Automated CNN-Based Analysis Versus Manual Analysis for MR Elastography in Nonalcoholic Fatty Liver Disease: Intermethod Agreement and Fibrosis Stage Discriminative Performance

BACKGROUND. Histologic fibrosis stage is the most important prognostic factor in chronic liver disease. MR elastography (MRE) is the most accurate noninvasive method for detecting and staging liver fibrosis. Although accurate, manual ROI-based MRE analysis is complex, time-consuming, requires specialized readers, and is prone to methodologic variability and suboptimal interreader agreement. OBJECTIVE. The purpose of this study was to develop an automated convolutional neural network (CNN)-based method for liver MRE analysis, evaluate its agreement with manual ROI-based analysis, and assess its performance for classifying dichotomized fibrosis stages using histology as the reference standard. METHODS. In this retrospective cross-sectional study, 675 participants who underwent MRE using different MRI systems and field strengths at 28 imaging sites from five multicenter international clinical trials of nonalcoholic steatohepatitis were included for algorithm development and internal testing of agreement between automated CNNbased and manual ROI-based analyses. Eighty-one patients (52 women, 29 men; mean age, 54 years) who underwent MRE using a single 3-T system and liver biopsy for clinical purposes at a single institution were included for external testing of agreement between the two analysis methods and assessment of fibrosis stage discriminative performance. Agreement was evaluated using intraclass correlation coefficients (ICCs). Bootstrapping was used to compute 95% CIs. Discriminative performance of each method for dichotomized histologic fibrosis stage was evaluated by AUC and compared using bootstrapping. RESULTS. Mean CNN- and manual ROI-based stiffness measurements ranged from 3.21 to 3.34 kPa in trial participants and from 3.21 to 3.30 kPa in clinical patients. ICC for CNN- and manual ROI-based measurements was 0.98 (95% CI, 0.97-0.98) in trial participants and 0.99 (95% CI, 0.98-0.99) in clinical patients. AUCs for classification of dichotomized fibrosis stage ranged from 0.89 to 0.93 for CNN-based analysis and 0.87 to 0.93 for manual ROI-based analysis (p =.23-.75). CONCLUSION. Stiffness measurements using the automated CNN-based method agreed strongly with manual ROI-based analysis across MRI systems and field strengths, with excellent discriminative performance for histology-determined dichotomized fibrosis stages in external testing. CLINICAL IMPACT. Given the high incidence of chronic liver disease worldwide, it is important that noninvasive tools to assess fibrosis are applied reliably across different settings. CNN-based analysis is feasible and may reduce reliance on expert image analysts.