Publications

Longitudinal changes in brain asymmetry track lifestyle and disease
Karin Saltoun
B. T. Thomas Yeo
Lynn Paul
Jörn Diedrichsen
Danilo Bzdok
Human beings may have evolved the largest asymmetries of brain organization in the animal kingdom. Hemispheric left-vs-right specialization … (see more)is especially pronounced in species-unique capacities, including emotional processing such as facial judgments, language-based feats such as reading books, and creativity such as musical performances. We hence chart the largest longitudinal brain-imaging resource, and provide evidence that brain asymmetry changes continuously in a manner suggestive of neural plasticity throughout adulthood. In the UK Biobank population cohort, we demonstrate that whole-brain patterns of asymmetry changes show robust phenome-wide associations across 959 distinct variables spanning 11 categories. We also find that changes in brain asymmetry over years co-occur with changes among specific lifestyle markers. We uncover specific brain asymmetry changes which systematically co-occur with entering a new phase of life, namely retirement. Finally, we reveal relevance of evolving brain asymmetry within subjects to major disease categories across ~4500 total medical diagnoses. Our findings speak against the idea that asymmetrical neural systems are conserved throughout adulthood.
2025-06-30
Nature Communications (published)
doi.org
Model approximation in MDPs with unbounded per-step cost
Berk Bozkurt
Aditya Mahajan
Ashutosh Nayyar
Yi Ouyang
We consider the problem of designing a control policy for an infinite-horizon discounted cost Markov decision process …
2025-06-30
IEEE Transactions on Automatic Control (published)
doi.org
arxiv.org
A Modular Approach for Clinical SLMs Driven by Synthetic Data with Pre-Instruction Tuning, Model Merging, and Clinical-Tasks Alignment
Jean-Philippe Corbeil
Amin Dada
Jean-Michel Attendu
Asma Ben Abacha
Alessandro Sordoni
Lucas Caccia
Franccois Beaulieu
Thomas Lin
Jens Kleesiek
Paul Vozila
High computation costs and latency of large language models such as GPT-4 have limited their deployment in clinical settings. Small language… (see more) models (SLMs) offer a cost-effective alternative, but their limited capacity requires biomedical domain adaptation, which remains challenging. An additional bottleneck is the unavailability and high sensitivity of clinical data. To address these challenges, we propose a novel framework for adapting SLMs into high-performing clinical models. We introduce the MediPhi collection of 3.8B-parameter SLMs developed with our novel framework: pre-instruction tuning of experts on relevant medical and clinical corpora (PMC, Medical Guideline, MedWiki, etc.), model merging, and clinical-tasks alignment. To cover most clinical tasks, we extended the CLUE benchmark to CLUE+, doubling its size. Our expert models deliver relative improvements on this benchmark over the base model without any task-specific fine-tuning: 64.3% on medical entities, 49.5% on radiology reports, and 44% on ICD-10 coding (outperforming GPT-4-0125 by 14%). We unify the expert models into MediPhi via model merging, preserving gains across benchmarks. Furthermore, we built the MediFlow collection, a synthetic dataset of 2.5 million high-quality instructions on 14 medical NLP tasks, 98 fine-grained document types, and JSON format support. Alignment of MediPhi using supervised fine-tuning and direct preference optimization achieves further gains of 18.9% on average.
2025-06-30
Proceedings of the 63rd Annual Meeting of the Association for Computational Linguistics (Volume 1: Long Papers) (published)
doi.org
arxiv.org
Modulation of leg trajectory by transcranial magnetic stimulation during walking
Héloïse Bourgeois
Rose Guay-Hottin
El-Mehdi Meftah
Marina Martinez
Marco Bonizzato
Dorothy Barthélemy
The primary motor cortex is involved in initiation and adaptive control of locomotion. However, the role of the motor cortex in controlling … (see more)gait trajectories remains unclear. In animals, cortical neuromodulation allows for precise control of step height. We hypothesized that a similar control framework applies to humans, whereby cortical stimulation would primarily increase foot elevation. Transcranial magnetic stimulation (TMS) was applied over the motor cortex to assess the involvement of the corticospinal tract over the limb trajectory during human walking. Ten healthy adults (aged 20–32 years) participated in treadmill walking at 1.5 km/h. TMS was applied over the left motor cortex at an intensity of 120% of the threshold to elicit a dorsiflexion of the right ankle during the swing phase of gait. Electromyographic (EMG) measurements and three-dimensional (3D) lower limb kinematics were collected. When delivered during the early swing phase, TMS led to a significant increase in the maximum height of the right toe by a mean of 34.9% ± 9.6% (21.4 mm ± 7.9 mm, p = 0.032) and knee height by 52.8% ± 14.1% (28.8 mm ± 7.7 mm, p = 0.0021) across participants. These findings indicate that TMS can influence limb trajectory during walking, highlighting its potential as a tool for studying cortical control of locomotion.
2025-06-30
Scientific Reports (published)
doi.org
MSR37 Improve Analyst Accuracy in Systematic Literature Reviews Using Reliant Tabular and LLM-Based Relevance Scoring
Christoph R. Schlegel
Sam Work
Bellemare Marc-Emmanuel
2025-06-30
Value in Health (published)
doi.org
Multi-Armed Sampling Problem and the End of Exploration
Mohammad Pedramfar
Siamak Ravanbakhsh
This paper introduces the framework of multi-armed sampling, as the sampling counterpart to the optimization problem of multi-arm bandits. O… (see more)ur primary motivation is to rigorously examine the exploration-exploitation trade-off in the context of sampling. We systematically define plausible notions of regret for this framework and establish corresponding lower bounds. We then propose a simple algorithm that achieves these optimal regret bounds. Our theoretical results demonstrate that in contrast to optimization, sampling does not require exploration. To further connect our findings with those of multi-armed bandits, we define a continuous family of problems and associated regret measures that smoothly interpolates and unifies multi-armed sampling and multi-armed bandit problems using a temperature parameter. We believe the multi-armed sampling framework, and our findings in this setting can have a foundational role in the study of sampling including recent neural samplers, akin to the role of multi-armed bandits in reinforcement learning. In particular, our work sheds light on the need for exploration and the convergence properties of algorithm for entropy-regularized reinforcement learning, fine-tuning of pretrained models and reinforcement learning with human feedback (RLHF).
2025-06-30
arXiv (published)
doi.org
arxiv.org
Multiscale Neural PDE Surrogates for Prediction and Downscaling: Application to Ocean Currents
Abdessamad El-Kabid
Loubna Benabbou
Redouane Lguensat
Alex Hernandez-Garcia
Accurate modeling of physical systems governed by partial differential equations is a central challenge in scientific computing. In oceanogr… (see more)aphy, high-resolution current data are critical for coastal management, environmental monitoring, and maritime safety. However, available satellite products, such as Copernicus data for sea water velocity at ~0.08 degrees spatial resolution and global ocean models, often lack the spatial granularity required for detailed local analyses. In this work, we (a) introduce a supervised deep learning framework based on neural operators for solving PDEs and providing arbitrary resolution solutions, and (b) propose downscaling models with an application to Copernicus ocean current data. Additionally, our method can model surrogate PDEs and predict solutions at arbitrary resolution, regardless of the input resolution. We evaluated our model on real-world Copernicus ocean current data and synthetic Navier-Stokes simulation datasets.
2025-06-30
arXiv (published)
doi.org
arxiv.org
Optimizers Qualitatively Alter Solutions And We Should Leverage This
Razvan Pascanu
Clare Lyle
Ionut-Vlad Modoranu
Naima Elosegui Borras
Dan Alistarh
Petar Veličković
A. Chandar
Soham De
James Martens
Due to the nonlinear nature of Deep Neural Networks (DNNs), one can not guarantee convergence to a unique global minimum of the loss when us… (see more)ing optimizers relying only on local information, such as SGD. Indeed, this was a primary source of skepticism regarding the feasibility of DNNs in the early days of the field. The past decades of progress in deep learning have revealed this skepticism to be misplaced, and a large body of empirical evidence shows that sufficiently large DNNs following standard training protocols exhibit well-behaved optimization dynamics that converge to performant solutions. This success has biased the community to use convex optimization as a mental model for learning, leading to a focus on training efficiency, either in terms of required iteration, FLOPs or wall-clock time, when improving optimizers. We argue that, while this perspective has proven extremely fruitful, another perspective specific to DNNs has received considerably less attention: the optimizer not only influences the rate of convergence, but also the qualitative properties of the learned solutions. Restated, the optimizer can and will encode inductive biases and change the effective expressivity of a given class of models. Furthermore, we believe the optimizer can be an effective way of encoding desiderata in the learning process. We contend that the community should aim at understanding the biases of already existing methods, as well as aim to build new optimizers with the explicit intent of inducing certain properties of the solution, rather than solely judging them based on their convergence rates. We hope our arguments will inspire research to improve our understanding of how the learning process can impact the type of solution we converge to, and lead to a greater recognition of optimizers design as a critical lever that complements the roles of architecture and data in shaping model outcomes.
2025-06-30
arXiv (published)
doi.org
arxiv.org
Parsing Autism Heterogeneity: Transcriptomic Subgrouping of Imaging-Derived Phenotypes in Autism.
Johanna Leyhausen
Caroline Gurr
Lisa M. Berg
Hanna Seelemeyer
Bassem Hermila
Tim Schäfer
Andreas Chiocchetti
Charlotte M. Pretzsch
Eva Loth
Beth Oakley
Jan K. Buitelaar
Christian Beckmann
Tony Charman
Thomas Bourgeron
Eli Barthome
Tobias Banaschewski
Jumana Ahmad
Sara Ambrosino
Bonnie Auyeung
Simon Baron-Cohen … (see 56 more)
Sarah Baumeister
Sven Bölte
Carsten Bours
Michael Brammer
Daniel Brandeis
Claudia Brogna
Yvette de Bruijn
Bhismadev Chakrabarti
Ineke Cornelissen
Daisy Crawley
Flavio Dell’Acqua
Guillaume Dumas
Sarah Durston
Christine Ecker
Jessica Faulkner
Vincent Frouin
Pilar Garcés
David Goyard
Lindsay Ham
Hannah Hayward
Joerg F. Hipp
Rosemary Holt
Mark Johnson
Emily J. H. Jones
Prantik Kundu
Meng-Chuan Lai
Xavier Liogier D’ardhuy
Michael V. Lombardo
David J. Lythgoe
René Mandl
Andre Marquand
Luke Mason
Maarten Mennes
Andreas Meyer-Lindenberg
Carolin Moessnang
Nico Bast
Larry O’Dwyer
Marianne Oldehinkel
Bob Oranje
Gahan Pandina
Antonio Persico
Barbara Ruggeri
Amber N. V. Ruigrok
Jessica Sabet
Roberto Sacco
Antonia San José Cáceres
Emily Simonoff
Will Spooren
Julian Tillmann
Roberto Toro
Heike Tost
Jack Waldman
Steve C. R. Williams
Caroline Wooldridge
Marcel P. Zwiers
Declan Murphy
2025-06-30
Biological Psychiatry: Cognitive Neuroscience and Neuroimaging (published)
doi.org
Pixel Perfect MegaMed: A Megapixel-Scale Vision-Language Foundation Model for Generating High Resolution Medical Images
Zahra Tehrani Nasab
Hujun Ni
Amar Kumar
Tal Arbel
2025-06-30
arXiv (published)
doi.org
arxiv.org
Public perceptions of Montréal's streets: Implications for inclusive public space making and management
Rashid Mushkani
Hugo Berard
Toumadher Ammar
Shin Koseki
2025-06-30
Journal of Urban Management (published)
doi.org
RainShift: A Benchmark for Precipitation Downscaling Across Geographies
Paula Harder
Luca Schmidt
Francis Pelletier
Nicole Ludwig
Matthew Chantry
Christian Lessig
Alex Hernandez-Garcia
David Rolnick
Earth System Models (ESM) are our main tool for projecting the impacts of climate change. However, running these models at sufficient resolu… (see more)tion for local-scale risk-assessments is not computationally feasible. Deep learning-based super-resolution models offer a promising solution to downscale ESM outputs to higher resolutions by learning from data. Yet, due to regional variations in climatic processes, these models typically require retraining for each geographical area-demanding high-resolution observational data, which is unevenly available across the globe. This highlights the need to assess how well these models generalize across geographic regions. To address this, we introduce RainShift, a dataset and benchmark for evaluating downscaling under geographic distribution shifts. We evaluate state-of-the-art downscaling approaches including GANs and diffusion models in generalizing across data gaps between the Global North and Global South. Our findings reveal substantial performance drops in out-of-distribution regions, depending on model and geographic area. While expanding the training domain generally improves generalization, it is insufficient to overcome shifts between geographically distinct regions. We show that addressing these shifts through, for example, data alignment can improve spatial generalization. Our work advances the global applicability of downscaling methods and represents a step toward reducing inequities in access to high-resolution climate information.
2025-06-30
arXiv (published)
doi.org
arxiv.org