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ExploreASL: An image processing pipeline for multi-center ASL perfusion MRI studies.

Identifieur interne : 000207 ( Main/Exploration ); précédent : 000206; suivant : 000208

ExploreASL: An image processing pipeline for multi-center ASL perfusion MRI studies.

Auteurs : Henk J M M. Mutsaerts [Belgique] ; Jan Petr [Allemagne] ; Paul Groot [Pays-Bas] ; Pieter Vandemaele [Belgique] ; Silvia Ingala [Pays-Bas] ; Andrew D. Robertson [Canada] ; Lena Václavů [Pays-Bas] ; Inge Groote [Norvège] ; Hugo Kuijf [Pays-Bas] ; Fernando Zelaya [Royaume-Uni] ; Owen O'Daly [Royaume-Uni] ; Saima Hilal [Singapour] ; Alle Meije Wink [Pays-Bas] ; Ilse Kant [Pays-Bas] ; Matthan W A. Caan [Pays-Bas] ; Catherine Morgan [Nouvelle-Zélande] ; Jeroen De Bresser [Pays-Bas] ; Elisabeth Lysvik [Norvège] ; Anouk Schrantee [Pays-Bas] ; Astrid Bj Rnebekk [Norvège] ; Patricia Clement [Belgique] ; Zahra Shirzadi [Canada] ; Joost P A. Kuijer [Pays-Bas] ; Viktor Wottschel [Pays-Bas] ; Udunna C. Anazodo [Canada] ; Dasja Pajkrt [Pays-Bas] ; Edo Richard [Pays-Bas] ; Reinoud P H. Bokkers [Pays-Bas] ; Liesbeth Reneman [Pays-Bas] ; Mario Masellis [Canada] ; Matthias Günther [Allemagne] ; Bradley J. Macintosh [Canada] ; Eric Achten [Belgique] ; Michael A. Chappell [Royaume-Uni] ; Matthias J P. Van Osch [Pays-Bas] ; Xavier Golay [Royaume-Uni] ; David L. Thomas [Royaume-Uni] ; Enrico De Vita [Royaume-Uni] ; Atle Bj Rnerud [Norvège] ; Aart Nederveen [Pays-Bas] ; Jeroen Hendrikse [Pays-Bas] ; Iris Asllani [Royaume-Uni] ; Frederik Barkhof [Royaume-Uni]

Source :

RBID : pubmed:32526385

Descripteurs français

English descriptors

Abstract

Arterial spin labeling (ASL) has undergone significant development since its inception, with a focus on improving standardization and reproducibility of its acquisition and quantification. In a community-wide effort towards robust and reproducible clinical ASL image processing, we developed the software package ExploreASL, allowing standardized analyses across centers and scanners. The procedures used in ExploreASL capitalize on published image processing advancements and address the challenges of multi-center datasets with scanner-specific processing and artifact reduction to limit patient exclusion. ExploreASL is self-contained, written in MATLAB and based on Statistical Parameter Mapping (SPM) and runs on multiple operating systems. To facilitate collaboration and data-exchange, the toolbox follows several standards and recommendations for data structure, provenance, and best analysis practice. ExploreASL was iteratively refined and tested in the analysis of >10,000 ASL scans using different pulse-sequences in a variety of clinical populations, resulting in four processing modules: Import, Structural, ASL, and Population that perform tasks, respectively, for data curation, structural and ASL image processing and quality control, and finally preparing the results for statistical analyses on both single-subject and group level. We illustrate ExploreASL processing results from three cohorts: perinatally HIV-infected children, healthy adults, and elderly at risk for neurodegenerative disease. We show the reproducibility for each cohort when processed at different centers with different operating systems and MATLAB versions, and its effects on the quantification of gray matter cerebral blood flow. ExploreASL facilitates the standardization of image processing and quality control, allowing the pooling of cohorts which may increase statistical power and discover between-group perfusion differences. Ultimately, this workflow may advance ASL for wider adoption in clinical studies, trials, and practice.

DOI: 10.1016/j.neuroimage.2020.117031
PubMed: 32526385


Affiliations:


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<nlm:affiliation>Department of Diagnostic Physics, Oslo University Hospital, Oslo, Norway.</nlm:affiliation>
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<wicri:regionArea>Department of Diagnostic Physics, Oslo University Hospital, Oslo</wicri:regionArea>
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<nlm:affiliation>The Anabolic Androgenic Steroid Research Group, National Advisory Unit on Substance Use Disorder Treatment, Oslo University Hospital, Oslo, Norway.</nlm:affiliation>
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<wicri:regionArea>The Anabolic Androgenic Steroid Research Group, National Advisory Unit on Substance Use Disorder Treatment, Oslo University Hospital, Oslo</wicri:regionArea>
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<name sortKey="Clement, Patricia" sort="Clement, Patricia" uniqKey="Clement P" first="Patricia" last="Clement">Patricia Clement</name>
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<nlm:affiliation>Ghent Institute for Functional and Metabolic Imaging (GIfMI), Ghent University, Ghent, Belgium.</nlm:affiliation>
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<wicri:regionArea>Ghent Institute for Functional and Metabolic Imaging (GIfMI), Ghent University, Ghent</wicri:regionArea>
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<nlm:affiliation>Sunnybrook Research Institute, University of Toronto, Toronto, Canada.</nlm:affiliation>
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<orgName type="university">Université de Toronto</orgName>
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<wicri:regionArea>Department of Radiology and Nuclear Medicine, Amsterdam Neuroscience, Amsterdam University Medical Center, Location VUmc, Amsterdam</wicri:regionArea>
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<wicri:regionArea>Department of Radiology and Nuclear Medicine, Amsterdam Neuroscience, Amsterdam University Medical Center, Location VUmc, Amsterdam</wicri:regionArea>
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<nlm:affiliation>Department of Medical Biophysics, University of Western Ontario, London, Canada; Imaging Division, Lawson Health Research Institute, London, Canada.</nlm:affiliation>
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<wicri:regionArea>Department of Medical Biophysics, University of Western Ontario, London, Canada; Imaging Division, Lawson Health Research Institute, London</wicri:regionArea>
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<nlm:affiliation>Department of Pediatric Infectious Diseases, Emma Children's Hospital, Amsterdam University Medical Centre, Location Academic Medical Center, Amsterdam, the Netherlands.</nlm:affiliation>
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<name sortKey="Richard, Edo" sort="Richard, Edo" uniqKey="Richard E" first="Edo" last="Richard">Edo Richard</name>
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<nlm:affiliation>Department of Neurology, Donders Institute for Brain, Behavior and Cognition, Radboud University Medical Centre, Nijmegen, the Netherlands; Neurology, Amsterdam University Medical Center, Location Academic Medical Center, University of Amsterdam, Amsterdam, the Netherlands.</nlm:affiliation>
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<nlm:affiliation>Department of Radiology, Medical Imaging Center, University Medical Center Groningen, University of Groningen, Groningen, the Netherlands.</nlm:affiliation>
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<wicri:regionArea>Department of Radiology, Medical Imaging Center, University Medical Center Groningen, University of Groningen, Groningen</wicri:regionArea>
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<nlm:affiliation>UCL Queen Square Institute of Neurology, University College London, London, UK.</nlm:affiliation>
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<nlm:affiliation>Department of Biomedical Engineering, School of Biomedical Engineering & Imaging Sciences, King's College London, King's Health Partners, St Thomas' Hospital, London, SE1 7EH, UK.</nlm:affiliation>
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<nlm:affiliation>Department of Diagnostic Physics, Oslo University Hospital, Oslo, Norway; Department of Psychology, University of Oslo, Norway.</nlm:affiliation>
<country xml:lang="fr">Norvège</country>
<wicri:regionArea>Department of Diagnostic Physics, Oslo University Hospital, Oslo, Norway; Department of Psychology, University of Oslo</wicri:regionArea>
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<name sortKey="Nederveen, Aart" sort="Nederveen, Aart" uniqKey="Nederveen A" first="Aart" last="Nederveen">Aart Nederveen</name>
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<name sortKey="Hendrikse, Jeroen" sort="Hendrikse, Jeroen" uniqKey="Hendrikse J" first="Jeroen" last="Hendrikse">Jeroen Hendrikse</name>
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<nlm:affiliation>Kate Gleason College of Engineering, Rochester Institute of Technology, NY, USA; Clinical Imaging Sciences Centre, Department of Neuroscience, Brighton and Sussex Medical School, Brighton, UK.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>Kate Gleason College of Engineering, Rochester Institute of Technology, NY, USA; Clinical Imaging Sciences Centre, Department of Neuroscience, Brighton and Sussex Medical School, Brighton</wicri:regionArea>
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<nlm:affiliation>Department of Radiology and Nuclear Medicine, Amsterdam Neuroscience, Amsterdam University Medical Center, Location VUmc, Amsterdam, the Netherlands; UCL Queen Square Institute of Neurology, University College London, London, UK; Centre for Medical Image Computing (CMIC), Faculty of Engineering Science, University College London, London, UK.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
<wicri:regionArea>Department of Radiology and Nuclear Medicine, Amsterdam Neuroscience, Amsterdam University Medical Center, Location VUmc, Amsterdam, the Netherlands; UCL Queen Square Institute of Neurology, University College London, London, UK; Centre for Medical Image Computing (CMIC), Faculty of Engineering Science, University College London, London</wicri:regionArea>
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<title xml:lang="en">ExploreASL: An image processing pipeline for multi-center ASL perfusion MRI studies.</title>
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<name sortKey="Mutsaerts, Henk J M M" sort="Mutsaerts, Henk J M M" uniqKey="Mutsaerts H" first="Henk J M M" last="Mutsaerts">Henk J M M. Mutsaerts</name>
<affiliation wicri:level="1">
<nlm:affiliation>Department of Radiology and Nuclear Medicine, Amsterdam Neuroscience, Amsterdam University Medical Center, Location VUmc, Amsterdam, the Netherlands; Radiology and Nuclear Medicine, Amsterdam Neuroscience, Amsterdam University Medical Centers, Location Academic Medical Center, University of Amsterdam, Amsterdam, the Netherlands; Radiology, University Medical Center Utrecht, Utrecht, the Netherlands; Kate Gleason College of Engineering, Rochester Institute of Technology, NY, USA; Ghent Institute for Functional and Metabolic Imaging (GIfMI), Ghent University, Ghent, Belgium. Electronic address: h.j.mutsaerts@amsterdamumc.nl.</nlm:affiliation>
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<nlm:affiliation>Kate Gleason College of Engineering, Rochester Institute of Technology, NY, USA; Helmholtz-Zentrum Dresden-Rossendorf, Institute of Radiopharmaceutical Cancer Research, Dresden, Germany.</nlm:affiliation>
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<name sortKey="Groot, Paul" sort="Groot, Paul" uniqKey="Groot P" first="Paul" last="Groot">Paul Groot</name>
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<nlm:affiliation>Radiology and Nuclear Medicine, Amsterdam Neuroscience, Amsterdam University Medical Centers, Location Academic Medical Center, University of Amsterdam, Amsterdam, the Netherlands.</nlm:affiliation>
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<nlm:affiliation>Ghent Institute for Functional and Metabolic Imaging (GIfMI), Ghent University, Ghent, Belgium.</nlm:affiliation>
<country xml:lang="fr">Belgique</country>
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<settlement type="city">Gand</settlement>
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<name sortKey="Ingala, Silvia" sort="Ingala, Silvia" uniqKey="Ingala S" first="Silvia" last="Ingala">Silvia Ingala</name>
<affiliation wicri:level="3">
<nlm:affiliation>Department of Radiology and Nuclear Medicine, Amsterdam Neuroscience, Amsterdam University Medical Center, Location VUmc, Amsterdam, the Netherlands.</nlm:affiliation>
<country xml:lang="fr" wicri:curation="lc">Pays-Bas</country>
<wicri:regionArea>Department of Radiology and Nuclear Medicine, Amsterdam Neuroscience, Amsterdam University Medical Center, Location VUmc, Amsterdam</wicri:regionArea>
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<name sortKey="Robertson, Andrew D" sort="Robertson, Andrew D" uniqKey="Robertson A" first="Andrew D" last="Robertson">Andrew D. Robertson</name>
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<nlm:affiliation>Schlegel-UW Research Institute for Aging, University of Waterloo, Waterloo, Ontario, Canada.</nlm:affiliation>
<country xml:lang="fr">Canada</country>
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<name sortKey="Vaclavu, Lena" sort="Vaclavu, Lena" uniqKey="Vaclavu L" first="Lena" last="Václavů">Lena Václavů</name>
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<nlm:affiliation>C.J. Gorter Center for High Field MRI, Department of Radiology, Leiden University Medical Center, Leiden, the Netherlands.</nlm:affiliation>
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<name sortKey="Groote, Inge" sort="Groote, Inge" uniqKey="Groote I" first="Inge" last="Groote">Inge Groote</name>
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<nlm:affiliation>Department of Diagnostic Physics, Oslo University Hospital, Oslo, Norway.</nlm:affiliation>
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<name sortKey="Kuijf, Hugo" sort="Kuijf, Hugo" uniqKey="Kuijf H" first="Hugo" last="Kuijf">Hugo Kuijf</name>
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<name sortKey="Zelaya, Fernando" sort="Zelaya, Fernando" uniqKey="Zelaya F" first="Fernando" last="Zelaya">Fernando Zelaya</name>
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<nlm:affiliation>Department of Neuroimaging, Institute of Psychiatry, Psychology and Neuroscience, King's College London, London, UK.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
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<name sortKey="O Daly, Owen" sort="O Daly, Owen" uniqKey="O Daly O" first="Owen" last="O'Daly">Owen O'Daly</name>
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<nlm:affiliation>Department of Neuroimaging, Institute of Psychiatry, Psychology and Neuroscience, King's College London, London, UK.</nlm:affiliation>
<country xml:lang="fr">Royaume-Uni</country>
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<name sortKey="Hilal, Saima" sort="Hilal, Saima" uniqKey="Hilal S" first="Saima" last="Hilal">Saima Hilal</name>
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<nlm:affiliation>Department of Pharmacology, National University of Singapore, Singapore; Memory Aging and Cognition Center, National University Health System, Singapore; Saw Swee Hock School of Public Health, National University of Singapore, Singapore.</nlm:affiliation>
<country xml:lang="fr">Singapour</country>
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<orgName type="university">Université nationale de Singapour</orgName>
</affiliation>
</author>
<author>
<name sortKey="Wink, Alle Meije" sort="Wink, Alle Meije" uniqKey="Wink A" first="Alle Meije" last="Wink">Alle Meije Wink</name>
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<nlm:affiliation>Department of Radiology and Nuclear Medicine, Amsterdam Neuroscience, Amsterdam University Medical Center, Location VUmc, Amsterdam, the Netherlands.</nlm:affiliation>
<country xml:lang="fr" wicri:curation="lc">Pays-Bas</country>
<wicri:regionArea>Department of Radiology and Nuclear Medicine, Amsterdam Neuroscience, Amsterdam University Medical Center, Location VUmc, Amsterdam</wicri:regionArea>
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<name sortKey="Kant, Ilse" sort="Kant, Ilse" uniqKey="Kant I" first="Ilse" last="Kant">Ilse Kant</name>
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<author>
<name sortKey="Caan, Matthan W A" sort="Caan, Matthan W A" uniqKey="Caan M" first="Matthan W A" last="Caan">Matthan W A. Caan</name>
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<name sortKey="Morgan, Catherine" sort="Morgan, Catherine" uniqKey="Morgan C" first="Catherine" last="Morgan">Catherine Morgan</name>
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<author>
<name sortKey="De Bresser, Jeroen" sort="De Bresser, Jeroen" uniqKey="De Bresser J" first="Jeroen" last="De Bresser">Jeroen De Bresser</name>
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<wicri:regionArea>Department of Radiology, Leiden University Medical Center, Leiden</wicri:regionArea>
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<name sortKey="Lysvik, Elisabeth" sort="Lysvik, Elisabeth" uniqKey="Lysvik E" first="Elisabeth" last="Lysvik">Elisabeth Lysvik</name>
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<nlm:affiliation>Department of Diagnostic Physics, Oslo University Hospital, Oslo, Norway.</nlm:affiliation>
<country xml:lang="fr">Norvège</country>
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<name sortKey="Schrantee, Anouk" sort="Schrantee, Anouk" uniqKey="Schrantee A" first="Anouk" last="Schrantee">Anouk Schrantee</name>
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<name sortKey="Wottschel, Viktor" sort="Wottschel, Viktor" uniqKey="Wottschel V" first="Viktor" last="Wottschel">Viktor Wottschel</name>
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<country xml:lang="fr">Royaume-Uni</country>
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<div type="abstract" xml:lang="en">Arterial spin labeling (ASL) has undergone significant development since its inception, with a focus on improving standardization and reproducibility of its acquisition and quantification. In a community-wide effort towards robust and reproducible clinical ASL image processing, we developed the software package ExploreASL, allowing standardized analyses across centers and scanners. The procedures used in ExploreASL capitalize on published image processing advancements and address the challenges of multi-center datasets with scanner-specific processing and artifact reduction to limit patient exclusion. ExploreASL is self-contained, written in MATLAB and based on Statistical Parameter Mapping (SPM) and runs on multiple operating systems. To facilitate collaboration and data-exchange, the toolbox follows several standards and recommendations for data structure, provenance, and best analysis practice. ExploreASL was iteratively refined and tested in the analysis of >10,000 ASL scans using different pulse-sequences in a variety of clinical populations, resulting in four processing modules: Import, Structural, ASL, and Population that perform tasks, respectively, for data curation, structural and ASL image processing and quality control, and finally preparing the results for statistical analyses on both single-subject and group level. We illustrate ExploreASL processing results from three cohorts: perinatally HIV-infected children, healthy adults, and elderly at risk for neurodegenerative disease. We show the reproducibility for each cohort when processed at different centers with different operating systems and MATLAB versions, and its effects on the quantification of gray matter cerebral blood flow. ExploreASL facilitates the standardization of image processing and quality control, allowing the pooling of cohorts which may increase statistical power and discover between-group perfusion differences. Ultimately, this workflow may advance ASL for wider adoption in clinical studies, trials, and practice.</div>
</front>
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<PMID Version="1">32526385</PMID>
<DateCompleted>
<Year>2021</Year>
<Month>02</Month>
<Day>23</Day>
</DateCompleted>
<DateRevised>
<Year>2021</Year>
<Month>02</Month>
<Day>23</Day>
</DateRevised>
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<Journal>
<ISSN IssnType="Electronic">1095-9572</ISSN>
<JournalIssue CitedMedium="Internet">
<Volume>219</Volume>
<PubDate>
<Year>2020</Year>
<Month>10</Month>
<Day>01</Day>
</PubDate>
</JournalIssue>
<Title>NeuroImage</Title>
<ISOAbbreviation>Neuroimage</ISOAbbreviation>
</Journal>
<ArticleTitle>ExploreASL: An image processing pipeline for multi-center ASL perfusion MRI studies.</ArticleTitle>
<Pagination>
<MedlinePgn>117031</MedlinePgn>
</Pagination>
<ELocationID EIdType="pii" ValidYN="Y">S1053-8119(20)30517-6</ELocationID>
<ELocationID EIdType="doi" ValidYN="Y">10.1016/j.neuroimage.2020.117031</ELocationID>
<Abstract>
<AbstractText>Arterial spin labeling (ASL) has undergone significant development since its inception, with a focus on improving standardization and reproducibility of its acquisition and quantification. In a community-wide effort towards robust and reproducible clinical ASL image processing, we developed the software package ExploreASL, allowing standardized analyses across centers and scanners. The procedures used in ExploreASL capitalize on published image processing advancements and address the challenges of multi-center datasets with scanner-specific processing and artifact reduction to limit patient exclusion. ExploreASL is self-contained, written in MATLAB and based on Statistical Parameter Mapping (SPM) and runs on multiple operating systems. To facilitate collaboration and data-exchange, the toolbox follows several standards and recommendations for data structure, provenance, and best analysis practice. ExploreASL was iteratively refined and tested in the analysis of >10,000 ASL scans using different pulse-sequences in a variety of clinical populations, resulting in four processing modules: Import, Structural, ASL, and Population that perform tasks, respectively, for data curation, structural and ASL image processing and quality control, and finally preparing the results for statistical analyses on both single-subject and group level. We illustrate ExploreASL processing results from three cohorts: perinatally HIV-infected children, healthy adults, and elderly at risk for neurodegenerative disease. We show the reproducibility for each cohort when processed at different centers with different operating systems and MATLAB versions, and its effects on the quantification of gray matter cerebral blood flow. ExploreASL facilitates the standardization of image processing and quality control, allowing the pooling of cohorts which may increase statistical power and discover between-group perfusion differences. Ultimately, this workflow may advance ASL for wider adoption in clinical studies, trials, and practice.</AbstractText>
<CopyrightInformation>Copyright © 2020. Published by Elsevier Inc.</CopyrightInformation>
</Abstract>
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<Author ValidYN="Y">
<LastName>Mutsaerts</LastName>
<ForeName>Henk J M M</ForeName>
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