Quality control in functional MRI studies with MRIQC and fMRIPrep.

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State: Public
Version: Final published version
License: CC BY 4.0
Serval ID
serval:BIB_518CB87B911F
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
Quality control in functional MRI studies with MRIQC and fMRIPrep.
Journal
Frontiers in neuroimaging
Author(s)
Provins C., MacNicol E., Seeley S.H., Hagmann P., Esteban O.
ISSN
2813-1193 (Electronic)
ISSN-L
2813-1193
Publication state
Published
Issued date
2022
Peer-reviewed
Oui
Volume
1
Pages
1073734
Language
english
Notes
Publication types: Journal Article
Publication Status: epublish
Abstract
The implementation of adequate quality assessment (QA) and quality control (QC) protocols within the magnetic resonance imaging (MRI) research workflow is resource- and time-consuming and even more so is their execution. As a result, QA/QC practices highly vary across laboratories and "MRI schools", ranging from highly specialized knowledge spots to environments where QA/QC is considered overly onerous and costly despite evidence showing that below-standard data increase the false positive and false negative rates of the final results. Here, we demonstrate a protocol based on the visual assessment of images one-by-one with reports generated by MRIQC and fMRIPrep, for the QC of data in functional (blood-oxygen dependent-level; BOLD) MRI analyses. We particularize the proposed, open-ended scope of application to whole-brain voxel-wise analyses of BOLD to correspondingly enumerate and define the exclusion criteria applied at the QC checkpoints. We apply our protocol on a composite dataset (n = 181 subjects) drawn from open fMRI studies, resulting in the exclusion of 97% of the data (176 subjects). This high exclusion rate was expected because subjects were selected to showcase artifacts. We describe the artifacts and defects more commonly found in the dataset that justified exclusion. We moreover release all the materials we generated in this assessment and document all the QC decisions with the expectation of contributing to the standardization of these procedures and engaging in the discussion of QA/QC by the community.
Keywords
Mriqc, exclusion criteria, fMRI, fMRIPrep, neuroimaging, quality assessment, quality control, MRIQC
Pubmed
Open Access
Yes
Funding(s)
Swiss National Science Foundation / Careers / 185872
Create date
10/08/2023 14:31
Last modification date
23/01/2024 8:25
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