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

(2020) NEUROIMAGE. 219.
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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.
Keywords
Arterial spin labeling, Image processing, Multi-center, Cerebral perfusion, Quality control, CEREBRAL-BLOOD-FLOW, PARTIAL VOLUME CORRECTION, SPIN-LABELING PERFUSION, TEST-RETEST RELIABILITY, WHITE-MATTER PERFUSION, SPATIAL NORMALIZATION, ALZHEIMERS-DISEASE, SUSCEPTIBILITY DISTORTIONS, NOISE-REDUCTION, RELAXATION-TIME

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MLA
Mutsaerts, Henk-Jan, et al. “ExploreASL : An Image Processing Pipeline for Multi-Center ASL Perfusion MRI Studies.” NEUROIMAGE, vol. 219, 2020, doi:10.1016/j.neuroimage.2020.117031.
APA
Mutsaerts, H.-J., Petr, J., Groot, P., Vandemaele, P., Ingala, S., Robertson, A., … Barkhof, F. (2020). ExploreASL : an image processing pipeline for multi-center ASL perfusion MRI studies. NEUROIMAGE, 219. https://doi.org/10.1016/j.neuroimage.2020.117031
Chicago author-date
Mutsaerts, Henk-Jan, J Petr, P Groot, Pieter Vandemaele, S Ingala, AD Robertson, L Václavů, et al. 2020. “ExploreASL : An Image Processing Pipeline for Multi-Center ASL Perfusion MRI Studies.” NEUROIMAGE 219. https://doi.org/10.1016/j.neuroimage.2020.117031.
Chicago author-date (all authors)
Mutsaerts, Henk-Jan, J Petr, P Groot, Pieter Vandemaele, S Ingala, AD Robertson, L Václavů, I Groote, H Kuijf, F Zelaya, O O’Daly, S Hilal, AM Wink, I Kant, MWA Caan, C Morgan, J de Bresser, E Lysvik, A Schrantee, A Bjørnebekk, P Clement, Z Shirzadi, JPA Kuijer, V Wottschel, UC Anazodo, D Pajkrt, E Richard, RPH Bokkers, L Reneman, M Masellis, M Günther, BJ MacIntosh, E Achten, MA Chappell, MJP van Osch, X Golay, DL Thomas, E De Vita, A Bjørnerud, A Nederveen, J Hendrikse, I Asllani, and F Barkhof. 2020. “ExploreASL : An Image Processing Pipeline for Multi-Center ASL Perfusion MRI Studies.” NEUROIMAGE 219. doi:10.1016/j.neuroimage.2020.117031.
Vancouver
1.
Mutsaerts H-J, Petr J, Groot P, Vandemaele P, Ingala S, Robertson A, et al. ExploreASL : an image processing pipeline for multi-center ASL perfusion MRI studies. NEUROIMAGE. 2020;219.
IEEE
[1]
H.-J. Mutsaerts et al., “ExploreASL : an image processing pipeline for multi-center ASL perfusion MRI studies,” NEUROIMAGE, vol. 219, 2020.
@article{8688225,
  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.},
  articleno    = {117031},
  author       = {Mutsaerts, Henk-Jan and Petr, J and Groot, P and Vandemaele, Pieter and Ingala, S and Robertson, AD and Václavů, L and Groote, I and Kuijf, H and Zelaya, F and O'Daly, O and Hilal, S and Wink, AM and Kant, I and Caan, MWA and Morgan, C and de Bresser, J and Lysvik, E and Schrantee, A and Bjørnebekk, A and Clement, P and Shirzadi, Z and Kuijer, JPA and Wottschel, V and Anazodo, UC and Pajkrt, D and Richard, E and Bokkers, RPH and Reneman, L and Masellis, M and Günther, M and MacIntosh, BJ and Achten, E and Chappell, MA and van Osch, MJP and Golay, X and Thomas, DL and De Vita, E and Bjørnerud, A and Nederveen, A and Hendrikse, J and Asllani, I and Barkhof, F},
  issn         = {1053-8119},
  journal      = {NEUROIMAGE},
  keywords     = {Arterial spin labeling,Image processing,Multi-center,Cerebral perfusion,Quality control,CEREBRAL-BLOOD-FLOW,PARTIAL VOLUME CORRECTION,SPIN-LABELING PERFUSION,TEST-RETEST RELIABILITY,WHITE-MATTER PERFUSION,SPATIAL NORMALIZATION,ALZHEIMERS-DISEASE,SUSCEPTIBILITY DISTORTIONS,NOISE-REDUCTION,RELAXATION-TIME},
  language     = {eng},
  pages        = {17},
  title        = {ExploreASL : an image processing pipeline for multi-center ASL perfusion MRI studies},
  url          = {http://dx.doi.org/10.1016/j.neuroimage.2020.117031},
  volume       = {219},
  year         = {2020},
}

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