1. Tractogram Filtering of Anatomically Non-plausible Fibers with Geometric Deep Learning
- Author
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Ruben Verhagen, Pietro Astolfi, Laurent Petit, Paolo Avesani, Davide Boscaini, Jonathan Masci, Emanuele Olivetti, NeuroInformatics Laboratory of Bruno Kessler Foundation (NILab), Università degli Studi di Trento (UNITN), Center for Mind/Brain Sciences (CIMEC), University of Trento [Trento], PAVIS, Italian Institute of Technology, Genova, Groupe d'imagerie neurofonctionnelle (GIN), Institut des Maladies Neurodégénératives [Bordeaux] (IMN), Université de Bordeaux (UB)-Centre National de la Recherche Scientifique (CNRS)-Université de Bordeaux (UB)-Centre National de la Recherche Scientifique (CNRS)-Commissariat à l'énergie atomique et aux énergies alternatives (CEA), NNAISENSE SA, Technologies of Vision (TeV), Bruno Kessler Foundation, Trento, Commissariat à l'énergie atomique et aux énergies alternatives (CEA)-Institut des Maladies Neurodégénératives [Bordeaux] (IMN), and Université de Bordeaux (UB)-Centre National de la Recherche Scientifique (CNRS)-Université de Bordeaux (UB)-Centre National de la Recherche Scientifique (CNRS)
- Subjects
0301 basic medicine ,business.industry ,Signal reconstruction ,Computer science ,Deep learning ,Point cloud ,Pattern recognition ,Convolution ,[INFO.INFO-AI]Computer Science [cs]/Artificial Intelligence [cs.AI] ,White matter ,03 medical and health sciences ,030104 developmental biology ,0302 clinical medicine ,medicine.anatomical_structure ,medicine ,Artificial intelligence ,Enhanced Data Rates for GSM Evolution ,[INFO.INFO-BI]Computer Science [cs]/Bioinformatics [q-bio.QM] ,business ,030217 neurology & neurosurgery - Abstract
International audience; Tractograms are virtual representations of the white matter fibers of the brain. They are of primary interest for tasks like presur-gical planning, and investigation of neuroplasticity or brain disorders. Each tractogram is composed of millions of fibers encoded as 3D poly-lines. Unfortunately, a large portion of those fibers are not anatomically plausible and can be considered artifacts of the tracking algorithms. Common methods for tractogram filtering are based on signal reconstruction, a principled approach, but unable to consider the knowledge of brain anatomy. In this work, we address the problem of tractogram filtering as a supervised learning problem by exploiting the ground truth annotations obtained with a recent heuristic method, which labels fibers as either anatomically plausible or non-plausible according to well-established anatomical properties. The intuitive idea is to model a fiber as a point cloud and the goal is to investigate whether and how a geometric deep learning model might capture its anatomical properties. Our contribution is an extension of the Dynamic Edge Convolution model that exploits the sequential relations of points in a fiber and discriminates with high accuracy plausible/non-plausible fibers.
- Published
- 2020
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