Technical challenges of quantitative chest MRI data analysis in a large cohort pediatric study

Anh H Nguyen; Adria Perez-Rovira; Piotr A Wielopolski; Juan A Hernandez Tamames; Liesbeth Duijts; Marleen de Bruijne; Andrea Aliverti; Francesca Pennati; Tetyana Ivanovska; Harm A W M Tiddens; Pierluigi Ciet

doi:10.1007/s00330-018-5863-7

Technical challenges of quantitative chest MRI data analysis in a large cohort pediatric study

Anh H Nguyen, Adria Perez-Rovira, Piotr A Wielopolski, Juan A Hernandez Tamames, Liesbeth Duijts, Marleen de Bruijne, Andrea Aliverti, Francesca Pennati, Tetyana Ivanovska, Harm A W M Tiddens, Pierluigi Ciet

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Abstract

OBJECTIVES: This study was conducted in order to evaluate the effect of geometric distortion (GD) on MRI lung volume quantification and evaluate available manual, semi-automated, and fully automated methods for lung segmentation.

METHODS: A phantom was scanned with MRI and CT. GD was quantified as the difference in phantom's volume between MRI and CT, with CT as gold standard. Dice scores were used to measure overlap in shapes. Furthermore, 11 subjects from a prospective population-based cohort study each underwent four chest MRI acquisitions. The resulting 44 MRI scans with 2D and 3D Gradwarp were used to test five segmentation methods. Intraclass correlation coefficient, Bland-Altman plots, Wilcoxon, Mann-Whitney U, and paired t tests were used for statistics.

RESULTS: Using phantoms, volume differences between CT and MRI varied according to MRI positions and 2D and 3D Gradwarp correction. With the phantom located at the isocenter, MRI overestimated the volume relative to CT by 5.56 ± 1.16 to 6.99 ± 0.22% with body and torso coils, respectively. Higher Dice scores and smaller intraobject differences were found for 3D Gradwarp MR images. In subjects, semi-automated and fully automated segmentation tools showed high agreement with manual segmentations (ICC = 0.971-0.993 for end-inspiratory scans; ICC = 0.992-0.995 for end-expiratory scans). Manual segmentation time per scan was approximately 3-4 h and 2-3 min for fully automated methods.

CONCLUSIONS: Volume overestimation of MRI due to GD can be quantified. Semi-automated and fully automated segmentation methods allow accurate, reproducible, and fast lung volume quantification. Chest MRI can be a valid radiation-free imaging modality for lung segmentation and volume quantification in large cohort studies.

KEY POINTS: • Geometric distortion varies according to MRI setting and patient positioning. • Automated segmentation methods allow fast and accurate lung volume quantification. • MRI is a valid radiation-free alternative to CT for quantitative data analysis.

Original language	English
Journal	European Radiology
Volume	29
Issue number	6
Pages (from-to)	2770–2782
ISSN	0938-7994
DOIs	https://doi.org/10.1007/s00330-018-5863-7
Publication status	Published - 1 Jun 2019

Keywords

Imaging
Lung
Lung volume measurements
Magnetic resonance imaging
Phantoms

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@article{4f8d7ca1df0e4cc5ad94214d999d33d1,

title = "Technical challenges of quantitative chest MRI data analysis in a large cohort pediatric study",

abstract = "OBJECTIVES: This study was conducted in order to evaluate the effect of geometric distortion (GD) on MRI lung volume quantification and evaluate available manual, semi-automated, and fully automated methods for lung segmentation.METHODS: A phantom was scanned with MRI and CT. GD was quantified as the difference in phantom's volume between MRI and CT, with CT as gold standard. Dice scores were used to measure overlap in shapes. Furthermore, 11 subjects from a prospective population-based cohort study each underwent four chest MRI acquisitions. The resulting 44 MRI scans with 2D and 3D Gradwarp were used to test five segmentation methods. Intraclass correlation coefficient, Bland-Altman plots, Wilcoxon, Mann-Whitney U, and paired t tests were used for statistics.RESULTS: Using phantoms, volume differences between CT and MRI varied according to MRI positions and 2D and 3D Gradwarp correction. With the phantom located at the isocenter, MRI overestimated the volume relative to CT by 5.56 ± 1.16 to 6.99 ± 0.22% with body and torso coils, respectively. Higher Dice scores and smaller intraobject differences were found for 3D Gradwarp MR images. In subjects, semi-automated and fully automated segmentation tools showed high agreement with manual segmentations (ICC = 0.971-0.993 for end-inspiratory scans; ICC = 0.992-0.995 for end-expiratory scans). Manual segmentation time per scan was approximately 3-4 h and 2-3 min for fully automated methods.CONCLUSIONS: Volume overestimation of MRI due to GD can be quantified. Semi-automated and fully automated segmentation methods allow accurate, reproducible, and fast lung volume quantification. Chest MRI can be a valid radiation-free imaging modality for lung segmentation and volume quantification in large cohort studies.KEY POINTS: • Geometric distortion varies according to MRI setting and patient positioning. • Automated segmentation methods allow fast and accurate lung volume quantification. • MRI is a valid radiation-free alternative to CT for quantitative data analysis.",

keywords = "Imaging, Lung, Lung volume measurements, Magnetic resonance imaging, Phantoms",

author = "Nguyen, {Anh H} and Adria Perez-Rovira and Wielopolski, {Piotr A} and {Hernandez Tamames}, {Juan A} and Liesbeth Duijts and {de Bruijne}, Marleen and Andrea Aliverti and Francesca Pennati and Tetyana Ivanovska and Tiddens, {Harm A W M} and Pierluigi Ciet",

note = "This paper has been presented to the European Conference of Radiology(ECR 2018) and awarded as the best scientific paper presentation in thesection Pediatrics",

year = "2019",

month = jun,

day = "1",

doi = "10.1007/s00330-018-5863-7",

language = "English",

volume = "29",

pages = "2770–2782",

journal = "European Radiology",

issn = "0938-7994",

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TY - JOUR

T1 - Technical challenges of quantitative chest MRI data analysis in a large cohort pediatric study

AU - Nguyen, Anh H

AU - Perez-Rovira, Adria

AU - Wielopolski, Piotr A

AU - Hernandez Tamames, Juan A

AU - Duijts, Liesbeth

AU - de Bruijne, Marleen

AU - Aliverti, Andrea

AU - Pennati, Francesca

AU - Ivanovska, Tetyana

AU - Tiddens, Harm A W M

AU - Ciet, Pierluigi

N1 - This paper has been presented to the European Conference of Radiology(ECR 2018) and awarded as the best scientific paper presentation in thesection Pediatrics

PY - 2019/6/1

Y1 - 2019/6/1

N2 - OBJECTIVES: This study was conducted in order to evaluate the effect of geometric distortion (GD) on MRI lung volume quantification and evaluate available manual, semi-automated, and fully automated methods for lung segmentation.METHODS: A phantom was scanned with MRI and CT. GD was quantified as the difference in phantom's volume between MRI and CT, with CT as gold standard. Dice scores were used to measure overlap in shapes. Furthermore, 11 subjects from a prospective population-based cohort study each underwent four chest MRI acquisitions. The resulting 44 MRI scans with 2D and 3D Gradwarp were used to test five segmentation methods. Intraclass correlation coefficient, Bland-Altman plots, Wilcoxon, Mann-Whitney U, and paired t tests were used for statistics.RESULTS: Using phantoms, volume differences between CT and MRI varied according to MRI positions and 2D and 3D Gradwarp correction. With the phantom located at the isocenter, MRI overestimated the volume relative to CT by 5.56 ± 1.16 to 6.99 ± 0.22% with body and torso coils, respectively. Higher Dice scores and smaller intraobject differences were found for 3D Gradwarp MR images. In subjects, semi-automated and fully automated segmentation tools showed high agreement with manual segmentations (ICC = 0.971-0.993 for end-inspiratory scans; ICC = 0.992-0.995 for end-expiratory scans). Manual segmentation time per scan was approximately 3-4 h and 2-3 min for fully automated methods.CONCLUSIONS: Volume overestimation of MRI due to GD can be quantified. Semi-automated and fully automated segmentation methods allow accurate, reproducible, and fast lung volume quantification. Chest MRI can be a valid radiation-free imaging modality for lung segmentation and volume quantification in large cohort studies.KEY POINTS: • Geometric distortion varies according to MRI setting and patient positioning. • Automated segmentation methods allow fast and accurate lung volume quantification. • MRI is a valid radiation-free alternative to CT for quantitative data analysis.

AB - OBJECTIVES: This study was conducted in order to evaluate the effect of geometric distortion (GD) on MRI lung volume quantification and evaluate available manual, semi-automated, and fully automated methods for lung segmentation.METHODS: A phantom was scanned with MRI and CT. GD was quantified as the difference in phantom's volume between MRI and CT, with CT as gold standard. Dice scores were used to measure overlap in shapes. Furthermore, 11 subjects from a prospective population-based cohort study each underwent four chest MRI acquisitions. The resulting 44 MRI scans with 2D and 3D Gradwarp were used to test five segmentation methods. Intraclass correlation coefficient, Bland-Altman plots, Wilcoxon, Mann-Whitney U, and paired t tests were used for statistics.RESULTS: Using phantoms, volume differences between CT and MRI varied according to MRI positions and 2D and 3D Gradwarp correction. With the phantom located at the isocenter, MRI overestimated the volume relative to CT by 5.56 ± 1.16 to 6.99 ± 0.22% with body and torso coils, respectively. Higher Dice scores and smaller intraobject differences were found for 3D Gradwarp MR images. In subjects, semi-automated and fully automated segmentation tools showed high agreement with manual segmentations (ICC = 0.971-0.993 for end-inspiratory scans; ICC = 0.992-0.995 for end-expiratory scans). Manual segmentation time per scan was approximately 3-4 h and 2-3 min for fully automated methods.CONCLUSIONS: Volume overestimation of MRI due to GD can be quantified. Semi-automated and fully automated segmentation methods allow accurate, reproducible, and fast lung volume quantification. Chest MRI can be a valid radiation-free imaging modality for lung segmentation and volume quantification in large cohort studies.KEY POINTS: • Geometric distortion varies according to MRI setting and patient positioning. • Automated segmentation methods allow fast and accurate lung volume quantification. • MRI is a valid radiation-free alternative to CT for quantitative data analysis.

KW - Imaging

KW - Lung

KW - Lung volume measurements

KW - Magnetic resonance imaging

KW - Phantoms

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DO - 10.1007/s00330-018-5863-7

M3 - Journal article

C2 - 30519932

SN - 0938-7994

VL - 29

SP - 2770

EP - 2782

JO - European Radiology

JF - European Radiology

IS - 6

ER -

Technical challenges of quantitative chest MRI data analysis in a large cohort pediatric study

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