Segmentation of supragranular and infragranular layers in ultra-high resolution 7T ex vivo MRI of the human cerebral cortex.

Autor:	Zeng X; Department of Radiology, Athinoula A. Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, USA.; Harvard Medical School, Department of Radiology, Boston, MA, USA., Puonti O; Department of Radiology, Athinoula A. Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, USA.; Danish Research Centre for Magnetic Resonance, Centre for Functional and Diagnostic Imaging and Research, Copenhagen University Hospital - Amager and Hvidovre, Copenhagen, Denmark., Sayeed A; Department of Radiology, Athinoula A. Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, USA.; Harvard Medical School, Department of Radiology, Boston, MA, USA., Herisse R; Department of Radiology, Athinoula A. Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, USA.; Harvard Medical School, Department of Radiology, Boston, MA, USA., Mora J; Department of Radiology, Athinoula A. Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, USA.; Harvard Medical School, Department of Radiology, Boston, MA, USA., Evancic K; Department of Radiology, Athinoula A. Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, USA.; Harvard Medical School, Department of Radiology, Boston, MA, USA., Varadarajan D; Department of Radiology, Athinoula A. Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, USA.; Harvard Medical School, Department of Radiology, Boston, MA, USA., Balbastre Y; Department of Radiology, Athinoula A. Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, USA.; Harvard Medical School, Department of Radiology, Boston, MA, USA., Costantini I; National Research Council - National Institute of Optics (CNR-INO), Sesto Fiorentino, Italy.; European Laboratory for Non-Linear Spectroscopy (LENS), Sesto Fiorentino, Italy.; Department of Biology, University of Florence, Italy., Scardigli M; European Laboratory for Non-Linear Spectroscopy (LENS), Sesto Fiorentino, Italy., Ramazzotti J; European Laboratory for Non-Linear Spectroscopy (LENS), Sesto Fiorentino, Italy., DiMeo D; European Laboratory for Non-Linear Spectroscopy (LENS), Sesto Fiorentino, Italy., Mazzamuto G; National Research Council - National Institute of Optics (CNR-INO), Sesto Fiorentino, Italy.; European Laboratory for Non-Linear Spectroscopy (LENS), Sesto Fiorentino, Italy.; Department of Physics and Astronomy, University of Florence, Italy., Pesce L; European Laboratory for Non-Linear Spectroscopy (LENS), Sesto Fiorentino, Italy., Brady N; European Laboratory for Non-Linear Spectroscopy (LENS), Sesto Fiorentino, Italy., Cheli F; European Laboratory for Non-Linear Spectroscopy (LENS), Sesto Fiorentino, Italy., Pavone FS; National Research Council - National Institute of Optics (CNR-INO), Sesto Fiorentino, Italy.; European Laboratory for Non-Linear Spectroscopy (LENS), Sesto Fiorentino, Italy.; Department of Physics and Astronomy, University of Florence, Italy., Hof PR; Nash Family Department of Neuroscience and Friedman Brain Institute, Icahn School of Medicine at Mount Sinai, New York, NY, USA., Frost R; Department of Radiology, Athinoula A. Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, USA.; Harvard Medical School, Department of Radiology, Boston, MA, USA., Augustinack J; Department of Radiology, Athinoula A. Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, USA.; Harvard Medical School, Department of Radiology, Boston, MA, USA., van der Kouwe A; Department of Radiology, Athinoula A. Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, USA.; Harvard Medical School, Department of Radiology, Boston, MA, USA., Iglesias JE; Department of Radiology, Athinoula A. Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, USA.; Harvard Medical School, Department of Radiology, Boston, MA, USA., Fischl B; Department of Radiology, Athinoula A. Martinos Center for Biomedical Imaging, Massachusetts General Hospital, Charlestown, MA, USA.; Harvard Medical School, Department of Radiology, Boston, MA, USA.
Jazyk:	angličtina
Zdroj:	BioRxiv : the preprint server for biology [bioRxiv] 2023 Dec 08. Date of Electronic Publication: 2023 Dec 08.
DOI:	10.1101/2023.12.06.570416
Abstrakt:	Accurate labeling of specific layers in the human cerebral cortex is crucial for advancing our understanding of neurodevelopmental and neurodegenerative disorders. Leveraging recent advancements in ultra-high resolution ex vivo MRI, we present a novel semi-supervised segmentation model capable of identifying supragranular and infragranular layers in ex vivo MRI with unprecedented precision. On a dataset consisting of 17 whole-hemisphere ex vivo scans at 120 μ m, we propose a multi-resolution U-Nets framework (MUS) that integrates global and local structural information, achieving reliable segmentation maps of the entire hemisphere, with Dice scores over 0.8 for supra- and infragranular layers. This enables surface modeling, atlas construction, anomaly detection in disease states, and cross-modality validation, while also paving the way for finer layer segmentation. Our approach offers a powerful tool for comprehensive neuroanatomical investigations and holds promise for advancing our mechanistic understanding of progression of neurodegenerative diseases. Competing Interests: Competing interests BF has a financial interest in CorticoMetrics, a company whose medical pursuits focus on brain imaging and measurement technologies. BF’s interests were reviewed and are managed by Massachusetts General Hospital and Partners HealthCare in accordance with their conflict of interest policies.
Databáze:	MEDLINE
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