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Updated: Aug 17, 2025
Automated Segmentation of Cortical Grey Matter from T1-Weighted MRI Images
Published on: January 7, 2019
A Deep Learning Segmentation Pipeline for Cardiac T1 Mapping Using MRI Relaxation-based Synthetic Contrast
Nitish Bhatt1, Venkat Ramanan1, Ady Orbach1
1Faculty of Medicine (N.B.), Department of Medical Imaging (L.G., L.J.J.), Department of Medicine (I.R.), and Department of Medical Biophysics (G.A.W., N.R.G.), University of Toronto, 1 King's College Circle, Toronto, ON, Canada M5S A18; Physical Sciences Platform, Sunnybrook Research Institute, Toronto, Ontario, Canada (N.B., V.R., L.B., M.N., F.G., X.Q., G.A.W., N.R.G.); Schulich Heart Program (V.R., A.O., L.B., M.N., F.G., X.Q., I.R., G.A.W., N.R.G.) and Department of Radiology (L.G., L.J.J.), Sunnybrook Health Sciences Centre, Toronto, Ontario, Canada; and Department of Radiology, St Michael's Hospital, Toronto, Ontario, Canada (L.J.J.).
Purpose:
To design and evaluate an automated deep learning method for segmentation and analysis of cardiac MRI T1 maps with use of synthetic T1-weighted images for MRI relaxation-based contrast augmentation.
Materials And Methods:
This retrospective study included MRI scans acquired between 2016 and 2019 from 100 patients (mean age ± SD, 55 years ± 13; 72 men) across various clinical abnormalities with use of a modified Look-Locker inversion recovery, or MOLLI, sequence to quantify native T1 (T1native), postcontrast T1 (T1post), and extracellular volume (ECV). Data were divided into training (n = 60) and internal (n = 40) test subsets. "Synthetic" T1-weighted images were generated from the T1 exponential inversion-recovery signal model at a range of optimal inversion times, yielding high blood-myocardium contrast, and were used for contrast-based image augmentation during training and testing of a convolutional neural network for myocardial segmentation. Automated segmentation, T1, and ECV were compared with experts with use of Dice similarity coefficients (DSCs), correlation coefficients, and Bland-Altman analysis. An external test dataset (n = 147) was used to assess model generalization.
Results:
Internal testing showed high myocardial DSC relative to experts (0.81 ± 0.08), which was similar to interobserver DSC (0.81 ± 0.08). Automated segmental measurements strongly correlated with experts (T1native, R = 0.87; T1post, R = 0.91; ECV, R = 0.92), which were similar to interobserver correlation (T1native, R = 0.86; T1post, R = 0.94; ECV, R = 0.95). External testing showed strong DSC (0.80 ± 0.09) and T1native correlation (R = 0.88) between automatic and expert analysis.
Conclusion:
This deep learning method leveraging synthetic contrast augmentation may provide accurate automated T1 and ECV analysis for cardiac MRI data acquired across different abnormalities, centers, scanners, and T1 sequences.Keywords: MRI, Cardiac, Tissue Characterization, Segmentation, Convolutional Neural Network, Deep Learning Algorithms, Machine Learning Algorithms, Supervised Learning Supplemental material is available for this article. © RSNA, 2022.
