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Creating an Early Alert System for COVID-19
UPDATED APRIL 27, 2020
Researchers combine power of wearable device and big data analytics to track spread and early signs of infection-including among healthcare workers
San Diego, Calif., April 2, 2020 -- To better understand early signs of coronavirus and the virus' spread, physicians around the country and data scientists at UC San Diego are working together to use a wearable device to monitor more than 30,000 people, including thousands of healthcare workers. The research started at hospitals in the San Francisco Bay Area, and has now expanded nationwide.
The wearable tracks temperature, heart rate, respiration and activity. Based on early data analysis, the researchers seem able to predict whether someone is getting sick; whether it's going to be mild or severe; and potentially whether the illness is specifically COVID-19 Now, the researchers want to broaden the number of subjects to make sure they are capturing a representative sample of the U.S. population.
|Ben Smarr, a professor of data science and bioengineering at UC San Diego, leads the data analysis effort on the project.|
“Our first push is to get as many people involved as possible,” said Benjamin Smarr, who leads the data analysis effort and is a professor of data science and bioengineering at the Jacobs School of Engineering at UC San Diego. “If enough people are involved we can cover the whole country.”
Initial data analysis has also shown that some patients who tested positive for COVID-19 and recovered have long-lasting side effects. Data has also shownCOVID-19 symptoms differ widely from one person to the next.
“It really shows you need as much information as possible - heart rate or temperature on their own wouldn’t get you the whole picture, so involving a wearable that can collect multiple data streams is key,” Smarr said.
Early analysis also suggests that some “asymptomatic” cases may in fact simply go unnoticed by people, but can actually be detected by sensors.
"The sensors successfully reveal when someone is physiologically ill, but these signals in the data don't always line up with when that person reports symptoms, which is sometimes earlier but sometimes much later." said Smarr. "Those cases where people report symptoms after their physiology shows illness are important, because a big concern is knowing when people are sick while they don't yet know it themselves. This suggests some of those cases may be able to be detected in the physiology, even as the person is not feeling sick.”
The difference is a key insight into one of the major challenges COVID-19 poses to public health - identifying contagious individuals before they become noticeably sick. “It highlights how important participation is in helping to understand this illness - tech alone won’t get us there,” concludes Smarr.
|Rob Knight, from the UC San Diego School of Medicine and Jacobs School of Engineering, will lead an effort to collect samples to supplement data.|
Subjects don't necessarily have to use a wearable device to participate. They can simply enter their symptoms on a web form, such as those provided by UC San Diego’s own reportyoursymptoms.ucsd.edu/survey, as well as https://www.covidnearyou.org/#!/ and https://quantifiedflu.org. Researchers then access the data and conduct analysis.
Subjects in the study also have an option to take part in sample collection led by professor Rob Knight, from the UC San Diego School of Medicine and the Jacobs School of Engineering. Samples could include swabs, stools and blood that will confirm infection and immunities mailed to researchers. The research team is also trying to secure and distribute tests that can determine whether someone has developed antibodies against COVID-19.
The researchers are mindful of privacy concerns. When people opt in to the study, they make their data available for three months to UC San Francisco. It is then anonymized before large-scale analysis starts at UC San Diego.
The ultimate goal is to develop the equivalent of a weather map for COVID-19 spread and severity, based on developing algorithms for sickness prediction and early alert. This will be done with the help of Ilkay Altintas, the chief data science officer at the San Diego Supercomputer Center and a fellow at the Halicioglu Data Science Institute at UC San Diego. She and her team have developed tools to gather data about wildfires and predict where the blazes are headed. They hope to do the same with the virus. Algorithms will be released publicly and anyone providing data would have the option to contribute to these efforts.
|Ilkay Altintas, chief data officer at the San Diego Supercomputer Center, and her team will work on developing algorithms for sickness prediction and early alert.|
“This will be the deepest data dive into an illness that has been attempted and carried out,” said Smarr.
The wearable device is a ring provided by Oura, a Finnish startup. More than 10,000 Oura ring users have signed up to provide data and fill out questionnaires for this study. While not an FDA registered healthcare device, the ring monitors a range of signals, including continuous temperature, heart rate, respiration rate and activity. Initial analysis suggests that a destabilization of temperature happens a couple of days before coronavirus symptoms manifest. The Oura ring detects this pattern. The app also reports daily temperature changes, which can be a signal for healthcare workers to check their temperature with a thermometer and stay home if it’s elevated. Oura has provided the device free of charge to 2,000 healthcare workers at the UCSF Medical Center and Zuckerberg San Francisco General Hospital.
The study will help healthcare workers stay home from work sooner and get treatment sooner, Dr. Ashley Mason, an assistant professor of psychiatry at UC San Francisco who developed the project and is the lead investigator, told the San Francisco Chronicle. “[The virus] is expected back in the fall and we need to have tools ready.”
|An image provided by Oura, showing someone wearing one of the rings the company makes.|
Mason is a sleep clinician and had been using the Oura ring to look at temperature data for treatment-resistant depression. Smarr was helping her think about how to analyze the data. After UC San Francisco shut down all non-essential work, Mason realized the same stream of temperature data could be used to monitor sickness. She and Smarr quickly worked together with Oura to design a study and run it by UC San Francisco’s Institutional Review Board.
As part of the study, Santa Clara Valley Medical Center will also receive rings for 1,000 healthcare workers. The hospital, located in San Jose, the third largest city in California, is in one of the areas most severely affected by COVID-19.
“Our healthcare workers are probably the worst hit,” said Dr. Marco Lee, a neurosurgeon at Santa Clara Valley and a clinical professor of neurosurgery at Stanford University, who first brought the idea of using the device there. “We want them to feel that we are supporting them and providing them with tools so they may get an early warning.”
Lee also said he hopes that the study will help gather crucial data about the coronavirus and how it manifests itself. “We don’t know what the study will show,” Lee said. “But this is a unique situation and we suddenly have a device where we can monitor a group that is very susceptible to infection.”
Ultimately, said Smarr, the researchers hope to use the data to predict the virus’ spread and set up an early alert system.
Jacobs School of Engineering