Publications

In-Context Learning for Text Classification with Many Labels
Aristides Milios
Siva Reddy
Dzmitry Bahdanau
2023-09-18
ArXiv (preprint)
doi.org
arxiv.org
M-TAG: A modular teaching-aid for Geant4
Liam Carroll
S. Enger
2023-09-18
Heliyon (published)
doi.org
Estimating the population effectiveness of interventions against COVID-19 in France: a modelling study
Iris Ganser
David L Buckeridge
Jane M Heffernan
M. Prague
Rodolphe Thiébaut
Background Non-pharmaceutical interventions (NPIs) and vaccines have been widely used to manage the COVID-19 pandemic. However, uncertainty … (see more)persists regarding the effectiveness of these interventions due to data quality issues, methodological challenges, and differing contextual factors. Accurate estimation of their effects is crucial for future epidemic preparedness. Methods To address this, we developed a population-based mechanistic model that includes the impact of NPIs and vaccines on SARS-CoV-2 transmission and hospitalization rates. Our statistical approach estimated all parameters in one step, accurately propagating uncertainty. We fitted the model to comprehensive epidemiological data in France from March 2020 to October 2021. With the same model, we simulated scenarios of vaccine rollout. Results The first lockdown was the most effective, reducing transmission by 84% (95% confidence interval (CI) 83-85). Subsequent lockdowns had diminished effectiveness (reduction of 74% (69-77) and 11% (9-18), respectively). A 6pm curfew was more effective than one at 8 pm (68% (66-69) vs. 48% (45-49) reduction), while school closures reduced transmission by 15% (12-18). In a scenario without vaccines before November 2021, we predicted 159,000 or 194% (95% prediction interval (PI) 74-424) more deaths and 1,488,000 or 340% (136-689) more hospitalizations. If a vaccine had been available after 100 days, over 71,000 deaths (16,507-204,249) and 384,000 (88,579-1,020,386) hospitalizations could have been averted. Conclusion Our results highlight the substantial impact of NPIs, including lockdowns and curfews, in controlling the COVID-19 pandemic. We also demonstrate the value of the 100 days objective of the CEPI initiative for vaccine availability.
2023-09-13
medRxiv (preprint)
doi.org
Addressing uncertainty when projecting marine species' distributions under climate change
Sarah C. Davies
Patrick L. Thompson
Catalina Gomez
Jessica Nephin
Anders Knudby
Ashley E. Park
Sarah K. Friesen
Laura J. Pollock
Emily M. Rubidge
Sean C. Anderson
Josephine C. Iacarella
Devin A. Lyons
Andrew MacDonald
Andrew McMillan
Eric J. Ward
Amber M. Holdsworth
Neil Swart
Jeff Price
Karen L. Hunter
2023-09-12
Ecography (published)
doi.org
Artificial Intelligence for Detection of Dementia Using Motion Data: A Scoping Review
Lily Puterman-salzman
Jory Katz
Howard Bergman
Roland Grad
Vladimir Khanassov
Genevieve Gore
Isabelle Vedel
Machelle Wilchesky
Narges Armanfard
Negar Ghourchian
S. A. Rahimi
Background: Dementia is a neurodegenerative disease resulting in the loss of cognitive and psychological functions. Artificial intelligence … (see more)(AI) may help in detection and screening of dementia; however, little is known in this area. Objectives: The objective of this study was to identify and evaluate AI interventions for detection of dementia using motion data. Method: The review followed the framework proposed by O’Malley’s and Joanna Briggs Institute methodological guidance for scoping reviews. We adhered to the Preferred Reporting Items for Systematic Reviews and Meta-Analyses extension for Scoping Reviews (PRISMA-ScR) checklist for reporting the results. An information specialist performed a comprehensive search from the date of inception until November 2020, in five bibliographic databases: MEDLINE, EMBASE, Web of Science Core Collection, CINAHL, and IEEE Xplore. We included studies aimed at the deployment and testing or implementation of AI interventions using motion data for the detection of dementia among a diverse population, encompassing varying age, sex, gender, economic backgrounds, and ethnicity, extending to their health care providers across multiple health care settings. Studies were excluded if they focused on Parkinson’s or Huntington’s disease. Two independent reviewers screened the abstracts, titles, and then read the full-texts. Disagreements were resolved by consensus, and if this was not possible, the opinion of a third reviewer was sought. The reference lists of included studies were also screened. Results: After removing duplicates, 2,632 articles were obtained. After title and abstract screening and full-text screening, 839 articles were considered for categorization. The authors categorized the papers into six categories, and data extraction and synthesis was performed on 20 included papers from the motion tracking data category. The included studies assessed cognitive performance (n = 5, 25%); screened dementia and cognitive decline (n = 8, 40%); investigated visual behaviours (n = 4, 20%); and analyzed motor behaviors (n = 3, 15%). Conclusions: We presented evidence of AI systems being employed in the detection of dementia, showcasing the promising potential of motion tracking within this domain. Although some progress has been made in this field recently, there remain notable research gaps that require further exploration and investigation. Future endeavors need to compare AI interventions using motion data with traditional screening methods or other tech-enabled dementia detection mechanisms. Besides, future works should aim at understanding how gender and sex, and ethnic and cultural sensitivity can contribute to refining AI interventions, ensuring they are accessible, equitable, and beneficial across all society.
2023-09-12
Dementia and Geriatric Cognitive Disorders Extra (published)
doi.org
A Distributed Data-Parallel PyTorch Implementation of the Distributed Shampoo Optimizer for Training Neural Networks At-Scale
Hao-Jun Michael Shi
Tsung-Hsien Lee
Shintaro Iwasaki
Jose Gallego-Posada
Zhijing Li
Kaushik Rangadurai
Dheevatsa Mudigere
Michael G. Rabbat
2023-09-11
ArXiv (preprint)
doi.org
arxiv.org
The Past, Present, and Future of the Brain Imaging Data Structure (BIDS)
Russell A. Poldrack
Christopher J. Markiewicz
Stefan Appelhoff
Yoni K. Ashar
Tibor Auer
Sylvain Baillet
Shashank Bansal
Leandro Beltrachini
Christian G. Benar
Giacomo Bertazzoli
Suyash Bhogawar
Ross W. Blair
Marta Bortoletto
Mathieu Boudreau
Teon L. Brooks
Vince D. Calhoun
Filippo Maria Castelli
Patricia Clement
Alexander L Cohen
Julien Cohen-Adad … (see 94 more)
Sasha D'Ambrosio
Gilles de Hollander
María de la iglesia-Vayá
Alejandro de la Vega
Arnaud Delorme
Orrin Devinsky
Dejan Draschkow
Eugene Paul Duff
Elizabeth DuPré
Eric Earl
Oscar Estéban
Franklin W. Feingold
Guillaume Flandin
anthony galassi
Giuseppe Gallitto
Melanie Ganz
Rémi Gau
James Gholam
Satrajit S. Ghosh
Alessio Giacomel
Ashley G Gillman
Padraig Gleeson
Alexandre Gramfort
Samuel Guay
Giacomo Guidali
Yaroslav O. Halchenko
Daniel A. Handwerker
Nell Hardcastle
Peer Herholz
Dora Hermes
Christopher J. Honey
Robert B. Innis
Horea-Ioan Ioanas
Andrew Jahn
Agah Karakuzu
David B. Keator
Gregory Kiar
Balint Kincses
Angela R. Laird
Jonathan C. Lau
Alberto Lazari
Jon Haitz Legarreta
Adam Li
Xiangrui Li
Bradley C. Love
Hanzhang Lu
Camille Maumet
Giacomo Mazzamuto
Steven L. Meisler
Mark Mikkelsen
Henk Mutsaerts
Thomas E. Nichols
Aki Nikolaidis
Gustav Nilsonne
Guiomar Niso
Martin Norgaard
Thomas W Okell
Robert Oostenveld
Eduard Ort
Patrick J. Park
Mateusz Pawlik
Cyril R. Pernet
Franco Pestilli
Jan Petr
Christophe Phillips
Jean-Baptiste Poline
Luca Pollonini
Pradeep Reddy Raamana
Petra Ritter
Gaia Rizzo
Kay A. Robbins
Alexander P. Rockhill
Christine Rogers
Ariel Rokem
Chris Rorden
Alexandre Routier
Jose Manuel Saborit-Torres
Taylor Salo
Michael Schirner
Robert E. Smith
Tamas Spisak
Julia Sprenger
Nicole C. Swann
Martin Szinte
Sylvain Takerkart
Bertrand Thirion
Adam G. Thomas
Sajjad Torabian
Gael Varoquaux
Bradley Voytek
Julius Welzel
Martin Wilson
Tal Yarkoni
Krzysztof J. Gorgolewski
The Brain Imaging Data Structure (BIDS) is a community-driven standard for the organization of data and metadata from a growing range of neu… (see more)roscience modalities. This paper is meant as a history of how the standard has developed and grown over time. We outline the principles behind the project, the mechanisms by which it has been extended, and some of the challenges being addressed as it evolves. We also discuss the lessons learned through the project, with the aim of enabling researchers in other domains to learn from the success of BIDS.
2023-09-10
ArXiv (preprint)
doi.org
arxiv.org
Leveraging ChatGPT to Democratize and Decolonize Global Surgery: Large Language Models for Small Healthcare Budgets
Fabio Botelho
Jean Marie Tshimula
Dan Poenaru
2023-09-09
World Journal of Surgery (published)
doi.org
Local field potentials in human motor and non-motor brain areas encode the direction of upcoming movements: An intracerebral EEG classification study
Etienne Combrisson
Franck Di Rienzo
Anne-Lise Saive
Marcela Perrone-Bertolotti
Juan LP Soto
Philippe Kahane
Jean-Philippe Lachaux
Aymeric Guillot
Karim Jerbi CoCo Lab
2023-09-09
bioRxiv (preprint)
doi.org
Neural Causal Structure Discovery from Interventions
Nan Rosemary Ke
Olexa Bilaniuk
Anirudh Goyal
Stefan Bauer
Hugo Larochelle
Bernhard Schölkopf
Michael Curtis Mozer
Christopher Pal
Yoshua Bengio
Recent promising results have generated a surge of interest in continuous optimization methods for causal discovery from observational data.… (see more) However, there are theoretical limitations on the identifiability of underlying structures obtained solely from observational data. Interventional data, on the other hand, provides richer information about the underlying data-generating process. Nevertheless, extending and applying methods designed for observational data to include interventions is a challenging problem. To address this issue, we propose a general framework based on neural networks to develop models that incorporate both observational and interventional data. Notably, our method can handle the challenging and realistic scenario where the identity of the intervened upon variable is unknown. We evaluate our proposed approach in the context of graph recovery, both de novo and from a partially-known edge set. Our method achieves strong benchmark results on various structure learning tasks, including structure recovery of synthetic graphs as well as standard graphs from the Bayesian Network Repository.
2023-09-09
TMLR (accepted)
openreview.net
openreview.net
Let Coarse-Grained Resources Be Shared: Mapping Entire Neural Networks on FPGAs
Tzung-Han Juang
Christof Schlaak
Christophe Dubach
2023-09-08
ACM Transactions on Embedded Computing Systems (published)
doi.org
Leveraging World Model Disentanglement in Value-Based Multi-Agent Reinforcement Learning
Zhizun Wang
David Meger
In this paper, we propose a novel model-based multi-agent reinforcement learning approach named Value Decomposition Framework with Disentang… (see more)led World Model to address the challenge of achieving a common goal of multiple agents interacting in the same environment with reduced sample complexity. Due to scalability and non-stationarity problems posed by multi-agent systems, model-free methods rely on a considerable number of samples for training. In contrast, we use a modularized world model, composed of action-conditioned, action-free, and static branches, to unravel the environment dynamics and produce imagined outcomes based on past experience, without sampling directly from the real environment. We employ variational auto-encoders and variational graph auto-encoders to learn the latent representations for the world model, which is merged with a value-based framework to predict the joint action-value function and optimize the overall training objective. We present experimental results in Easy, Hard, and Super-Hard StarCraft II micro-management challenges to demonstrate that our method achieves high sample efficiency and exhibits superior performance in defeating the enemy armies compared to other baselines.
2023-09-07
ArXiv (preprint)
doi.org
arxiv.org