Intensity warping for multisite MRI harmonization
In multisite neuroimaging studies there is often unwanted technical variation across scanners and sites. These “scanner effects” can hinder detection of biological features of interest, produce inconsistent results, and lead to spurious associations. We propose mica (multisite image harmonization by...
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| Format: | Article |
| Language: | English |
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Elsevier
2020-12-01
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| Series: | NeuroImage |
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| Online Access: | http://www.sciencedirect.com/science/article/pii/S105381192030728X |
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| author | J. Wrobel M.L. Martin R. Bakshi P.A. Calabresi M. Elliot D. Roalf R.C. Gur R.E. Gur R.G. Henry G. Nair J. Oh N. Papinutto D. Pelletier D.S. Reich W.D. Rooney T.D. Satterthwaite W. Stern K. Prabhakaran N.L. Sicotte R.T. Shinohara J. Goldsmith |
| author_facet | J. Wrobel M.L. Martin R. Bakshi P.A. Calabresi M. Elliot D. Roalf R.C. Gur R.E. Gur R.G. Henry G. Nair J. Oh N. Papinutto D. Pelletier D.S. Reich W.D. Rooney T.D. Satterthwaite W. Stern K. Prabhakaran N.L. Sicotte R.T. Shinohara J. Goldsmith |
| author_sort | J. Wrobel |
| collection | DOAJ |
| description | In multisite neuroimaging studies there is often unwanted technical variation across scanners and sites. These “scanner effects” can hinder detection of biological features of interest, produce inconsistent results, and lead to spurious associations. We propose mica (multisite image harmonization by cumulative distribution function alignment), a tool to harmonize images taken on different scanners by identifying and removing within-subject scanner effects. Our goals in the present study were to (1) establish a method that removes scanner effects by leveraging multiple scans collected on the same subject, and, building on this, (2) develop a technique to quantify scanner effects in large multisite studies so these can be reduced as a preprocessing step. We illustrate scanner effects in a brain MRI study in which the same subject was measured twice on seven scanners, and assess our method’s performance in a second study in which ten subjects were scanned on two machines. We found that unharmonized images were highly variable across site and scanner type, and our method effectively removed this variability by aligning intensity distributions. We further studied the ability to predict image harmonization results for a scan taken on an existing subject at a new site using cross-validation. |
| first_indexed | 2024-12-12T14:28:13Z |
| format | Article |
| id | doaj.art-a0557e5b18664bbaba7eaec346d5cc15 |
| institution | Directory Open Access Journal |
| issn | 1095-9572 |
| language | English |
| last_indexed | 2024-12-12T14:28:13Z |
| publishDate | 2020-12-01 |
| publisher | Elsevier |
| record_format | Article |
| series | NeuroImage |
| spelling | doaj.art-a0557e5b18664bbaba7eaec346d5cc152022-12-22T00:21:38ZengElsevierNeuroImage1095-95722020-12-01223117242Intensity warping for multisite MRI harmonizationJ. Wrobel0M.L. Martin1R. Bakshi2P.A. Calabresi3M. Elliot4D. Roalf5R.C. Gur6R.E. Gur7R.G. Henry8G. Nair9J. Oh10N. Papinutto11D. Pelletier12D.S. Reich13W.D. Rooney14T.D. Satterthwaite15W. Stern16K. Prabhakaran17N.L. Sicotte18R.T. Shinohara19J. Goldsmith20Corresponding author.; Department of Biostatistics and Informatics, Colorado School of Public Health, University of Colorado Anschutz Medical Campus, USADepartment of Biostatistics, Epidemiology, and Informatics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USALaboratory for Neuroimaging Research, Partners Multiple Sclerosis Center, Department of Neurology, Brigham and Women’s Hospital, Harvard Medical School, Boston, MA, USA; Department of Radiology, Brigham and Women’s Hospital, Harvard Medical School, Boston, MA, USADepartment of Neurology, the Johns Hopkins University School of Medicine, Baltimore, MD, USADepartment of Radiology, Hospital of the University of Pennsylvania, Philadelphia, PA 19104, USABrain Behavior Laboratory, Department of Psychiatry, Neuropsychiatry Section, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USADepartment of Radiology, Hospital of the University of Pennsylvania, Philadelphia, PA 19104, USA; Brain Behavior Laboratory, Department of Psychiatry, Neuropsychiatry Section, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Lifespan Brain Institute (LiBI) at the University of Pennsylvania and Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USADepartment of Radiology, Hospital of the University of Pennsylvania, Philadelphia, PA 19104, USA; Brain Behavior Laboratory, Department of Psychiatry, Neuropsychiatry Section, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USA; Lifespan Brain Institute (LiBI) at the University of Pennsylvania and Children’s Hospital of Philadelphia, Philadelphia, PA 19104, USADepartment of Neurology, University of California - San Francisco, San Francisco, CA, USATranslational Neuroradiology Section, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USADepartment of Neurology, the Johns Hopkins University School of Medicine, Baltimore, MD, USA; St. Michael’s Hospital, University of Toronto, Toronto, Ontario, CanadaDepartment of Neurology, University of California - San Francisco, San Francisco, CA, USADepartment of Neurology, University of California - San Francisco, San Francisco, CA, USADepartment of Neurology, the Johns Hopkins University School of Medicine, Baltimore, MD, USA; Translational Neuroradiology Section, National Institute of Neurological Disorders and Stroke, National Institutes of Health, Bethesda, MD, USAAdvanced Imaging Research Center, Oregon Health & Science University, Portland, OR, USABrain Behavior Laboratory, Department of Psychiatry, Neuropsychiatry Section, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USADepartment of Neurology, University of California - San Francisco, San Francisco, CA, USABrain Behavior Laboratory, Department of Psychiatry, Neuropsychiatry Section, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA 19104, USADepartment of Neurology, Cedars-Sinai Medical Center, Los Angeles, CA, USADepartment of Biostatistics, Epidemiology, and Informatics, Perelman School of Medicine, University of Pennsylvania, Philadelphia, PA, USADepartment of Biostatistics, Mailman School of Public Health, Columbia University, USAIn multisite neuroimaging studies there is often unwanted technical variation across scanners and sites. These “scanner effects” can hinder detection of biological features of interest, produce inconsistent results, and lead to spurious associations. We propose mica (multisite image harmonization by cumulative distribution function alignment), a tool to harmonize images taken on different scanners by identifying and removing within-subject scanner effects. Our goals in the present study were to (1) establish a method that removes scanner effects by leveraging multiple scans collected on the same subject, and, building on this, (2) develop a technique to quantify scanner effects in large multisite studies so these can be reduced as a preprocessing step. We illustrate scanner effects in a brain MRI study in which the same subject was measured twice on seven scanners, and assess our method’s performance in a second study in which ten subjects were scanned on two machines. We found that unharmonized images were highly variable across site and scanner type, and our method effectively removed this variability by aligning intensity distributions. We further studied the ability to predict image harmonization results for a scan taken on an existing subject at a new site using cross-validation.http://www.sciencedirect.com/science/article/pii/S105381192030728X00-0199-00 |
| spellingShingle | J. Wrobel M.L. Martin R. Bakshi P.A. Calabresi M. Elliot D. Roalf R.C. Gur R.E. Gur R.G. Henry G. Nair J. Oh N. Papinutto D. Pelletier D.S. Reich W.D. Rooney T.D. Satterthwaite W. Stern K. Prabhakaran N.L. Sicotte R.T. Shinohara J. Goldsmith Intensity warping for multisite MRI harmonization NeuroImage 00-01 99-00 |
| title | Intensity warping for multisite MRI harmonization |
| title_full | Intensity warping for multisite MRI harmonization |
| title_fullStr | Intensity warping for multisite MRI harmonization |
| title_full_unstemmed | Intensity warping for multisite MRI harmonization |
| title_short | Intensity warping for multisite MRI harmonization |
| title_sort | intensity warping for multisite mri harmonization |
| topic | 00-01 99-00 |
| url | http://www.sciencedirect.com/science/article/pii/S105381192030728X |
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