BAND: Biomedical Alert News Dataset

1 code implementation • 23 May 2023 • Zihao Fu, Meiru Zhang, Zaiqiao Meng, Yannan Shen, David Buckeridge, Nigel Collier

Infectious disease outbreaks continue to pose a significant threat to human health and well-being.

Epidemiology named-entity-recognition +3

Modeling electronic health record data using a knowledge-graph-embedded topic model

no code implementations • 3 Jun 2022 • Yuesong Zou, Ahmad Pesaranghader, Aman Verma, David Buckeridge, Yue Li

We evaluated its performance based on EHR reconstruction and drug imputation.

Clinical Knowledge Imputation +1

Supervised multi-specialist topic model with applications on large-scale electronic health record data

1 code implementation • 4 May 2021 • Ziyang Song, Xavier Sumba Toral, Yixin Xu, Aihua Liu, Liming Guo, Guido Powell, Aman Verma, David Buckeridge, Ariane Marelli, Yue Li

Motivation: Electronic health record (EHR) data provides a new venue to elucidate disease comorbidities and latent phenotypes for precision medicine.

Variational Inference

COVI-AgentSim: an Agent-based Model for Evaluating Methods of Digital Contact Tracing

no code implementations • 30 Oct 2020 • Prateek Gupta, Tegan Maharaj, Martin Weiss, Nasim Rahaman, Hannah Alsdurf, Abhinav Sharma, Nanor Minoyan, Soren Harnois-Leblanc, Victor Schmidt, Pierre-Luc St. Charles, Tristan Deleu, Andrew Williams, Akshay Patel, Meng Qu, Olexa Bilaniuk, Gaétan Marceau Caron, Pierre Luc Carrier, Satya Ortiz-Gagné, Marc-Andre Rousseau, David Buckeridge, Joumana Ghosn, Yang Zhang, Bernhard Schölkopf, Jian Tang, Irina Rish, Christopher Pal, Joanna Merckx, Eilif B. Muller, Yoshua Bengio

The rapid global spread of COVID-19 has led to an unprecedented demand for effective methods to mitigate the spread of the disease, and various digital contact tracing (DCT) methods have emerged as a component of the solution.

Virology

Predicting Infectiousness for Proactive Contact Tracing

1 code implementation • ICLR 2021 • Yoshua Bengio, Prateek Gupta, Tegan Maharaj, Nasim Rahaman, Martin Weiss, Tristan Deleu, Eilif Muller, Meng Qu, Victor Schmidt, Pierre-Luc St-Charles, Hannah Alsdurf, Olexa Bilanuik, David Buckeridge, Gáetan Marceau Caron, Pierre-Luc Carrier, Joumana Ghosn, Satya Ortiz-Gagne, Chris Pal, Irina Rish, Bernhard Schölkopf, Abhinav Sharma, Jian Tang, Andrew Williams

Predictions are used to provide personalized recommendations to the individual via an app, as well as to send anonymized messages to the individual's contacts, who use this information to better predict their own infectiousness, an approach we call proactive contact tracing (PCT).