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Web-based processing of physiological noise in fMRI: addition of the PhysIO toolbox to CBRAIN
Neuroimaging research requires sophisticated tools for analyzing complex data, but efficiently leveraging these tools can be a major challenge, especially on large datasets. CBRAIN is a web-based platform designed to simplify the use and accessibility of neuroimaging research tools for large-scale,...
Autores principales: | , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Frontiers Media S.A.
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10569687/ https://www.ncbi.nlm.nih.gov/pubmed/37841811 http://dx.doi.org/10.3389/fninf.2023.1251023 |
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author | Valevicius, Darius Beck, Natacha Kasper, Lars Boroday, Sergiy Bayer, Johanna Rioux, Pierre Caron, Bryan Adalat, Reza Evans, Alan C. Khalili-Mahani, Najmeh |
author_facet | Valevicius, Darius Beck, Natacha Kasper, Lars Boroday, Sergiy Bayer, Johanna Rioux, Pierre Caron, Bryan Adalat, Reza Evans, Alan C. Khalili-Mahani, Najmeh |
author_sort | Valevicius, Darius |
collection | PubMed |
description | Neuroimaging research requires sophisticated tools for analyzing complex data, but efficiently leveraging these tools can be a major challenge, especially on large datasets. CBRAIN is a web-based platform designed to simplify the use and accessibility of neuroimaging research tools for large-scale, collaborative studies. In this paper, we describe how CBRAIN’s unique features and infrastructure were leveraged to integrate TAPAS PhysIO, an open-source MATLAB toolbox for physiological noise modeling in fMRI data. This case study highlights three key elements of CBRAIN’s infrastructure that enable streamlined, multimodal tool integration: a user-friendly GUI, a Brain Imaging Data Structure (BIDS) data-entry schema, and convenient in-browser visualization of results. By incorporating PhysIO into CBRAIN, we achieved significant improvements in the speed, ease of use, and scalability of physiological preprocessing. Researchers now have access to a uniform and intuitive interface for analyzing data, which facilitates remote and collaborative evaluation of results. With these improvements, CBRAIN aims to become an essential open-science tool for integrative neuroimaging research, supporting FAIR principles and enabling efficient workflows for complex analysis pipelines. |
format | Online Article Text |
id | pubmed-10569687 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Frontiers Media S.A. |
record_format | MEDLINE/PubMed |
spelling | pubmed-105696872023-10-13 Web-based processing of physiological noise in fMRI: addition of the PhysIO toolbox to CBRAIN Valevicius, Darius Beck, Natacha Kasper, Lars Boroday, Sergiy Bayer, Johanna Rioux, Pierre Caron, Bryan Adalat, Reza Evans, Alan C. Khalili-Mahani, Najmeh Front Neuroinform Neuroscience Neuroimaging research requires sophisticated tools for analyzing complex data, but efficiently leveraging these tools can be a major challenge, especially on large datasets. CBRAIN is a web-based platform designed to simplify the use and accessibility of neuroimaging research tools for large-scale, collaborative studies. In this paper, we describe how CBRAIN’s unique features and infrastructure were leveraged to integrate TAPAS PhysIO, an open-source MATLAB toolbox for physiological noise modeling in fMRI data. This case study highlights three key elements of CBRAIN’s infrastructure that enable streamlined, multimodal tool integration: a user-friendly GUI, a Brain Imaging Data Structure (BIDS) data-entry schema, and convenient in-browser visualization of results. By incorporating PhysIO into CBRAIN, we achieved significant improvements in the speed, ease of use, and scalability of physiological preprocessing. Researchers now have access to a uniform and intuitive interface for analyzing data, which facilitates remote and collaborative evaluation of results. With these improvements, CBRAIN aims to become an essential open-science tool for integrative neuroimaging research, supporting FAIR principles and enabling efficient workflows for complex analysis pipelines. Frontiers Media S.A. 2023-09-27 /pmc/articles/PMC10569687/ /pubmed/37841811 http://dx.doi.org/10.3389/fninf.2023.1251023 Text en Copyright © 2023 Valevicius, Beck, Kasper, Boroday, Bayer, Rioux, Caron, Adalat, Evans and Khalili-Mahani. https://creativecommons.org/licenses/by/4.0/This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
spellingShingle | Neuroscience Valevicius, Darius Beck, Natacha Kasper, Lars Boroday, Sergiy Bayer, Johanna Rioux, Pierre Caron, Bryan Adalat, Reza Evans, Alan C. Khalili-Mahani, Najmeh Web-based processing of physiological noise in fMRI: addition of the PhysIO toolbox to CBRAIN |
title | Web-based processing of physiological noise in fMRI: addition of the PhysIO toolbox to CBRAIN |
title_full | Web-based processing of physiological noise in fMRI: addition of the PhysIO toolbox to CBRAIN |
title_fullStr | Web-based processing of physiological noise in fMRI: addition of the PhysIO toolbox to CBRAIN |
title_full_unstemmed | Web-based processing of physiological noise in fMRI: addition of the PhysIO toolbox to CBRAIN |
title_short | Web-based processing of physiological noise in fMRI: addition of the PhysIO toolbox to CBRAIN |
title_sort | web-based processing of physiological noise in fmri: addition of the physio toolbox to cbrain |
topic | Neuroscience |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10569687/ https://www.ncbi.nlm.nih.gov/pubmed/37841811 http://dx.doi.org/10.3389/fninf.2023.1251023 |
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