@article{38c21490b65d48909bcb75cc77af17dc,
title = "Automatic segmentation of deep grey nuclei using a high-resolution 7T magnetic resonance imaging atlas—Quantification of T1 values in healthy volunteers",
abstract = "We present a new consensus atlas of deep grey nuclei obtained by shape-based averaging of manual segmentation of two experienced neuroradiologists and optimized from 7T MP2RAGE images acquired at (.6 mm)3 in 60 healthy subjects. A group-wise normalization method was used to build a high-contrast and high-resolution T1-weighted brain template (.5 mm)3 using data from 30 out of the 60 controls. Delineation of 24 deep grey nuclei per hemisphere, including the claustrum and 12 thalamic nuclei, was then performed by two expert neuroradiologists and reviewed by a third neuroradiologist according to tissue contrast and external references based on the Morel atlas. Corresponding deep grey matter structures were also extracted from the Morel and CIT168 atlases. The data-derived, Morel and CIT168 atlases were all applied at the individual level using non-linear registration to fit the subject reference and to extract absolute mean quantitative T1 values derived from the 3D-MP2RAGE volumes, after correction for residual B1+ biases. Three metrics (the Dice and the volumetric similarity coefficients and a novel Hausdorff distance) were used to estimate the inter-rater agreement of manual MRI segmentation and inter-atlas variability, and these metrics were measured to quantify biases due to image registration, and their impact on the measurements of the quantitative T1 values was highlighted. This represents a fully automated segmentation process permitting the extraction of unbiased normative T1 values in a population of young healthy controls as a reference for characterizing subtle structural alterations of deep grey nuclei relevant to a range of neurological diseases.",
author = "Gilles Brun and Benoit Testud and Girard, {Olivier M.} and Pierre Lehmann and {de Rochefort}, Ludovic and Pierre Besson and Aur{\'e}lien Massire and Ben Ridley and Nadine Girard and Maxime Guye and Ranjeva, {Jean Philippe} and {Le Troter}, Arnaud",
note = "Funding Information: The authors thank Dr Tobias Kober (Siemens Healthcare) for helpful discussions about the T mapping methodology with the MP2RAGE sequence. The authors thank Prof. Dr. Van Gool (Computer Vision Laboratory, ETH Z{\"u}rich) for providing access to the electronic Morel Atlas. The project leading to this publication has received funding from Excellence Initiative of Aix‐Marseille University ‐ A*MIDEX E&I 2013, a French {\textquoteleft}Investissements d'Avenir{\textquoteright} programme through the 7T‐AMISTART programme (grant A*M‐AAP‐EI‐13‐07‐130115‐08.38‐7T‐AMISTART‐HLS). This work was performed on the platform 7T‐AMI, a French {\textquoteleft}Investissements d'Avenir programme{\textquoteright} (grant ANR‐11‐EQPX‐0001). This work was performed by a laboratory member of the France Life Imaging network (grant ANR‐11‐INBS‐0006) and the Neuromarselle Institute (A*MIDEX). 1 i Funding Information: The authors thank Dr Tobias Kober (Siemens Healthcare) for helpful discussions about the T1 mapping methodology with the MP2RAGE sequence. The authors thank Prof. Dr. Van Gool (Computer Vision Laboratory, ETH Z{\"u}rich) for providing access to the electronic Morel Atlas. The project leading to this publication has received funding from Excellence Initiative of Aix-Marseille University - A*MIDEX E&I 2013, a French {\textquoteleft}Investissements d'Avenir{\textquoteright} programme through the 7T-AMISTART programme (grant A*M-AAP-EI-13-07-130115-08.38-7T-AMISTART-HLS). This work was performed on the platform 7T-AMI, a French {\textquoteleft}Investissements d'Avenir programme{\textquoteright} (grant ANR-11-EQPX-0001). This work was performed by a laboratory member of the France Life Imaging network (grant ANR-11-INBS-0006) and the Neuromarseille Institute (A*MIDEX). Publisher Copyright: {\textcopyright} 2021 Federation of European Neuroscience Societies and John Wiley & Sons Ltd.",
year = "2022",
month = jan,
doi = "10.1111/ejn.15575",
language = "English (US)",
volume = "55",
pages = "438--460",
journal = "European Journal of Neuroscience",
issn = "0953-816X",
publisher = "Wiley-Blackwell",
number = "2",
}