Im2mesh: A Python Library to Reconstruct 3D Meshes from Scattered Data and 2D Segmentations, Application to Patient-Specific Neuroblastoma Tumour Image Sequences

The future of personalised medicine lies in the development of increasingly sophisticated digital twins, where the patient-specific data is fed into predictive computational models that support the decisions of clinicians on the best therapies or course actions to treat the patient’s afflictions. Th...

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Vydáno v:Applied sciences Ročník 12; číslo 22; s. 11557
Hlavní autoři: Sainz-DeMena, Diego, García-Aznar, José Manuel, Pérez, María Ángeles, Borau, Carlos
Médium: Journal Article
Jazyk:angličtina
Vydáno: Basel MDPI AG 01.11.2022
Témata:
Algorithms
Artificial intelligence
Cancer
Decision making
Decision support systems
Geometry
Growth models
Magnetic resonance imaging
medical image
Medical imaging
mesh generation
Neuroblastoma
patient-specific computational modelling
Precision medicine
python library
slice interpolation
Software
Tomography
ISSN:2076-3417, 2076-3417
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Abstract The future of personalised medicine lies in the development of increasingly sophisticated digital twins, where the patient-specific data is fed into predictive computational models that support the decisions of clinicians on the best therapies or course actions to treat the patient’s afflictions. The development of these personalised models from image data requires a segmentation of the geometry of interest, an estimation of intermediate or missing slices, a reconstruction of the surface and generation of a volumetric mesh and the mapping of the relevant data into the reconstructed three-dimensional volume. There exist a wide number of tools, including both classical and artificial intelligence methodologies, that help to overcome the difficulties in each stage, usually relying on the combination of different software in a multistep process. In this work, we develop an all-in-one approach wrapped in a Python library called im2mesh that automatizes the whole workflow, which starts reading a clinical image and ends generating a 3D finite element mesh with the interpolated patient data. In this work, we apply this workflow to an example of a patient-specific neuroblastoma tumour. The main advantages of our tool are its straightforward use and its easy integration into broader pipelines.
AbstractList The future of personalised medicine lies in the development of increasingly sophisticated digital twins, where the patient-specific data is fed into predictive computational models that support the decisions of clinicians on the best therapies or course actions to treat the patient’s afflictions. The development of these personalised models from image data requires a segmentation of the geometry of interest, an estimation of intermediate or missing slices, a reconstruction of the surface and generation of a volumetric mesh and the mapping of the relevant data into the reconstructed three-dimensional volume. There exist a wide number of tools, including both classical and artificial intelligence methodologies, that help to overcome the difficulties in each stage, usually relying on the combination of different software in a multistep process. In this work, we develop an all-in-one approach wrapped in a Python library called im2mesh that automatizes the whole workflow, which starts reading a clinical image and ends generating a 3D finite element mesh with the interpolated patient data. In this work, we apply this workflow to an example of a patient-specific neuroblastoma tumour. The main advantages of our tool are its straightforward use and its easy integration into broader pipelines.
Author Sainz-DeMena, Diego
García-Aznar, José Manuel
Borau, Carlos
Pérez, María Ángeles
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SubjectTerms Algorithms
Artificial intelligence
Cancer
Decision making
Decision support systems
Geometry
Growth models
Magnetic resonance imaging
medical image
Medical imaging
mesh generation
Neuroblastoma
patient-specific computational modelling
Precision medicine
python library
slice interpolation
Software
Tomography
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Title Im2mesh: A Python Library to Reconstruct 3D Meshes from Scattered Data and 2D Segmentations, Application to Patient-Specific Neuroblastoma Tumour Image Sequences
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