Robust Glioblastoma Segmentation and Volumetry Without T2-FLAIR: External Validation of Targeted Dropout Training

TL;DR

This study validates a dropout training method that enhances glioblastoma segmentation robustness across different MRI protocols, especially when T2-FLAIR images are missing, without sacrificing performance on complete data.

Contribution

It introduces targeted T2-FLAIR dropout training for deep learning models, improving segmentation accuracy in absent T2-FLAIR scenarios while maintaining full-protocol performance.

Findings

Dropout training improved segmentation accuracy when T2-FLAIR was absent.

Performance with full MRI protocol was preserved using dropout.

Segmentation error and volumetric bias were substantially reduced with dropout.

Abstract

Objectives: To externally validate targeted T2 fluid-attenuated inversion recovery (T2-FLAIR) dropout for robust automated glioblastoma segmentation and whole-tumor volumetry without T2-FLAIR, while preserving performance when the full MRI protocol is available. Methods: In this retrospective multi-dataset study, 3D nnU-Net models were developed on BraTS 2021 (n=848) and externally validated on an independent University of Pennsylvania glioblastoma cohort (n=403). Models were trained with or without targeted T2-FLAIR dropout, zeroing the T2-FLAIR channel during training. Testing used prespecified T2-FLAIR-present and T2-FLAIR-absent scenarios; the absent scenario was simulated by zeroing the T2-FLAIR channel at inference. The primary endpoint was per-patient overall region-wise Dice similarity coefficient (DSC). Secondary endpoints were region-specific DSC, 95th percentile Hausdorff distance, and Bland-Altman whole-tumor volume bias. Results: In external validation, performance was preserved with the full MRI protocol: overall median DSC was 94.8% (interquartile range [IQR] 90.0%-97.1%) with dropout and 95.0% (IQR 90.3%-97.1%) without dropout. In the T2-FLAIR-absent scenario, targeted dropout improved overall median DSC from 81.0% (IQR 75.1%-86.4%) to 93.4% (IQR 89.1%-96.2%). Whole-tumor DSC improved from 60.4% to 92.6%, whole-tumor 95th percentile Hausdorff distance from 17.24 mm to 2.45 mm, and whole-tumor volume bias from -45.6 mL to 0.83 mL. Conclusions: In an independent external test cohort, targeted T2-FLAIR dropout preserved glioblastoma segmentation performance with the full MRI protocol and substantially reduced whole-tumor segmentation error and volumetric bias when T2-FLAIR was absent. These findings support targeted sequence dropout as a practical robustness strategy for automated glioblastoma analysis in retrospective and heterogeneous clinical workflows.