by Lisa Schneider, Annika Niemann, Oliver Beuing, Bernhard Preim, Sylvia Saalfeld
Abstract:
Background and objective MeshCNN is a recently proposed Deep Learning framework that drew attention due to its direct operation on irregular, non-uniform 3D meshes. It outperformed state-of-the-art methods in classification and segmentation tasks of popular benchmarking datasets. The medical domain provides a large amount of complex 3D surface models that may benefit from processing with MeshCNN. However, several limitations prevent outstanding performances on highly diverse medical surface models. Within this work, we propose MedMeshCNN as an expansion dedicated to complex, diverse, and fine-grained medical data. Methods MedMeshCNN follows the functionality of MeshCNN with a significantly increased memory efficiency that allows retaining patient-specific properties during processing. Furthermore, it enables the segmentation of pathological structures that often come with highly imbalanced class distributions. Results MedMeshCNN achieved an Intersection over Union of 63.24\% on a highly complex part segmentation task of intracranial aneurysms and their surrounding vessel structures. Pathological aneurysms were segmented with an Intersection over Union of 71.4\%. Conclusions MedMeshCNN enables the application of MeshCNN on complex, fine-grained medical surface meshes. It considers imbalanced class distributions derived from pathological findings and retains patient-specific properties during processing.
Reference:
MedmeshCNN - Enabling meshcnn for medical surface models (Lisa Schneider, Annika Niemann, Oliver Beuing, Bernhard Preim, Sylvia Saalfeld), In Computer Methods and Programs in Biomedicine, volume 210, 2021.
Bibtex Entry:
@article{schneider_medmeshcnn_2021,
title = {{MedmeshCNN} - {Enabling} meshcnn for medical surface models},
volume = {210},
issn = {0169-2607},
url = {https://www.sciencedirect.com/science/article/pii/S0169260721004466},
doi = {https://doi.org/10.1016/j.cmpb.2021.106372},
abstract = {Background and objective MeshCNN is a recently proposed Deep Learning framework that drew attention due to its direct operation on irregular, non-uniform 3D meshes. It outperformed state-of-the-art methods in classification and segmentation tasks of popular benchmarking datasets. The medical domain provides a large amount of complex 3D surface models that may benefit from processing with MeshCNN. However, several limitations prevent outstanding performances on highly diverse medical surface models. Within this work, we propose MedMeshCNN as an expansion dedicated to complex, diverse, and fine-grained medical data. Methods MedMeshCNN follows the functionality of MeshCNN with a significantly increased memory efficiency that allows retaining patient-specific properties during processing. Furthermore, it enables the segmentation of pathological structures that often come with highly imbalanced class distributions. Results MedMeshCNN achieved an Intersection over Union of 63.24\% on a highly complex part segmentation task of intracranial aneurysms and their surrounding vessel structures. Pathological aneurysms were segmented with an Intersection over Union of 71.4\%. Conclusions MedMeshCNN enables the application of MeshCNN on complex, fine-grained medical surface meshes. It considers imbalanced class distributions derived from pathological findings and retains patient-specific properties during processing.},
journal = {Computer Methods and Programs in Biomedicine},
author = {Schneider, Lisa and Niemann, Annika and Beuing, Oliver and Preim, Bernhard and Saalfeld, Sylvia},
year = {2021},
keywords = {convolutional neural network, Geometric deep learning, intracranial aneurysms, Mesh processing, Shape segmentation, Surface models},
pages = {106372}
}