Naming Autism in the Right Context.
Andres Roman-Urrestarazu
Varun Warrier
Tracking and predicting COVID-19 radiological trajectory on chest X-rays using deep learning
Daniel Gourdeau
Olivier Potvin
Patrick Archambault
Carl Chartrand‐lefebvre
Louis Dieumegarde
Reza Forghani
Alexandre Hains
David Hornstein
Huy Khiem Le
Simon Lemieux
Marie‐hélène Lévesque
Diego R. Martin
Lorne Rosenbloom
An Tang
Fabrizio Vecchio
Issac Y Yang
N. Duchesne
Simon Duchesne
Tracking and predicting COVID-19 radiological trajectory on chest X-rays using deep learning
Daniel Gourdeau
Olivier Potvin
Patrick Archambault
Carl Chartrand-Lefebvre
Louis Dieumegarde
Reza Forghani
Alexandre Hains
David Hornstein
Huy Le
Simon Lemieux
Marie-Hélène Lévesque
Diego Martin
Lorne Rosenbloom
An Tang
Fabrizio Vecchio
Issac Yang
Nathalie Duchesne
Simon Duchesne
Radiological findings on chest X-ray (CXR) have shown to be essential for the proper management of COVID-19 patients as the maximum severity… (see more) over the course of the disease is closely linked to the outcome. As such, evaluation of future severity from current CXR would be highly desirable. We trained a repurposed deep learning algorithm on the CheXnet open dataset (224,316 chest X-ray images of 65,240 unique patients) to extract features that mapped to radiological labels. We collected CXRs of COVID-19-positive patients from an open-source dataset (COVID-19 image data collection) and from a multi-institutional local ICU dataset. The data was grouped into pairs of sequential CXRs and were categorized into three categories: ‘Worse’, ‘Stable’, or ‘Improved’ on the basis of radiological evolution ascertained from images and reports. Classical machine-learning algorithms were trained on the deep learning extracted features to perform immediate severity evaluation and prediction of future radiological trajectory. Receiver operating characteristic analyses and Mann-Whitney tests were performed. Deep learning predictions between “Worse” and “Improved” outcome categories and for severity stratification were significantly different for three radiological signs and one diagnostic (‘Consolidation’, ‘Lung Lesion’, ‘Pleural effusion’ and ‘Pneumonia’; all P 0.05). Features from the first CXR of each pair could correctly predict the outcome category between ‘Worse’ and ‘Improved’ cases with a 0.81 (0.74–0.83 95% CI) AUC in the open-access dataset and with a 0.66 (0.67–0.64 95% CI) AUC in the ICU dataset. Features extracted from the CXR could predict disease severity with a 52.3% accuracy in a 4-way classification. Severity evaluation trained on the COVID-19 image data collection had good out-of-distribution generalization when testing on the local dataset, with 81.6% of intubated ICU patients being classified as critically ill, and the predicted severity was correlated with the clinical outcome with a 0.639 AUC. CXR deep learning features show promise for classifying disease severity and trajectory. Once validated in studies incorporating clinical data and with larger sample sizes, this information may be considered to inform triage decisions.
Tracking and predicting COVID-19 radiological trajectory on chest X-rays using deep learning
Daniel Gourdeau
Olivier Potvin
Patrick Archambault
Carl Chartrand-Lefebvre
Louis Dieumegarde
Reza Forghani
Alexandre Hains
David Hornstein
Huy Le
Simon Lemieux
Marie-Hélène Lévesque
Diego Martin
Lorne Rosenbloom
An Tang
Fabrizio Vecchio
Issac Yang
Nathalie Duchesne
Simon Duchesne
TRACKING AND PREDICTING COVID-19 RADIOLOGICAL TRAJECTORY USING DEEP LEARNING ON CHEST X-RAYS: INITIAL ACCURACY TESTING
Simon Duchesne
Olivier Potvin
Daniel Gourdeau
Patrick Archambault
Carl Chartrand-Lefebvre
Louis Dieumegarde
Reza Forghani
Alexandre Hains
David Hornstein
Huy Le
Simon Lemieux
Marie-Hélène Lévesque
Diego Martin
Lorne Rosenbloom
An Tang
Fabrizio Vecchio
Issac Yang
Nathalie Duchesne
Why Exposure Bias Matters: An Imitation Learning Perspective of Error Accumulation in Language Generation
Kushal Arora
Layla El Asri
Hareesh Bahuleyan
Current language generation models suffer from issues such as repetition, incoherence, and hallucinations. An often-repeated hypothesis for … (see more)this brittleness of generation models is that it is caused by the training and the generation procedure mismatch, also referred to as exposure bias. In this paper, we verify this hypothesis by analyzing exposure bias from an imitation learning perspective. We show that exposure bias leads to an accumulation of errors during generation, analyze why perplexity fails to capture this accumulation of errors, and empirically show that this accumulation results in poor generation quality.
Matching Feature Sets for Few-Shot Image Classification
Arman Afrasiyabi
Jean‐François Lalonde
In image classification, it is common practice to train deep networks to extract a single feature vector per input image. Few-shot classific… (see more)ation methods also mostly follow this trend. In this work, we depart from this established direction and instead propose to extract sets of feature vectors for each image. We argue that a set-based representation intrinsically builds a richer representation of images from the base classes, which can subsequently better transfer to the few-shot classes. To do so, we propose to adapt existing feature extractors to instead produce sets of feature vectors from images. Our approach, dubbed SetFeat, embeds shallow self-attention mechanisms inside existing encoder architectures. The attention modules are lightweight, and as such our method results in encoders that have approximately the same number of parameters as their original versions. During training and inference, a set-to-set matching metric is used to perform image classification. The effectiveness of our proposed architecture and metrics is demonstrated via thorough experiments on standard few-shot datasets-namely miniImageNet, tieredImageNet, and CUB-in both the 1- and 5-shot scenarios. In all cases but one, our method outperforms the state-of-the-art.
GCNFusion: An efficient graph convolutional network based model for information diffusion
Bahare Fatemi
Soheila Mehr Molaei
Shirui Pan
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
M. Brisson
Beate H Sander
A. Chan
Aman Verma
Iris Ganser
Nadine Kronfli
Sharmistha Mishra
Mathieu Maheu-Giroux
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
Marc Brisson
Beate Sander
Adrienne Chan
Aman Verma
Iris Ganser
Nadine Kronfli
Sharmistha Mishra
Mathieu Maheu-Giroux
Multivariate, Transgenerational Associations of the COVID-19 Pandemic Across Minoritized and Marginalized Communities.
Sarah W. Yip
Ayana Jordan
Robert J. Kohler
Avram J. Holmes
Importance The experienced consequences of the COVID-19 pandemic have diverged across individuals, families, and communities, resulting in i… (see more)nequity within a host of factors. There is a gap of quantitative evidence about the transgenerational impacts of these experiences and factors. Objective To identify baseline predictors of COVID-19 experiences, as defined by child and parent report, using a multivariate pattern-learning framework from the Adolescent Brain and Cognitive Development (ABCD) cohort. Design, Setting, and Participants ABCD is an ongoing prospective longitudinal study of child and adolescent development in the United States including 11 875 youths, enrolled at age 9 to 10 years. Using nationally collected longitudinal profiling data from 9267 families, a multivariate pattern-learning strategy was developed to identify factor combinations associated with transgenerational costs of the ongoing COVID-19 pandemic. ABCD data (release 3.0) collected from 2016 to 2020 and released between 2019 and 2021 were analyzed in combination with ABCD COVID-19 rapid response data from the first 3 collection points (May-August 2020). Exposures Social distancing and other response measures imposed by COVID-19, including school closures and shutdown of many childhood recreational activities. Main Outcomes and Measures Mid-COVID-19 experiences as defined by the ABCD's parent and child COVID-19 assessments. Results Deep profiles from 9267 youth (5681 female [47.8%]; mean [SD] age, 119.0 [7.5] months) and their caregivers were quantitatively examined. Enabled by a pattern-learning analysis, social determinants of inequity, including family structure, socioeconomic status, and the experience of racism, were found to be primarily associated with transgenerational impacts of COVID-19, above and beyond other candidate predictors such as preexisting medical or psychiatric conditions. Pooling information across more than 17 000 baseline pre-COVID-19 family indicators and more than 280 measures of day-to-day COVID-19 experiences, non-White (ie, families who reported being Asian, Black, Hispanic, other, or a combination of those choices) and/or Spanish-speaking families were found to have decreased resources (mode 1, canonical vector weight [CVW] = 0.19; rank 5 of 281), escalated likelihoods of financial worry (mode 1, CVW = -0.20; rank 4), and food insecurity (mode 1, CVW = 0.21; rank 2), yet were more likely to have parent-child discussions regarding COVID-19-associated health and prevention issues, such as handwashing (mode 1, CVW = 0.14; rank 9), conserving food or other items (mode 1, CVW = 0.21; rank 1), protecting elderly individuals (mode 1, CVW = 0.11; rank 21), and isolating from others (mode 1, CVW = 0.11; rank 23). In contrast, White families (mode 1, CVW = -0.07; rank 3), those with higher pre-COVID-19 income (mode 1, CVW = -0.07; rank 5), and presence of a parent with a postgraduate degree (mode 1, CVW = -0.06; rank 14) experienced reduced COVID-19-associated impact. In turn, children from families experiencing reduced COVID-19 impacts reported longer nighttime sleep durations (mode 1, CVW = 0.13; rank 14), less difficulties with remote learning (mode 2, CVW = 0.14; rank 7), and decreased worry about the impact of COVID-19 on their family's financial stability (mode 1, CVW = 0.134; rank 13). Conclusions and Relevance The findings of this study indicate that community-level, transgenerational intervention strategies may be needed to combat the disproportionate burden of pandemics on minoritized and marginalized racial and ethnic populations.
Population heterogeneity in clinical cohorts affects the predictive accuracy of brain imaging
O. Benkarim
Casey Paquola
Bo-yong Park
Valeria Kebets
Seokjun Hong
Reinder Vos de Wael
Shaoshi Zhang
B.T. Thomas Yeo
Michael Eickenberg
Tian Ge
Jean-Baptiste Poline
B. Bernhardt
Brain imaging research enjoys increasing adoption of supervised machine learning for single-participant disease classification. Yet, the suc… (see more)cess of these algorithms likely depends on population diversity, including demographic differences and other factors that may be outside of primary scientific interest. Here, we capitalize on propensity scores as a composite confound index to quantify diversity due to major sources of population variation. We delineate the impact of population heterogeneity on the predictive accuracy and pattern stability in 2 separate clinical cohorts: the Autism Brain Imaging Data Exchange (ABIDE, n = 297) and the Healthy Brain Network (HBN, n = 551). Across various analysis scenarios, our results uncover the extent to which cross-validated prediction performances are interlocked with diversity. The instability of extracted brain patterns attributable to diversity is located preferentially in regions part of the default mode network. Collectively, our findings highlight the limitations of prevailing deconfounding practices in mitigating the full consequences of population diversity.