Cited by 827Advanced Neuroimaging Techniques and ApplicationsAdvanced MRI Techniques and ApplicationsFunctional Brain Connectivity Studies

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Twenty‐five pitfalls in the analysis of diffusion MRI data

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Jones, Derek K., Cercignani, Mara·2010·NMR in Biomedicine

DOI 10.1002/nbm.1543

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Abstract

Obtaining reliable data and drawing meaningful and robust inferences from diffusion MRI can be challenging and is subject to many pitfalls. The process of quantifying diffusion indices and eventually comparing them between groups of subjects and/or correlating them with other parameters starts at the acquisition of the raw data, followed by a long pipeline of image processing steps. Each one of these steps is susceptible to sources of bias, which may not only limit the accuracy and precision, but can lead to substantial errors. This article provides a detailed review of the steps along the analysis pipeline and their associated pitfalls. These are grouped into pre‐processing of data; estimation of the tensor; derivation of voxelwise quantitative parameters; strategies for extracting quantitative parameters; and finally intra‐subject and inter‐subject comparison, including region of interest, histogram, tract‐specific and voxel‐based analyses. The article covers important aspects of diffusion MRI analysis, such as motion correction, susceptibility and eddy current distortion correction, model fitting, region of interest placement, histogram and voxel‐based analysis. We have assembled 25 pitfalls (several previously unreported) into a single article, which should serve as a useful reference for those embarking on new diffusion MRI‐based studies, and as a check for those who may already be running studies but may have overlooked some important confounds. While some of these problems are well known to diffusion experts, they might not be to other researchers wishing to undertake a clinical study based on diffusion MRI. Copyright © 2010 John Wiley & Sons, Ltd.

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Authors: Jones, D. K., & Cercignani, M.
Affiliations: Cardiff University (GB)
Fondazione Santa Lucia (IT)
Corresponding author: Jones, Derek K.
ORCID: Jones, Derek K.
Cercignani, Mara
Venue: NMR in Biomedicine
Publisher: Wiley
Published: 2010-08
Volume: 23
Issue: 7
Pages: 803-820
ISSN: 0952-3480 (ISSN-L)
1099-1492
DOI: 10.1002/nbm.1543
OpenAlex: W2015391962
Cited by: 827
References: 71
Citations by year: 2026: 36 · 2025: 27 · 2024: 36 · 2023: 40 · 2022: 51 · 2021: 51 · 2020: 52 · 2019: 56 · 2018: 51 · 2017: 72 · 2016: 63 · 2015: 79 · 2014: 68 · 2013: 60 · 2012: 51
FWCI: 6.57
Type: journal article
Language: en
Open access: green
figshare.com
Licence: cc-by
onlinelibrary.wiley.com/termsAndConditions#vor (vor, 59 d)
Locations: NMR in Biomedicine (publishedVersion)
PubMed (publishedVersion)
Figshare (submittedVersion, cc-by)
Topics: Health Sciences › Medicine › Radiology, Nuclear Medicine and Imaging › Advanced Neuroimaging Techniques and Applications
Health Sciences › Medicine › Radiology, Nuclear Medicine and Imaging › Advanced MRI Techniques and Applications
Life Sciences › Neuroscience › Cognitive Neuroscience › Functional Brain Connectivity Studies
Keywords: diffusion MRI, eddy current correction, susceptibility distortion correction, motion correction, diffusion tensor estimation, model fitting, region of interest placement, voxel-based analysis, histogram analysis, diffusion indices
MeSH terms: Algorithms, Brain, Cerebrospinal Fluid, Humans, Image Enhancement, Image Processing, Computer-Assisted, Artifacts, Diffusion Magnetic Resonance Imaging

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Twenty‐five pitfalls in the analysis of diffusion MRI data

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