<scp>HybraPD</scp> atlas: Towards precise subcortical nuclei segmentation using multimodality medical images in patients with Parkinson disease

Yu, Boliang; Li, Ling; Guan, Xiaojun; Xu, Xiaojun; Liu, Xueling; Yang, Qing; Wei, Hongjiang; Zuo, Chuantao; Zhang, Yuyao

doi:10.1002/hbm.25556

Cited by 18 publications

(8 citation statements)

References 82 publications

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“…Our atlases consist of T1w and T2w intensity images, tissue segmentation maps of GM, WM, and CSF, and white and pial surfaces for every month between 2 weeks and 24 months. Our atlases are substantially better in preserving anatomical details and surface geometric features than ANTs 35, 50, 51 and Spherical Demons 34, 52 .…”

Section: Discussionmentioning

confidence: 90%

Multifaceted Atlases of the Human Brain in its Infancy

Ahmad

et al. 2022

Preprint

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Brain atlases agglomerate structural and functional features of a population of individuals in a standard coordinate space. Here, we introduce for the first time a collection of atlases that charts postnatal development of the human brain in a spatio-temporally dense manner from two weeks to two years of age. Atlases capturing month-to-month changes of the human brain are essentially nonexistent for the first two years of life --- the critical developmental period during which the brain is evolving in virtually all facets at an exponential pace. This unmet need is compounded by the lack of atlases that provide a unified and holistic picture of the brain from both the perspectives of cortical surface convolutions and tissue volumetric characteristics. Existing surface and volumetric atlases are typically constructed independently in different coordinate spaces, causing discrepancies and complications in multifaceted analyses. Our month-specific conjoint surface and volumetric atlases chart normative patterns and capture key traits of early brain development and are therefore critical for identifying aberrations from normal developmental trajectories. Our atlases represent a major advance toward providing the neuroscience community an invaluable resource to facilitate the understanding of early structural and functional development by mapping multiple measurements of infant brains in a common reference frame for precise spatio-temporal quantification of cortical and subcortical changes.

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Section: Discussionmentioning

confidence: 90%

Multifaceted Atlases of the Human Brain in its Infancy

Ahmad

et al. 2022

Preprint

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“…These atlases represent a resource that will facilitate the joint investigation of changes in cortical geometries and brain tissues during a period of rapid and critical brain development. Our atlases are substantially better in preserving anatomical details and surface geometric features than ANTs 21,30 and Spherical Demons 20,31 .…”

Section: Discussionmentioning

confidence: 93%

Multifaceted atlases of the human brain in its infancy

Ahmad

et al. 2022

Nat Methods

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Brain atlases are spatial references for integrating, processing, and analyzing brain features gathered from different individuals, sources, and scales. Here we introduce a collection of joint surface–volume atlases that chart postnatal development of the human brain in a spatiotemporally dense manner from two weeks to two years of age. Our month-specific atlases chart normative patterns and capture key traits of early brain development and are therefore conducive to identifying aberrations from normal developmental trajectories. These atlases will enhance our understanding of early structural and functional development by facilitating the mapping of diverse features of the infant brain to a common reference frame for precise multifaceted quantification of cortical and subcortical changes.

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“…By integrating various MR measurements, including those reflecting dopaminergic neuron loss, α-synuclein aggregation, and iron deposition-induced neuroinflammation, multiple qMRI researches have been conducted [ 1 , 9 , 11 , 20 , 21 ]. Data-driven methods would effectively maximize the amount of complementary information derived from multiple quantitative MRI measurements [ 20 , 22 ] Moreover, we segmented the subcortical nuclei by applying the HybraPD atlas, which was generated by using fused multimodal MR images and provided manually delineated 12 pairs of bilateral subcortical nuclei that are highly related to PD pathology [ 6 ]. The MULTIPLEX method acquired multi-contrast information in the PD-specifical parcellated subcortical structures parallelly showed advantages in detecting early alterations of brain microstructure and in better understanding the pathology heterogeneity of PD.…”

Section: Discussionmentioning

confidence: 99%

“…The T1 map was non-linearly registered to the standard Montreal Neurological Institute coordinate space (the ICBM152 template), using the Advanced Normalization Tools. The HybraPD atlas provides a fine parcellation of subcortical nuclei with accurate external boundary definitions for PD patients [ 6 ] In the standard space, it consists of 12 pairs human brain subcortical nuclei: putamen (Pu), caudate nucleus (CN), nucleus accumbens (NAC), ventral pallidum (VeP), internal and external globus pallidus (GPi and GPe), pars reticulata and pars compacta of substantia nigra (SNr and SNc), red nucleus (RN), subthalamic nucleus (STN), habenular nuclei (HN), and thalamus (Thal). Through the inverse non-linear transformation, all the subcortical nuclei were located in the subject’s space on corresponding T1, T2*, proton density, and QSM images.…”

Section: Methodsmentioning

confidence: 99%

A rapid multi-parametric quantitative MR imaging method to assess Parkinson’s disease: a feasibility study

Duan,

Pan,

Gao

et al. 2024

BMC Med Imaging

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Background MULTIPLEX is a single-scan three-dimensional multi-parametric MRI technique that provides 1 mm isotropic T1-, T2*-, proton density- and susceptibility-weighted images and the corresponding quantitative maps. This study aimed to investigate its feasibility of clinical application in Parkinson’s disease (PD). Methods 27 PD patients and 23 healthy control (HC) were recruited and underwent a MULTIPLEX scanning. All image reconstruction and processing were automatically performed with in-house C + + programs on the Automatic Differentiation using Expression Template platform. According to the HybraPD atlas consisting of 12 human brain subcortical nuclei, the region-of-interest (ROI) based analysis was conducted to extract quantitative parameters, then identify PD-related abnormalities from the T1, T2* and proton density maps and quantitative susceptibility mapping (QSM), by comparing patients and HCs. Results The ROI-based analysis revealed significantly decreased mean T1 values in substantia nigra pars compacta and habenular nuclei, mean T2* value in subthalamic nucleus and increased mean QSM value in subthalamic nucleus in PD patients, compared to HCs (all p values < 0.05 after FDR correction). The receiver operating characteristic analysis showed all these four quantitative parameters significantly contributed to PD diagnosis (all p values < 0.01 after FDR correction). Furthermore, the two quantitative parameters in subthalamic nucleus showed hemicerebral differences in regard to the clinically dominant side among PD patients. Conclusions MULTIPLEX might be feasible for clinical application to assist in PD diagnosis and provide possible pathological information of PD patients’ subcortical nucleus and dopaminergic midbrain regions.

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HybraPD atlas: Towards precise subcortical nuclei segmentation using multimodality medical images in patients with Parkinson disease

Cited by 18 publications

References 82 publications

Multifaceted Atlases of the Human Brain in its Infancy

Multifaceted Atlases of the Human Brain in its Infancy

Multifaceted atlases of the human brain in its infancy

A rapid multi-parametric quantitative MR imaging method to assess Parkinson’s disease: a feasibility study

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