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PreQual: An automated pipeline for integrated preprocessing and quality assurance of diffusion weighted MRI images.

التفاصيل البيبلوغرافية
العنوان: PreQual: An automated pipeline for integrated preprocessing and quality assurance of diffusion weighted MRI images.
المؤلفون: Cai LY; Department of Biomedical Engineering, Vanderbilt University, Nashville, TN, USA., Yang Q; Department of Electrical Engineering and Computer Science, Vanderbilt University, Nashville, TN, USA., Hansen CB; Department of Electrical Engineering and Computer Science, Vanderbilt University, Nashville, TN, USA., Nath V; Department of Electrical Engineering and Computer Science, Vanderbilt University, Nashville, TN, USA., Ramadass K; Department of Electrical Engineering and Computer Science, Vanderbilt University, Nashville, TN, USA., Johnson GW; Department of Biomedical Engineering, Vanderbilt University, Nashville, TN, USA., Conrad BN; Neuroscience Graduate Program, Vanderbilt Brain Institute, Vanderbilt University Medical Center, Nashville, TN, USA.; Department of Psychology and Human Development, Peabody College, Vanderbilt University, Nashville, TN, USA., Boyd BD; Department of Psychiatry and Behavioral Sciences, Vanderbilt University Medical Center, Nashville, TN, USA.; Center for Cognitive Medicine, Vanderbilt University Medical Center, Nashville, TN, USA., Begnoche JP; Department of Psychiatry and Behavioral Sciences, Vanderbilt University Medical Center, Nashville, TN, USA.; Center for Cognitive Medicine, Vanderbilt University Medical Center, Nashville, TN, USA., Beason-Held LL; Laboratory of Behavioral Neuroscience, National Institute on Aging, National Institutes of Health, Baltimore, MD, USA., Shafer AT; Laboratory of Behavioral Neuroscience, National Institute on Aging, National Institutes of Health, Baltimore, MD, USA., Resnick SM; Laboratory of Behavioral Neuroscience, National Institute on Aging, National Institutes of Health, Baltimore, MD, USA., Taylor WD; Department of Psychiatry and Behavioral Sciences, Vanderbilt University Medical Center, Nashville, TN, USA.; Center for Cognitive Medicine, Vanderbilt University Medical Center, Nashville, TN, USA., Price GR; Department of Psychology and Human Development, Peabody College, Vanderbilt University, Nashville, TN, USA., Morgan VL; Department of Biomedical Engineering, Vanderbilt University, Nashville, TN, USA.; Department of Radiology and Radiological Sciences, Vanderbilt University Medical Center, Nashville, TN, USA.; Department of Neurological Surgery, Vanderbilt University Medical Center, Nashville, TN, USA.; Vanderbilt University Institute of Imaging Science, Vanderbilt University, Nashville, TN, USA., Rogers BP; Department of Biomedical Engineering, Vanderbilt University, Nashville, TN, USA.; Department of Psychiatry and Behavioral Sciences, Vanderbilt University Medical Center, Nashville, TN, USA.; Department of Radiology and Radiological Sciences, Vanderbilt University Medical Center, Nashville, TN, USA.; Vanderbilt University Institute of Imaging Science, Vanderbilt University, Nashville, TN, USA., Schilling KG; Department of Radiology and Radiological Sciences, Vanderbilt University Medical Center, Nashville, TN, USA.; Vanderbilt University Institute of Imaging Science, Vanderbilt University, Nashville, TN, USA., Landman BA; Department of Biomedical Engineering, Vanderbilt University, Nashville, TN, USA.; Department of Electrical Engineering and Computer Science, Vanderbilt University, Nashville, TN, USA.; Department of Psychiatry and Behavioral Sciences, Vanderbilt University Medical Center, Nashville, TN, USA.; Department of Radiology and Radiological Sciences, Vanderbilt University Medical Center, Nashville, TN, USA.; Vanderbilt University Institute of Imaging Science, Vanderbilt University, Nashville, TN, USA.
المصدر: Magnetic resonance in medicine [Magn Reson Med] 2021 Jul; Vol. 86 (1), pp. 456-470. Date of Electronic Publication: 2021 Feb 03.
نوع المنشور: Journal Article; Research Support, N.I.H., Extramural; Research Support, N.I.H., Intramural; Research Support, U.S. Gov't, Non-P.H.S.
اللغة: English
بيانات الدورية: Publisher: Wiley Country of Publication: United States NLM ID: 8505245 Publication Model: Print-Electronic Cited Medium: Internet ISSN: 1522-2594 (Electronic) Linking ISSN: 07403194 NLM ISO Abbreviation: Magn Reson Med Subsets: MEDLINE
أسماء مطبوعة: Publication: 1999- : New York, NY : Wiley
Original Publication: San Diego : Academic Press,
مواضيع طبية MeSH: Artifacts* , Diffusion Magnetic Resonance Imaging*, Anisotropy ; Brain/diagnostic imaging ; Magnetic Resonance Imaging ; Motion
مستخلص: Purpose: Diffusion weighted MRI imaging (DWI) is often subject to low signal-to-noise ratios (SNRs) and artifacts. Recent work has produced software tools that can correct individual problems, but these tools have not been combined with each other and with quality assurance (QA). A single integrated pipeline is proposed to perform DWI preprocessing with a spectrum of tools and produce an intuitive QA document.
Methods: The proposed pipeline, built around the FSL, MRTrix3, and ANTs software packages, performs DWI denoising; inter-scan intensity normalization; susceptibility-, eddy current-, and motion-induced artifact correction; and slice-wise signal drop-out imputation. To perform QA on the raw and preprocessed data and each preprocessing operation, the pipeline documents qualitative visualizations, quantitative plots, gradient verifications, and tensor goodness-of-fit and fractional anisotropy analyses.
Results: Raw DWI data were preprocessed and quality checked with the proposed pipeline and demonstrated improved SNRs; physiologic intensity ratios; corrected susceptibility-, eddy current-, and motion-induced artifacts; imputed signal-lost slices; and improved tensor fits. The pipeline identified incorrect gradient configurations and file-type conversion errors and was shown to be effective on externally available datasets.
Conclusions: The proposed pipeline is a single integrated pipeline that combines established diffusion preprocessing tools from major MRI-focused software packages with intuitive QA.
(© 2021 International Society for Magnetic Resonance in Medicine.)
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معلومات مُعتمدة: P30 AG066507 United States AG NIA NIH HHS; T32 EB001628 United States EB NIBIB NIH HHS; R01 EB017230 United States EB NIBIB NIH HHS; R01 NS110130 United States NS NINDS NIH HHS; T32 GM007347 United States GM NIGMS NIH HHS; P50 HD103537 United States HD NICHD NIH HHS; UL1 RR024975 United States RR NCRR NIH HHS; R01 NS108445 United States NS NINDS NIH HHS
فهرسة مساهمة: Keywords: DTI; denoising; diffusion weighted imaging; distortion correction; preprocessing; quality assurance
تواريخ الأحداث: Date Created: 20210203 Date Completed: 20210520 Latest Revision: 20240403
رمز التحديث: 20240403
مُعرف محوري في PubMed: PMC8387107
DOI: 10.1002/mrm.28678
PMID: 33533094
قاعدة البيانات: MEDLINE
الوصف
تدمد:1522-2594
DOI:10.1002/mrm.28678