Open Meshed Anatomy: Towards a comprehensive finite element hexahedral mesh derived from open atlases (2402.14303v1)
Abstract: Computational simulations using methods such as the finite element (FE) method rely on high-quality meshes for achieving accurate results. This study introduces a method for creating a high-quality hexahedral mesh using the Open Anatomy Project's brain atlas. Our atlas-based FE hexahedral mesh of the brain mitigates potential inaccuracies and uncertainties due to segmentation - a process that often requires input of an inexperienced analyst. It accomplishes this by leveraging existing segmentation from the atlas. We further extend the mesh's usability by forming a two-way correspondence between the atlas and mesh. This feature facilitates property assignment for computational simulations and enhances result analysis within an anatomical context. We demonstrate the application of the mesh by solving the electroencephalography (EEG) forward problem. Our method simplifies the mesh creation process, reducing time and effort, and provides a more comprehensive and contextually enriched visualisation of simulation outcomes.
- Mfem: A modular finite element methods library. Computers & Mathematics with Applications 81, 42–74. doi:10.1016/j.camwa.2020.06.009.
- The electrical conductivity of human cerebrospinal fluid at body temperature. IEEE Transactions on Biomedical Engineering 44, 220–223. doi:10.1109/10.554770.
- The neuropathology of temporal lobe epilepsy. Modern Trends in Neurology 5, 254–270.
- Isogeometric Analysis: Toward Integration of CAD and FEA. 1 ed., Wiley. URL: https://onlinelibrary.wiley.com/doi/book/10.1002/9780470749081, doi:10.1002/9780470749081.
- Electrophysiological correlates of pathology and surgical results in temporal lobe epilepsy. Brain 98, 129–156. doi:10.1093/brain/98.1.129.
- 3d slicer as an image computing platform for the quantitative imaging network. Magnetic Resonance Imaging 30, 1323–1341. doi:10.1016/j.mri.2012.05.001.
- The specific resistance of biological material—a compendium of data for the biomedical engineer and physiologist. Medical & Biological Engineering 5, 271–293. doi:10.1007/BF02474537.
- Estimating brain conductivities and dipole source signals with eeg arrays. IEEE Transactions on Biomedical Engineering 51, 2113–2122. doi:10.1109/TBME.2004.836507.
- The open anatomy browser: A collaborative web-based viewer for interoperable anatomy atlases. Frontiers in Neuroinformatics 11. URL: http://journal.frontiersin.org/article/10.3389/fninf.2017.00022/full, doi:10.3389/fninf.2017.00022.
- Review on solving the forward problem in eeg source analysis. Journal of NeuroEngineering and Rehabilitation 4, 46. doi:10.1186/1743-0003-4-46.
- Sliceratlaseditor. URL: https://github.com/PerkLab/SlicerOpenAnatomy/tree/master/AtlasEditor.
- Electroencephalography in mesial temporal lobe epilepsy: A review. Epilepsy Research and Treatment 2012, 1–17. doi:10.1155/2012/637430.
- Slicercbm: automatic framework for biomechanical analysis of the brain. International Journal of Computer Assisted Radiology and Surgery URL: https://link.springer.com/10.1007/s11548-023-02881-7, doi:10.1007/s11548-023-02881-7.
- The visualization toolkit: an object-oriented approach to 3D graphics. 4. ed ed., Kitware, Inc, Clifton Park, NY.
- The verdict library reference manual .
- The influence of model parameters on eeg/meg single dipole source estimation. IEEE Transactions on Biomedical Engineering BME-34, 289–296. doi:10.1109/TBME.1987.326090.
- From finite element meshes to clouds of points: A review of methods for generation of computational biomechanics models for patient-specific applications. Annals of Biomedical Engineering 44, 3–15. doi:10.1007/s10439-015-1469-2.
- Patient-specific solution of the electrocorticography forward problem in deforming brain. NeuroImage 263, 119649. doi:10.1016/j.neuroimage.2022.119649.