looking forward to the hands-on experience working in a research lab, as well as going to Europe for the first time,” she says. “After that fell through, I didn’t have many ideas for a new summer position.”

But a few days after the cancellation, Streitmatter got an email about a new research opportunity, this one at Carnegie Mellon University. The project involved pandemic modelling, so it could be completed remotely, and the supervisor was U of T Engineering alumnus Professor Peter Zhang (EngSci 1T1, MIE MASc 1T3).

“I thought it looked really interesting,” says Streitmatter. “I got an interview and was accepted in early May to start the remote placement. We hope to uncover fundamental physical laws of epidemic processes by designing novel Explainable AI (XAI) methods.”

Lauren Streitmatter

Lauren Streitmatter is completing her summer research project remotely with Peter Zhang (EngSci 1T1, MIE MASc 1T3), a professor at Carnegie Mellon University. (Photo courtesy Lauren Streitmatter)

Streitmatter is one of dozens of U of T Engineering students who are forging ahead with summer research placements, despite the physical distancing restrictions in place throughout much of the world.

More than 50 of these projects are supported through the Engineering Science Research Opportunities Program (ESROP), which provides fellowships that are matched by project supervisors. ESROP is made possible by philanthropic donations from many benefactors, including Engineering Science alumni and industry partners.

“We’ve had an absolutely tremendous response from our partners both here at U of T and abroad, many of whom are our alumni,” says Scott Sleeth, Curriculum Officer in the Division of Engineering Science, who coordinates summer research placements.

“Summer is a perfect time to explore and learn in these open-ended projects,” says Zhang. “My mentors — including Dean Emerita Cristina Amon (MIE), David Romero, professors Chris Beck (MIE), Tim Chan (MIE), and Yu-Ling Cheng (ChemE) — lit the entrance for me, and I hope I can do something similar for future generations of students.”

All of the placements are being completed online. Many of them focus on topics such as data science, artificial intelligence, or bioinformatics, which naturally lend themselves to remote collaboration.

Like Streitmatter, some of the students have shifted their placements from one supervisor to another, including many within U of T. But others are going ahead with their original placements abroad, albeit virtually.

These include eight students studying with Professor Jonathan Chan (EngSci 8T4, ChemE MASc 8T7, PhD 9T5) another EngSci alumnus who is now a professor at King Mongkut’s University of Technology Thonburi.

“We all have biweekly meetings with Professor Chan and each other to keep updated on relevant online events, such as seminars and conferences, and to check-in on the progress everyone is making,” says Dunja Matic (Year 3 EngSci).

Matic is working on two projects: one which uses physiological data from EEGs or ECGs to train algorithms to classify emotions, and another that uses deep learning (a form of artificial intelligence) to predict the effects of genetic variations.

“I am being challenged to learn about topics that are out of my comfort zone, such as artificial intelligence,” says Matic. “The new plan for this placement is still very exciting, despite not being able to work in person.”

“Everything is going as expected,” says Chan. “There are ups-and-downs as usual and the team is learning to work with one another and their mentors and research collaborators. In some ways, I’d say this batch of students is able to produce even more as they able to focus on the projects that they selected. But we may distract them with some other events so they do not overexert themselves.”

The high number of placements is another example of the way that U of T Engineering is adapting to the new normal.

“I’m quite pleased with how this all turned out,” says Sleeth. “It’s been rewarding to see the lengths to which professors are willing to go to ensure that these students can still have meaningful research experiences, and to support them in their professional development.”


FLATTEN: EngSci students’ COVID-19 project makes national headlines

FLATTEN.ca is an online tool developed by a team of volunteers, including EngSci students. It uses self-reporting to create a heatmap of potential COVID-19 cases across the Greater Toronto Area. (Image courtesy FLATTEN.ca)

As governments around the world work hard to contain the coronavirus, a key ingredient is in short supply: detailed data on the presence of the virus in our communities. Without this information, public health agencies cannot accurately identify where localized efforts are needed most.

This is the gap that Year 1 EngSci student Shrey Jain and his colleagues are trying to fill. Jain leads a team of over 25 volunteer collaborators who sprang into action two weeks ago to create an online tool that develops a real-time heatmap of potential and confirmed COVID-19 cases.

Called FLATTEN.ca, the platform uses data analytics and information crowdsourced from users who anonymously self-report how they are feeling. The goal is to identify local outbreaks so that officials can see areas where resources will be in high demand.

The current goal is to gather data from 600,000 Toronto area residents—about ten percent of the population—to provide a more accurate picture of virus spread than is currently available. Google has offered to scale the project up to other regions across the country, if they succeed.

The FLATTEN team includes engineering, computer science and molecular genetics students from U of T, the University of Waterloo, the University of New Brunswick and McMaster University. Several U of T professors in fields from public health to computer science are among its advisors.

“The EngSci program and my friends in EngSci taught me what it really means to work hard on a daily basis,” says Jain, as the team continues their efforts in addition to their regular course work.  Joining Jain on the team are EngSci students Martin Staadecker, Arthur Allshire, Rassam Yazdi (all Year 1), Hongyu (Charlie) Chen and Siyan Zhao (both Year 3 Machine Intelligence), and Jianing (Robert) Li and Lingkai Shen (both Year 4 Machine Intelligence).

“To all EngSci students who are involved in this project, I want to thank you for your efforts so far and encourage you to press on. The human race needs all the help it can get,” says Interim EngSci Chair, Professor Will Cluett.

Read how the team’s work is contributing to Canadian COVID-19 research in the Globe & Mail.


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