Open Source in Lab Management
This document explores the advantages of integrating open source software and practices in managing a scientific lab, emphasizing reproducib… (voir plus)ility and the avoidance of pitfalls. It details practical applications from website management using GitHub Pages to organizing datasets in compliance with BIDS standards, highlights the importance of continuous testing for data integrity, IT management through Ansible for efficient system configuration, open source software development. The broader goal is to promote transparent, reproducible science by adopting open source tools. This approach not only saves time but exposes students to best practices, enhancing the transparency and reproducibility of scientific research.
Designing and Evaluating Dialogue LLMs for Co-Creative Improvised Theatre
Boyd Branch
Piotr Mirowski
Sophia Ppali
Alexandra Covaci
Social robotics researchers are increasingly interested in multi-party trained conversational agents. With a growing demand for real-world e… (voir plus)valuations, our study presents Large Language Models (LLMs) deployed in a month-long live show at the Edinburgh Festival Fringe. This case study investigates human improvisers co-creating with conversational agents in a professional theatre setting. We explore the technical capabilities and constraints of on-the-spot multi-party dialogue, providing comprehensive insights from both audience and performer experiences with AI on stage. Our human-in-the-loop methodology underlines the challenges of these LLMs in generating context-relevant responses, stressing the user interface's crucial role. Audience feedback indicates an evolving interest for AI-driven live entertainment, direct human-AI interaction, and a diverse range of expectations about AI's conversational competence and utility as a creativity support tool. Human performers express immense enthusiasm, varied satisfaction, and the evolving public opinion highlights mixed emotions about AI's role in arts.
DirectGPT: A Direct Manipulation Interface to Interact with Large Language Models
Sylvain Malacria
Géry Casiez
Daniel Vogel
Calibration-free parallel transmission of the cervical, thoracic, and lumbar spinal cord at 7T.
Christoph S. Aigner
Manuel F. Sánchez Alarcon
Alexandre D'Astous
Eva Alonso‐Ortiz
Sebastian Schmitter
PURPOSE To address the limitations of spinal cord imaging at ultra-high field (UHF) due to time-consuming parallel transmit (pTx) adjustment… (voir plus)s. This study introduces calibration-free offline computed universal shim modes that can be applied seamlessly for different pTx RF coils and spinal cord target regions, substantially enhancing spinal cord imaging efficiency at UHF. METHODS A library of channel-wise relative B 1 +
Calibration-free parallel transmission of the cervical, thoracic, and lumbar spinal cord at 7T.
Christoph S. Aigner
Manuel F. Sánchez Alarcon
Alexandre D'Astous
Eva Alonso‐Ortiz
Sebastian Schmitter
PURPOSE To address the limitations of spinal cord imaging at ultra-high field (UHF) due to time-consuming parallel transmit (pTx) adjustment… (voir plus)s. This study introduces calibration-free offline computed universal shim modes that can be applied seamlessly for different pTx RF coils and spinal cord target regions, substantially enhancing spinal cord imaging efficiency at UHF. METHODS A library of channel-wise relative B 1 +
The Canadian VirusSeq Data Portal & Duotang: open resources for SARS-CoV-2 viral sequences and genomic epidemiology
Erin E. Gill
Baofeng Jia
Carmen Lia Murall
Raphael Poujol
Muhammad Zohaib Anwar
Nithu Sara John
Justin Richardsson
Ashley Hobb
Abayomi S. Olabode
Alexandru Lepsa
Ana T. Duggan
Andrea D. Tyler
Arnaud N’Guessan
Atul Kachru
Brandon Chan
Catherine Yoshida
Christina K. Yung
David Bujold
Dusan Andric
Edmund Su … (voir 50 de plus)
Emma J. Griffiths
Gary Van Domselaar
Gordon W. Jolly
Heather K.E. Ward
Henrich Feher
Jared Baker
Jared T. Simpson
Jaser Uddin
Jiannis Ragoussis
Jon Eubank
Jörg H. Fritz
José Héctor Gálvez
Karen Fang
Kim Cullion
Leonardo Rivera
Linda Xiang
Matthew A. Croxen
Mitchell Shiell
Natalie Prystajecky
Pierre-Olivier Quirion
Rosita Bajari
Samantha Rich
Samira Mubareka
Sandrine Moreira
Scott Cain
Steven G. Sutcliffe
Susanne A. Kraemer
Yann Joly
Yelizar Alturmessov
CPHLN consortium
CanCOGeN consortium
VirusSeq Data Portal Academic
Health Network
Marc Fiume
Terrance P. Snutch
Cindy Bell
Catalina Lopez-Correa
Jeffrey B. Joy
Caroline Colijin
Paul M.K. Gordon
William W.L. Hsiao
Art F.Y. Poon
Natalie C. Knox
Mélanie Courtot
Lincoln Stein
Sarah P. Otto
Guillaume Bourque
B. Jesse Shapiro
Fiona S.L. Brinkman
Quantifying neurodegeneration of the cervical cord and brain in degenerative cervical myelopathy: A multicentre study using quantitative magnetic resonance imaging
Patrick Freund
Viveka Boller
Tim M. Emmenegger
Muhammad Akbar
Markus Hupp
Nikolai Pfender
Claudia A. M. Gandini Wheeler-Kingshott
Michael G. Fehlings
Armin Curt
Maryam Seif
Simultaneous assessment of neurodegeneration in both the cervical cord and brain across multiple centres can enhance the effectiveness of cl… (voir plus)inical trials. Thus, this study aims to simultaneously assess microstructural changes in the cervical cord and brain above the stenosis in degenerative cervical myelopathy (DCM) using quantitative magnetic resonance imaging (MRI) in a multicentre study.
Quantifying neurodegeneration of the cervical cord and brain in degenerative cervical myelopathy: A multicentre study using quantitative magnetic resonance imaging
Patrick Freund
Viveka Boller
Tim M. Emmenegger
Muhammad Akbar
Markus Hupp
Nikolai Pfender
Claudia A. M. Gandini Wheeler-Kingshott
Michael G. Fehlings
Armin Curt
Maryam Seif
Simultaneous assessment of neurodegeneration in both the cervical cord and brain across multiple centres can enhance the effectiveness of cl… (voir plus)inical trials. Thus, this study aims to simultaneously assess microstructural changes in the cervical cord and brain above the stenosis in degenerative cervical myelopathy (DCM) using quantitative magnetic resonance imaging (MRI) in a multicentre study.
Machine learning data practices through a data curation lens: An evaluation framework
Eshta Bhardwaj
Harshit Gujral
Siyi Wu
Ciara Zogheib
Christoph Becker
Studies of dataset development in machine learning call for greater attention to the data practices that make model development possible and… (voir plus) shape its outcomes. Many argue that the adoption of theory and practices from archives and data curation fields can support greater fairness, accountability, transparency, and more ethical machine learning. In response, this paper examines data practices in machine learning dataset development through the lens of data curation. We evaluate data practices in machine learning as data curation practices. To do so, we develop a framework for evaluating machine learning datasets using data curation concepts and principles through a rubric. Through a mixed-methods analysis of evaluation results for 25 ML datasets, we study the feasibility of data curation principles to be adopted for machine learning data work in practice and explore how data curation is currently performed. We find that researchers in machine learning, which often emphasizes model development, struggle to apply standard data curation principles. Our findings illustrate difficulties at the intersection of these fields, such as evaluating dimensions that have shared terms in both fields but non-shared meanings, a high degree of interpretative flexibility in adapting concepts without prescriptive restrictions, obstacles in limiting the depth of data curation expertise needed to apply the rubric, and challenges in scoping the extent of documentation dataset creators are responsible for. We propose ways to address these challenges and develop an overall framework for evaluation that outlines how data curation concepts and methods can inform machine learning data practices.
A Comprehensive Dataset of Four Provincial Legislative Assembly Members
Alex B. Rivard
Marc André Bodet
Éric Montigny
This research note reports on a new dataset about legislators in four Canadian provinces since the establishment of their colonial assemblie… (voir plus)s in the eighteenth century. Over 7,000 legislators from Ontario, Quebec, New Brunswick, and Nova Scotia are included, with consolidated information drawn from multiple sources about parliamentarians’ years of birth and death, religion, electoral performance, kinship, and several other biographical indicators. We also illustrate the utility of such data with the help of a few descriptive examples drawn from the four provinces. We believe this consolidated dataset offers several opportunities for future research on representation, legislative activities and party politics.
Body size interacts with the structure of the central nervous system: A multi-center in vivo neuroimaging study
René Labounek
Monica T. Bondy
Amy L. Paulson
Sandrine Bédard
Mihael Abramovic
Eva Alonso‐Ortiz
Nicole Atcheson
Laura R. Barlow
Robert L. Barry
Markus Barth
Marco Battiston
Christian Büchel
Matthew D. Budde
Virginie Callot
Anna Combes
Benjamin De Leener
Maxime Descoteaux
Paulo Loureiro de Sousa
Marek Dostál
Julien Doyon … (voir 73 de plus)
Adam Dvorak
Falk Eippert
Karla R. Epperson
Kevin S. Epperson
Patrick Freund
Jürgen Finsterbusch
Alexandru Foias
Michela Fratini
Issei Fukunaga
Claudia A. M. Gandini Wheeler-Kingshott
Giancarlo Germani
Guillaume Gilbert
Federico Giove
Francesco Grussu
Akifumi Hagiwara
Pierre-Gilles Henry
Tomáš Horák
Masaaki Hori
James M. Joers
Kouhei Kamiya
Haleh Karbasforoushan
Miloš Keřkovský
Ali Khatibi
Joo‐Won Kim
Nawal Kinany
Hagen H. Kitzler
Shannon Kolind
Yazhuo Kong
Petr Kudlička
Paul Kuntke
Nyoman D. Kurniawan
Slawomir Kusmia
Maria Marcella Lagana
Cornelia Laule
Csw Law
Tobias Leutritz
Yaou Liu
Sara Llufriu
Sean Mackey
Allan R. Martin
Eloy Martinez-Heras
Loan Mattera
Kristin P. O’Grady
Nico Papinutto
Daniel Papp
Deborah Pareto
Todd B. Parrish
Anna Pichiecchio
Ferran Prados
Àlex Rovira
Marc J. Ruitenberg
Rebecca S. Samson
Giovanni Savini
Maryam Seif
Alan C. Seifert
Alex K. Smith
Seth A. Smith
Zachary A. Smith
Elisabeth Solana
Yuichi Suzuki
George Tackley
Alexandra Tinnermann
Dimitri Van De Ville
Marios C. Yiannakas
Kenneth A. Weber
Nikolaus Weiskopf
Richard G. Wise
Patrik O. Wyss
Junqian Xu
Christophe Lenglet
Igor Nestrašil
Clinical research emphasizes the implementation of rigorous and reproducible study designs that rely on between-group matching or controllin… (voir plus)g for sources of biological variation such as subject’s sex and age. However, corrections for body size (i.e. height and weight) are mostly lacking in clinical neuroimaging designs. This study investigates the importance of body size parameters in their relationship with spinal cord (SC) and brain magnetic resonance imaging (MRI) metrics. Data were derived from a cosmopolitan population of 267 healthy human adults (age 30.1±6.6 years old, 125 females). We show that body height correlated strongly or moderately with brain gray matter (GM) volume, cortical GM volume, total cerebellar volume, brainstem volume, and cross-sectional area (CSA) of cervical SC white matter (CSA-WM; 0.44≤r≤0.62). In comparison, age correlated weakly with cortical GM volume, precentral GM volume, and cortical thickness (-0.21≥r≥-0.27). Body weight correlated weakly with magnetization transfer ratio in the SC WM, dorsal columns, and lateral corticospinal tracts (-0.20≥r≥-0.23). Body weight further correlated weakly with the mean diffusivity derived from diffusion tensor imaging (DTI) in SC WM (r=-0.20) and dorsal columns (-0.21), but only in males. CSA-WM correlated strongly or moderately with brain volumes (0.39≤r≤0.64), and weakly with precentral gyrus thickness and DTI-based fractional anisotropy in SC dorsal columns and SC lateral corticospinal tracts (-0.22≥r≥-0.25). Linear mixture of sex and age explained 26±10% of data variance in brain volumetry and SC CSA. The amount of explained variance increased at 33±11% when body height was added into the mixture model. Age itself explained only 2±2% of such variance. In conclusion, body size is a significant biological variable. Along with sex and age, body size should therefore be included as a mandatory variable in the design of clinical neuroimaging studies examining SC and brain structure.
Dynamic System Modeling Using a Multisource Transfer Learning-Based Modular Neural Network for Industrial Application
Haoshan Duan
Xi Meng
JunFei Qiao
Establishing an accurate model of dynamic systems poses a challenge for complex industrial processes. Due to the ability to handle complex t… (voir plus)asks, modular neural networks (MNN) have been widely applied to industrial process modeling. However, the phenomenon of domain drift caused by operating conditions may lead to a cold start of the model, which affects the performance of MNN. For this reason, a multisource transfer learning-based MNN (MSTL-MNN) is proposed in this study. First, the knowledge-driven transfer learning process is performed with domain similarity evaluation, knowledge extraction, and fusion, aiming to form an initial subnetwork in the target domain. Then, the positive transfer process of effective knowledge can avoid the cold start problem of MNN. Second, during the data-driven fine-tuning process, a regularized self-organizing long short-term memory algorithm is designed to fine-tune the structure and parameters of the initial subnetwork, which can improve the prediction performance of MNN. Meanwhile, relevant theoretical analysis is given to ensure the feasibility of MSTL-MNN. Finally, the effectiveness of the proposed method is confirmed by two benchmark simulations and a real industrial dataset of a municipal solid waste incineration process. Experimental results demonstrate the merits of MSTL-MNN for industrial applications.