Portrait of David Buckeridge

David Buckeridge

Associate Academic Member
Full Professor, McGill University, Department of Epidemiology, Biostatistics and Occupational Health
Research Topics
Medical Machine Learning
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Biography

David Buckeridge is a professor at the School of Population and Global Health at McGill University, as well as chief digital health officer for the McGill University Health Centre and executive scientific director of the Public Health Agency of Canada.

A Tier 1 Canada Research Chair in Health Informatics and Data Science, Buckeridge has projected health system demand for the Canadian province of Quebec, led data management and analytics for the Canadian Immunity Task Force, and supported the World Health Organization in monitoring global immunity to SARS-CoV-2. He has an MD from Queen's University, an MSc in epidemiology from the University of Toronto and a PhD in biomedical informatics from Stanford University. He is a Fellow of the Royal College of Physicians of Canada.

Current Students

Kalash Dave
Master's Research - McGill University
Eva Gao
PhD - McGill University
yachen li Li
Master's Research - McGill University
yachen.li@mail.mcgill.ca
Aidan Licoppe
Master's Research - McGill University
Github
Yannan Shen
Master's Research - McGill University

Publications

Protective effectiveness of prior SARS-CoV-2 infection and hybrid immunity against Omicron infection and severe disease: a systematic review and meta-regression
Niklas Bobrovitz
Harriet Ware
Xiaomeng Ma
Zihan Li
Reza Hosseini
Christian Cao
Anabel Selemon
Mairead Whelan
Zahra Premji
Hanane Issa
Brianna Cheng
L. Abu-Raddad
David Buckeridge
M. D. Kerkhove
Vanessa Piechotta
Melissa M Higdon
Annelies Wilder-Smith
Isabel Bergeri
Daniel R Feikin
Rahul K. Arora … (see 2 more)
Minal K Patel
Lorenzo Subissi
Background We aimed to systematically review the magnitude and duration of the protective effectiveness of prior infection (PE) and hybrid i… (see more)mmunity (HE) against Omicron infection and severe disease. Methods We searched pre-print and peer-reviewed electronic databases for controlled studies from January 1, 2020, to June 1, 2022. Risk of bias (RoB) was assessed using the Risk of Bias In Non-Randomized Studies of Interventions (ROBINS-I)-Tool. We used random-effects meta-regression to estimate the magnitude of protection at 1-month intervals and the average change in protection since the last vaccine dose or infection from 3 months to 6 or 12 months. We compared our estimates of PE and HE to previously published estimates of the magnitude and durability of vaccine effectiveness (VE) against Omicron. Findings Eleven studies of prior infection and 15 studies of hybrid immunity were included. For prior infection, there were 97 estimates (27 at moderate RoB and 70 at serious RoB), with the longest follow up at 15 months. PE against hospitalization or severe disease was 82.5% [71.8-89.7%] at 3 months, and 74.6% [63.1-83.5%] at 12 months. PE against reinfection was 65.2% [52.9-75.9%] at 3 months, and 24.7% [16.4-35.5%] at 12 months. For HE, there were 153 estimates (78 at moderate RoB and 75 at serious RoB), with the longest follow up at 11 months for primary series vaccination and 4 months for first booster vaccination. Against hospitalization or severe disease, HE involving either primary series vaccination or first booster vaccination was consistently >95% for the available follow up. Against reinfection, HE involving primary series vaccination was 69.0% [58.9-77.5%] at 3 months after the most recent infection or vaccination, and 41.8% [31.5-52.8%] at 12 months, while HE involving first booster vaccination was 68.6% [58.8-76.9%] at 3 months, and 46.5% [36.0-57.3%] at 6 months. Against hospitalization or severe disease at 6 months, hybrid immunity with first booster vaccination (effectiveness 95.3% [81.9-98.9%]) or with primary series alone (96.5% [90.2-98.8%]) provided significantly greater protection than prior infection alone (80.1% [70.3-87.2%]), first booster vaccination alone (76.7% [72.5-80.4%]), or primary series alone (64.6% [54.5-73.6%]). Results for protection against reinfection were similar. Interpretation Prior infection and hybrid immunity both provided greater and more sustained protection against Omicron than vaccination alone. All protection estimates waned quickly against infection but remained high for hospitalisation or severe disease. Individuals with hybrid immunity had the highest magnitude and durability of protection against all outcomes, reinforcing the global imperative for vaccination.
2022-10-04
medRxiv (preprint)
doi.org
MixEHR-Guided: A guided multi-modal topic modeling approach for large-scale automatic phenotyping using the electronic health record
Yuri Ahuja
Yuesong Zou
Aman Verma
David Buckeridge
Yue Li
2022-10-01
Journal of Biomedical Informatics (published)
doi.org
Synthetic data as an enabler for machine learning applications in medicine
Jean-Francois Rajotte
Robert Bergen
David Buckeridge
Khaled El Emam
Raymond Ng
Elissa Strome
2022-10-01
iScience (published)
doi.org
Automatic Phenotyping by a Seed-guided Topic Model
Ziyang Song
Yuanyi Hu
Aman Verma
David Buckeridge
Yue Li
Electronic health records (EHRs) provide rich clinical information and the opportunities to extract epidemiological patterns to understand a… (see more)nd predict patient disease risks with suitable machine learning methods such as topic models. However, existing topic models do not generate identifiable topics each predicting a unique phenotype. One promising direction is to use known phenotype concepts to guide topic inference. We present a seed-guided Bayesian topic model called MixEHR-Seed with 3 contributions: (1) for each phenotype, we infer a dual-form of topic distribution: a seed-topic distribution over a small set of key EHR codes and a regular topic distribution over the entire EHR vocabulary; (2) we model age-dependent disease progression as Markovian dynamic topic priors; (3) we infer seed-guided multi-modal topics over distinct EHR data types. For inference, we developed a variational inference algorithm. Using MixEHR-Seed, we inferred 1569 PheCode-guided phenotype topics from an EHR database in Quebec, Canada covering 1.3 million patients for up to 20-year follow-up with 122 million records for 8539 and 1126 unique diagnostic and drug codes, respectively. We observed (1) accurate phenotype prediction by the guided topics, (2) clinically relevant PheCode-guided disease topics, (3) meaningful age-dependent disease prevalence. Source code is available at GitHub: https://github.com/li-lab-mcgill/MixEHR-Seed.
2022-08-14
Knowledge Discovery and Data Mining (published)
doi.org
Estimating the lagged effect of price discounting: a time-series study on sugar sweetened beverage purchasing in a supermarket
Hiroshi Mamiya
Alexandra M. Schmidt
Erica E. M. Moodie
David Buckeridge
2022-08-06
BMC Public Health (published)
doi.org
BioCaster in 2021: automatic disease outbreaks detection from global news media
Zaiqiao Meng
Anya Okhmatovskaia
Maxime Polleri
Yannan Shen
Guido Powell
Zihao Fu
Iris Ganser
Meiru Zhang
Nicholas B King
David Buckeridge
Nigel Collier
2022-07-28
Bioinformatics (published)
doi.org
Revisiting Transfer Functions: Learning About a Lagged Exposure-Outcome Association in Time-Series Data
Hiroshi Mamiya
Alexandra M. Schmidt
Erica E. M. Moodie
David Buckeridge
2022-07-11
International Journal of Public Health (published)
doi.org
Survival Modelling for Data From Combined Cohorts: Opening the Door to Meta Survival Analyses and Survival Analysis Using Electronic Health Records
James H. McVittie
Ana F. Best
David B. Wolfson
David A. Stephens
Julian Wolfson
David Buckeridge
Shahinaz M. Gadalla
Non‐parametric estimation of the survival function using observed failure time data depends on the underlying data generating mechanism, i… (see more)ncluding the ways in which the data may be censored and/or truncated. For data arising from a single source or collected from a single cohort, a wide range of estimators have been proposed and compared in the literature. Often, however, it may be possible, and indeed advantageous, to combine and then analyse survival data that have been collected under different study designs. We review non‐parametric survival analysis for data obtained by combining the most common types of cohort. We have two main goals: (i) to clarify the differences in the model assumptions and (ii) to provide a single lens through which some of the proposed estimators may be viewed. Our discussion is relevant to the meta‐analysis of survival data obtained from different types of study, and to the modern era of electronic health records.
2022-06-16
International Statistical Review (published)
doi.org
Modeling electronic health record data using a knowledge-graph-embedded topic model
Yuesong Zou
Ahmad Pesaranghader
Aman Verma
David Buckeridge
Yue Li
The rapid growth of electronic health record (EHR) datasets opens up promising opportunities to understand human diseases in a systematic wa… (see more)y. However, effective extraction of clinical knowledge from the EHR data has been hindered by its sparsity and noisy information. We present KG-ETM, an end-to-end knowledge graph-based multimodal embedded topic model. KG-ETM distills latent disease topics from EHR data by learning the embedding from the medical knowledge graphs. We applied KG-ETM to a large-scale EHR dataset consisting of over 1 million patients. We evaluated its performance based on EHR reconstruction and drug imputation. KG-ETM demonstrated superior performance over the alternative methods on both tasks. Moreover, our model learned clinically meaningful graph-informed embedding of the EHR codes. In additional, our model is also able to discover interpretable and accurate patient representations for patient stratification and drug recommendations.
2022-06-03
ArXiv (preprint)
doi.org
arxiv.org
A Conceptual Framework for Representing Events Under Public Health Surveillance
Anya Okhmatovskaia
Yannan Shen
Iris Ganser
Nigel Collier
Nicholas B King
Zaiqiao Meng
David Buckeridge
Information integration across multiple event-based surveillance (EBS) systems has been shown to improve global disease surveillance in expe… (see more)rimental settings. In practice, however, integration does not occur due to the lack of a common conceptual framework for encoding data within EBS systems. We aim to address this gap by proposing a candidate conceptual framework for representing events and related concepts in the domain of public health surveillance.
2022-05-25
Medical Informatics Europe (published)
doi.org
Mortality trends and length of stays among hospitalized patients with COVID-19 in Ontario and Québec (Canada): a population-based cohort study of the first three epidemic waves
Yiqing Xia
Huiting Ma
David Buckeridge
Marc Brisson
Beate Sander
Adrienne Chan
Aman Verma
Iris Ganser
Nadine Kronfli
Sharmistha Mishra
Mathieu Maheu-Giroux
2022-04-01
International Journal of Infectious Diseases (published)
doi.org
Mortality trends and length of stays among hospitalized patients with COVID-19 in Ontario and Québec (Canada): a population-based cohort study of the first three epidemic waves
Yiqing Xia
Huiting Ma
David Buckeridge
M. Brisson
Beate H Sander
A. Chan
Aman Verma
Iris Ganser
Nadine Kronfli
Sharmistha Mishra
Mathieu Maheu-Giroux
2022-04-01
International Journal of Infectious Diseases (published)
doi.org