The Open-Access European Prevention of Alzheimer’s Dementia (EPAD) MRI dataset and processing workflow
Résumé
The European Prevention of Alzheimer Dementia (EPAD) is a multi-center study that aims to characterize the preclinical and prodromal stages of Alzheimer's Disease. The EPAD imaging dataset includes core (3D T1w, 3D FLAIR) and advanced (ASL, diffusion MRI, and resting-state fMRI) MRI sequences. Here, we give an overview of the semi-automatic multimodal and multisite pipeline that we developed to curate, preprocess, quality control (QC), and compute image-derived phenotypes (IDPs) from the EPAD MRI dataset. This pipeline harmonizes DICOM data structure across sites and performs standardized MRI preprocessing steps. A semi-automated MRI QC procedure was implemented to visualize and flag MRI images next to site-specific distributions of QC features - i.e. metrics that represent image quality. The value of each of these QC features was evaluated through comparison with visual assessment and step-wise parameter selection based on logistic regression. IDPs were computed from 5 different MRI modalities and their sanity and potential clinical relevance were ascertained by assessing their relationship with biological markers of aging and dementia. The EPAD v1500.0 data release encompassed core structural scans from 1356 participants 842 fMRI, 831 dMRI, and 858 ASL scans. From 1356 3D T1w images, we identified 17 images with poor quality and 61 with moderate quality. Five QC features - Signal to Noise Ratio (SNR), Contrast to Noise Ratio (CNR), Coefficient of Joint Variation (CJV), Foreground-Background energy Ratio (FBER), and Image Quality Rate (IQR) - were selected as the most informative on image quality by comparison with visual assessment. The multimodal IDPs showed greater impairment in associations with age and dementia biomarkers, demonstrating the potential of the dataset for future clinical analyses.
Mots clés
EPAD
Image analysis pipeline
Magnetic resonance imaging
Multi-modal data integration
Quality control
ASL, Arterial spin labeling BIDS, Brain Imaging Data Structure CSF, Cerebrospinal Fluid DICOM, Digital Imaging Communication in Medicine dMRI, Diffusion MRI EPAD, European Prevention of Alzheimer's Dementia EPI, Echo-planar imaging FLAIR, Fluid-attenuated inversion recovery FSL, FMRIB Software Library GIF, Geodesic Information Flows GM, Gray Matter IDP, Image-derived phenotype LST, Lesion Segmentation Toolbox MRI, Magnetic Resonance Imaging NifTI, Neuroimaging Informatics Technology Initiative QC, Quality Control RDM, Research Data Management rs-fMRI, Resting-state functional MRI SPM, Statistical Parametric Mapping SWI, Susceptibility weighted imaging TE, Echo Time TR, Repetition Time WMH, White Matter Hyperintensities WM, White Matter Magnetic resonance imaging EPAD Image analysis pipeline Multi-modal data integration Quality control
ASL, Arterial spin labeling
BIDS, Brain Imaging Data Structure
CSF, Cerebrospinal Fluid
DICOM, Digital Imaging Communication in Medicine
dMRI, Diffusion MRI
EPAD, European Prevention of Alzheimer's Dementia
EPI, Echo-planar imaging
FLAIR, Fluid-attenuated inversion recovery
FSL, FMRIB Software Library
GIF, Geodesic Information Flows
GM, Gray Matter
IDP, Image-derived phenotype
LST, Lesion Segmentation Toolbox
MRI, Magnetic Resonance Imaging
NifTI, Neuroimaging Informatics Technology Initiative
QC, Quality Control
RDM, Research Data Management
rs-fMRI, Resting-state functional MRI
SPM, Statistical Parametric Mapping
SWI, Susceptibility weighted imaging
TE, Echo Time
TR, Repetition Time
WMH, White Matter Hyperintensities
WM, White Matter Magnetic resonance imaging EPAD Image analysis pipeline Multi-modal data integration Quality control
Domaines
Sciences du Vivant [q-bio]Origine | Fichiers éditeurs autorisés sur une archive ouverte |
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