Dataset Information

Towards fully automated inner ear analysis with deep-learning-based joint segmentation and landmark detection framework.

ABSTRACT: Automated analysis of the inner ear anatomy in radiological data instead of time-consuming manual assessment is a worthwhile goal that could facilitate preoperative planning and clinical research. We propose a framework encompassing joint semantic segmentation of the inner ear and anatomical landmark detection of helicotrema, oval and round window. A fully automated pipeline with a single, dual-headed volumetric 3D U-Net was implemented, trained and evaluated using manually labeled in-house datasets from cadaveric specimen ([Formula: see text]) and clinical practice ([Formula: see text]). The model robustness was further evaluated on three independent open-source datasets ([Formula: see text] scans) consisting of cadaveric specimen scans. For the in-house datasets, Dice scores of [Formula: see text], intersection-over-union scores of [Formula: see text] and average Hausdorff distances of [Formula: see text] and [Formula: see text] voxel units were achieved. The landmark localization task was performed automatically with an average localization error of [Formula: see text] voxel units. A robust, albeit reduced performance could be attained for the catalogue of three open-source datasets. Results of the ablation studies with 43 mono-parametric variations of the basal architecture and training protocol provided task-optimal parameters for both categories. Ablation studies against single-task variants of the basal architecture showed a clear performance benefit of coupling landmark localization with segmentation and a dataset-dependent performance impact on segmentation ability.

SUBMITTER: Stebani J

PROVIDER: S-EPMC10625555 | biostudies-literature | 2023 Nov

REPOSITORIES: biostudies-literature

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Towards fully automated inner ear analysis with deep-learning-based joint segmentation and landmark detection framework.

Stebani Jannik J Blaimer Martin M Zabler Simon S Neun Tilmann T Pelt Daniël M DM Rak Kristen K

Scientific reports 20231104 1

Automated analysis of the inner ear anatomy in radiological data instead of time-consuming manual assessment is a worthwhile goal that could facilitate preoperative planning and clinical research. We propose a framework encompassing joint semantic segmentation of the inner ear and anatomical landmark detection of helicotrema, oval and round window. A fully automated pipeline with a single, dual-headed volumetric 3D U-Net was implemented, trained and evaluated using manually labeled in-house data ...[more]

PMID: 37925540

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Project description:BackgroundThe intricate three-dimensional anatomy of the inner ear presents significant challenges in diagnostic procedures and critical surgical interventions. Recent advancements in deep learning (DL), particularly convolutional neural networks (CNN), have shown promise for segmenting specific structures in medical imaging. This study aimed to train and externally validate an open-source U-net DL general model for automated segmentation of the inner ear from computed tomography (CT) scans, using quantitative and qualitative assessments.MethodsIn this multicenter study, we retrospectively collected a dataset of 271 CT scans to train an open-source U-net CNN model. An external set of 70 CT scans was used to evaluate the performance of the trained model. The model's efficacy was quantitatively assessed using the Dice similarity coefficient (DSC) and qualitatively assessed using a 4-level Likert score. For comparative analysis, manual segmentation served as the reference standard, with assessments made on both training and validation datasets, as well as stratified analysis of normal and pathological subgroups.ResultsThe optimized model yielded a mean DSC of 0.83 and achieved a Likert score of 1 in 42% of the cases, in conjunction with a significantly reduced processing time. Nevertheless, 27% of the patients received an indeterminate Likert score of 4. Overall, the mean DSCs were notably higher in the validation dataset than in the training dataset.ConclusionThis study supports the external validation of an open-source U-net model for the automated segmentation of the inner ear from CT scans.Relevance statementThis study optimized and assessed an open-source general deep learning model for automated segmentation of the inner ear using temporal CT scans, offering perspectives for application in clinical routine. The model weights, study datasets, and baseline model are worldwide accessible.Key pointsA general open-source deep learning model was trained for CT automated inner ear segmentation. The Dice similarity coefficient was 0.83 and a Likert score of 1 was attributed to 42% of automated segmentations. The influence of scanning protocols on the model performances remains to be assessed.

Dataset Information

Towards fully automated inner ear analysis with deep-learning-based joint segmentation and landmark detection framework.

Publications

Towards fully automated inner ear analysis with deep-learning-based joint segmentation and landmark detection framework.

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