Framework of the Brainnetome Atlas construction based on connectivity-based parcellation. (A) Initial parcellation using automatic surface parcellation and subcortical segmentation. The FreeSurfer DK atlas produced the initial parcellations based on gyri and sulci. (B) Tractography-based parcellation with in vivo connectional architecture. Taking the parcellation of the human paracentral lobule by diffusion tensor imaging as an example, the paracentral lobule was first extracted from the DK atlas. The connectional architecture was then mapped with probabilistic tractography using diffusion MRI, after which, by calculating the similarity/dissimilarity between the connectivity architecture, the paracentral lobule was divided into subregions with distinguishing anatomical connectivity patterns. The stability across the population and the interhemispheric anatomic homology were evaluated to determine the final cluster number. (C) Subregional anatomical and functional connections and functional behavioral decoding. Diffusion MRI combined with tractography was used to reconstruct the major fiber bundles, while functional connectivity analysis of resting-state functional MRI was used to provide the in vivo large-scale connectivity in the human brain. We also mapped the functions to each paracentral lobule subregion via the behavioral domain and paradigm analysis using the BrainMap Database.
Basal Ganglia
The basal ganglia are a group of subcortical nuclei in the brain that play a key role in motor control, learning, and cognition.
This interconnected system includes structures such as the striatum, globus pallidus, substantia nigra, and subthalamic nucleus.
The basal ganglia are involved in a variety of functions, including the initiation and modulation of voluntary movement, habit formation, procedural learning, and certain aspects of cognition and emotion.
Dysfunction of the basal ganglia is implicated in movement disorders like Parkinson's disease, Huntington's disease, and dystonia, as well as some psychiatric conditions.
Reserarch in this field continues to uncover the complexe neurobiological mechanisms underlying the basal ganglia's diverse roles in health and disease.
This interconnected system includes structures such as the striatum, globus pallidus, substantia nigra, and subthalamic nucleus.
The basal ganglia are involved in a variety of functions, including the initiation and modulation of voluntary movement, habit formation, procedural learning, and certain aspects of cognition and emotion.
Dysfunction of the basal ganglia is implicated in movement disorders like Parkinson's disease, Huntington's disease, and dystonia, as well as some psychiatric conditions.
Reserarch in this field continues to uncover the complexe neurobiological mechanisms underlying the basal ganglia's diverse roles in health and disease.
Most cited protocols related to «Basal Ganglia»
First, each subject's T1 image was parcellated into 34 cortical regions of interest (ROIs) per hemisphere and 14 subcortical ROIs based on the Desikan–Killiany (DK) atlas (Desikan et al. 2006 (link)). We then combined ROIs representing (arbitrary) subdivisions of a larger gyrus as well as those whose boundaries are determined by sulci that are highly variable (cf. Supplementary Table 1 ). In addition, we combined the basal ganglia into a single region of interest for subsequent parcellation (Tziortzi et al. 2014 (link)). The full name and abbreviation of each initial cortical and subcortical seed mask are listed in Supplementary Table 1 . All the cortical and subcortical volumetric ROIs were extracted in MNI space based on the preprocessed individual structural data. These initial seed masks in each subject were then used to create population probability maps that were binarized using a threshold of 25% to obtain the volumetric ROIs. These ensuing masks were used as a starting point for the connectivity-based parcellation analysis (Fig. 1 A).
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Basal Ganglia
Brain
Cortex, Cerebral
Diffusion Magnetic Resonance Imaging
Fibrosis
fMRI
Homo sapiens
Microtubule-Associated Proteins
All MRIs were assessed blinded to clinical information by one experienced neuroradiologist for the presence, location, and size of the recent symptomatic infarct and any other vascular lesions. A recent infarct was defined as a hyperintense area on DWI with corresponding reduced signal on the apparent diffusion coefficient image, with or without increased signal on FLAIR or T2-weighted imaging, that corresponded with a typical vascular territory.18 Recent small subcortical (lacunar) infarcts were defined as rounded or ovoid lesions with signal characteristics as above, >3- but <20-mm diameter, in the basal ganglia, internal capsule, centrum semiovale, or brainstem and carefully distinguished from WMH.1 (link) Cortical infarcts were defined as infarcts involving cortical ± adjacent subcortical tissue, or large (>2-cm) striatocapsular/subcortical lesions.14 (link) Lacunes were defined as rounded or ovoid lesions, >3- and <20-mm diameter, in the basal ganglia, internal capsule, centrum semiovale, or brainstem, of CSF signal intensity on T2 and FLAIR, generally with a hyperintense rim on FLAIR and no increased signal on DWI.14 (link) Microbleeds were defined as small (<5 mm), homogeneous, round foci of low signal intensity on gradient echo images in cerebellum, brainstem, basal ganglia, white matter, or cortico-subcortical junction, differentiated from vessel flow voids and mineral depositions in the globi pallidi.14 (link) Deep and periventricular WMH were both coded according to the Fazekas scale from 0 to 3.19 (link) We defined PVS as small (<3 mm) punctate (if perpendicular) and linear (if longitudinal to the plane of scan) hyperintensities on T2 images in the basal ganglia or centrum semiovale, and they were rated on a previously described, validated semiquantitative scale from 0 to 4.7 (link) Cerebral atrophy was classified for both deep (enlargement of the ventricles) and superficial (enlargement of the sulci) components on a 4-point scale (absent, mild, moderate, severe) in study 1, and on a modified 6-point version of the same scale in study 2.20 (link) The atrophy grade is determined by comparison with templates indicating normal to atrophied brains obtained in research into normal subjects on our scanner.20 (link) To merge the data from both studies, we condensed study 2's version to 4 categories (1 absent, 2–3 mild, 4 moderate, 5–6 severe). The intraclass correlation coefficient for WMH intraobserver rating (100 scans) was 0.96. The intrarater κ for PVS (50 scans) was 0.80 to 0.90 (unpublished data), for lacunes was 0.85 (unpublished data), and for microbleeds was 0.68 to 0.78.21 (link)
Basal Ganglia
Blood Vessel
Brain
Brain Stem
Cerebellum
Cortex, Cerebral
Diffusion
ECHO protocol
Globus Pallidus
Heart Ventricle
Hypertrophy
Infarction
Infarction, Lacunar
Internal Capsule
Magnetic Resonance Imaging
Minerals
Radionuclide Imaging
Tissues
Urination
White Matter
Based on the recently described score,12 (link) we rated the total MRI burden of SVD on an ordinal scale from 0 to 4, by counting the presence of each of the 4 MRI features of SVD. A point was awarded for each of the following (figure ): presence of lacunes and CMBs were defined as the presence of one or more lacunes (1 point if present) or any CMB (1 point if present). Presence of PVS was counted if there were moderate to severe (grade 2–4) PVS in the basal ganglia (1 point if present). Presence of WMH was defined as either (early) confluent deep WMH (Fazekas score 2 or 3) or irregular periventricular WMH extending into the deep white matter (Fazekas score 3) (1 point if present).
Because WMH are the most frequently described SVD feature in the literature,14 (link) we tested the effect of different cutpoints in the WMH score by lowering the cutoff of deep WMH to Fazekas score 1, 2, or 3 (punctate or [early] confluent areas), and of periventricular WMH to Fazekas score 2 or 3 (halo or extending into the deep white matter). We then calculated 2 alternative total SVD scores with these lowered deep or lowered periventricular WMH definitions.
Because WMH are the most frequently described SVD feature in the literature,14 (link) we tested the effect of different cutpoints in the WMH score by lowering the cutoff of deep WMH to Fazekas score 1, 2, or 3 (punctate or [early] confluent areas), and of periventricular WMH to Fazekas score 2 or 3 (halo or extending into the deep white matter). We then calculated 2 alternative total SVD scores with these lowered deep or lowered periventricular WMH definitions.
Basal Ganglia
White Matter
Two experienced neuroradiologists (JMW, ZM), blinded to the other's ratings and not involved in the initial testing of published scales or development of the revised scale, tested the modified PVS rating scale by each rating 60 T2-weighted MR scans (with T1-weighted and FLAIR imaging also available), selected from the archives of the Brain Research Imaging Centre to represent a range of PVS, white matter hyperintensities and atrophy, from studies of ageing and minor stroke, on two separate occasions. For the basal ganglia and centrum semiovale PVS were rated from 0 (none), 1 (1–10), 2 (11–20), 3 (21–40), and 4 (>40), using an overall score for both hemispheres by assessing and scoring each hemisphere separately and then using the hemisphere with the higher score where hemispheres were asymmetric. Midbrain PVS were rated 0 (none visible) or 1 (visible). Images were reviewed by each rater in a random order using a web-based random number service (RANDOM.ORG) on each occasion, at least one week apart. MRI scans were chosen to represent a range of few to many PVS from older subjects scanned in research studies on SVD at the Brain Research Imaging Centre and assessed digitally on a high-definition screen using the National Kodak Picture Archiving and Communication System.
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Atrophy
Basal Ganglia
Brain
Cerebrovascular Accident
Mesencephalon
MRI Scans
White Matter
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A-192
Basal Ganglia
Epistropheus
Fingers
Foot
Head
Human Body
Motor Cortex
Movement
Nervousness
Occipital Lobe
Precentral Gyrus
Precipitating Factors
Supplementary Motor Area
TRIO protein, human
Most recents protocols related to «Basal Ganglia»
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Basal Ganglia
Brain Stem
Care, Prenatal
Cell Nucleus
Cerebellum
Cerebral Hemispheres
Cortex, Cerebral
Gray Matter
Heart Ventricle
Neurologists
Ventricle, Lateral
Ventricles, Fourth
Ventricles, Third
Vermis, Cerebellar
White Matter
One hundred and forty patients with cerebral infarction treated in the Department of Rehabilitation Medicine of Beijing Tiantan Hospital between January 2021 and August 2022 were enrolled as a study group. Another one hundred and forty healthy people were collected as a control group. There were no significant differences in age, gender, height, or weight (Table 1 ). This study was approved by the ethics committee of Beijing Tiantan Hospital, Capital Medical University (KY2021-040-02).
The inclusion criteria were: (1) age 40–70 years old, (2) primary basal ganglia area cerebral infarction diagnosed by magnetic resonance imaging or computed tomography, (3) the onset of the disease was >1 month ago, (4) no sensory impairments, (5) no serious cognitive dysfunction (Mini-Mental State Examination score >26), (6) could walk 10 m or more independently, and (7) provided a signed informed consent form.
The exclusion criteria were: (1) cerebrovascular disease progression and unstable vital signs; (2) other neurological or mental diseases, such as stroke, brain trauma, or Parkinson’s disease; (3) severe heart, lung, liver, or kidney dysfunction; (4) sensory aphasia, cognitive impairment, or unable to cooperate with the evaluation and examination; (5) fractures and arthritis affecting the walking function of patients; or (6) proprioception disorders.
The suspension criteria were: (1) severe adverse reactions or inability to continue, (2) deterioration of the condition or serious complications, (3) failure to cooperate and to receive required treatment, or (4) patients and their families requesting withdrawal from the study.
The inclusion criteria were: (1) age 40–70 years old, (2) primary basal ganglia area cerebral infarction diagnosed by magnetic resonance imaging or computed tomography, (3) the onset of the disease was >1 month ago, (4) no sensory impairments, (5) no serious cognitive dysfunction (Mini-Mental State Examination score >26), (6) could walk 10 m or more independently, and (7) provided a signed informed consent form.
The exclusion criteria were: (1) cerebrovascular disease progression and unstable vital signs; (2) other neurological or mental diseases, such as stroke, brain trauma, or Parkinson’s disease; (3) severe heart, lung, liver, or kidney dysfunction; (4) sensory aphasia, cognitive impairment, or unable to cooperate with the evaluation and examination; (5) fractures and arthritis affecting the walking function of patients; or (6) proprioception disorders.
The suspension criteria were: (1) severe adverse reactions or inability to continue, (2) deterioration of the condition or serious complications, (3) failure to cooperate and to receive required treatment, or (4) patients and their families requesting withdrawal from the study.
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Arthritis
Basal Ganglia
Cerebral Infarction
Cerebrovascular Accident
Cerebrovascular Disorders
Disease Progression
Disorders, Cognitive
Ethics Committees, Clinical
Fracture, Bone
Gender
Heart
Involuntary Treatment
Kidney Failure
Liver
Lung
Mini Mental State Examination
Patients
Proprioceptive Disorders
Psychotic Disorders
Receptive Aphasia
Signs, Vital
Traumatic Brain Injury
X-Ray Computed Tomography
A total of seven HIV+ (n = 7) and four seronegative (n = 4) post-mortem tissues were used in this study. All 4 of the seronegative tissues and 4 of the HIV+ tissues (formalin-fixed and paraffin-embedded posterior basal ganglia tissues) were obtained from the National NeuroAIDS Tissue Consortium. All patient data were coded, and tissues were handled per NIH guidelines to protect patient identities. Details of tissue collection and processing can be obtained from the National NeuroAIDS Tissue Consortium website (https://nntc.org/query/tool ). Three additional tissue samples containing the tail of the caudate nucleus were obtained from post-mortems performed in Kampala, Uganda from 2017 to 2018 on a cohort of Ugandans with known HIV. Written informed consent was obtained from next of kin under a protocol approved by the Research Ethics Committee of Mulago National Referral Hospital. The tissues were collected within a median post-mortem interval of 4.7 h, snap-frozen, shipped to the United States, and stored at −80oC until use. Two (2) of the 7 HIV+ tissues were obtained from female subjects. Additional case-specific information on all human tissues used in the current study is detailed in Table 1 .
Autopsy
Basal Ganglia
Ethics Committees, Research
Formalin
Freezing
Homo sapiens
Hospital Referral
Nucleus, Caudate
Paraffin
Patients
Tail
Tissues
Woman
Paraffin-embedded tissues from the posterior basal ganglia (primarily, the caudate and putamen) of HIV+ and seronegative individuals were dewaxed and rehydrated in xylene (100%; 3 × 10 min), ethanol (100%; 2 × 10 min, 95%; 2 × 5 min, 70%; 2 × 5 min, 50%; 2 × 5 min), and dH2O (2 × 5 min) prior to immunofluorescence assay. Snap-frozen tissues were embedded in O.C.T compound, sectioned, and postfixed (with ice-cold 4% paraformaldehyde for 20 min) prior to use. All tissues (12–18 μm-thick) were heated (at 50% microwave power for 3 min) in Tris-based antigen unmasking solution (pH 9.0, # H3301, Vector Laboratories, Burlingame, CA), followed by permeabilization in a neutral pH phosphate-buffered saline (PBS) containing 0.25% Triton X 100. Tissue sections were incubated (2 h) in Animal-Free Blocker® and Diluent solution (# SP-5035-100, Vector Laboratories) and then incubated overnight (at 4oC) in primary antibodies for the 32 kDa dopamine- and cAMP-regulated neuronal phosphoprotein (DARPP-32) (1:200, # sc271111 AF647, Santa Cruz, Dallas, TX), TDP-43 (1:100, # 67345, Proteintech, Rosemont, IL), phospho-TDP-43 Ser409/410 (pTDP-43) (1:100, # 66318, Proteintech), CK2 (1:100, #10992, Proteintech), and CK1δ (1:100, #14388, Proteintech) followed by a 1 h incubation in species-specific secondary antibodies. Autofluorescence in tissue sections was eliminated using ReadyProbes Tissue Autofluorescence Quenching Kit (#R37630, Thermo Fisher, Waltham, MA) per the manufacturer's instructions. Mean fluorescence/pixel intensity values for pTDP-43, TDP-43, CK2, and CK1δ (corresponding to the level of immunostaining) were acquired in optical sections using confocal microscopy and measured in the cytoplasm and nuclear compartments using CellProfilerTM software (V 6.1) (Broad Institute, Cambridge, MA) (see supplementary Figure 1 for details on the CellProfilerTM workflow). At least 300 Hoechst+ cells were analyzed for each subject.
Alexa Fluor 647
Animals
Antibodies
Antigens
Basal Ganglia
Cells
Cloning Vectors
Cold Temperature
Cytoplasm
Dopamine
Dopamine and cAMP-Regulated Phosphoprotein 32
Ethanol
Fluorescence
Freezing
Immunofluorescence
Microscopy, Confocal
Microwaves
Neurons
Paraffin Embedding
paraform
Phosphates
Phosphoproteins
protein TDP-43, human
Putamen
Saline Solution
Tissues
Triton X-100
Tromethamine
Xylene
All patients' clinical data were reviewed including general characteristics (age, sex, smoking or drinking habits, previous functional status, and comorbidities), clinical characteristics upon admission (vital signs, blood pressure, pupillary abnormalities, GCS score, and emergency treatment), laboratory data, radiological findings upon admission or during hospitalization, treatment, and outcomes. Clinical data during hospitalization referred to the examination data from admission to hospital discharge when people have recovered sufficiently or can be appropriately rehabilitated elsewhere or died, except for the first data upon admission.
Upon admission to the emergency department, head CT plain scans were performed to assess the severity of the disease. The features evaluated on CT included the location and the extension of hemorrhage, hematoma volume, and the presence of hydrocephalus. Lesions located entirely within the cerebellum, the thalamus, the basal ganglia, or the ventricle were excluded, but lesions extending into these regions from the brainstem were included. Hemorrhage volume is calculated as follows: volume = (A × B × C)/2 where A is the greatest hemorrhage diameter by CT, B is the diameter perpendicular to A, and C is the approximate number of CT slices with hemorrhage multiplied by the slice thickness (14 (link)), as shown inFigure 1 . Hydrocephalus on CT was determined by enlarged ventricles or obstruction to the flow of cerebrospinal fluid within the ventricular system. Clinical data were reviewed, and radiological data were assessed by two trained neurosurgeons blinded to outcome.
Upon admission to the emergency department, head CT plain scans were performed to assess the severity of the disease. The features evaluated on CT included the location and the extension of hemorrhage, hematoma volume, and the presence of hydrocephalus. Lesions located entirely within the cerebellum, the thalamus, the basal ganglia, or the ventricle were excluded, but lesions extending into these regions from the brainstem were included. Hemorrhage volume is calculated as follows: volume = (A × B × C)/2 where A is the greatest hemorrhage diameter by CT, B is the diameter perpendicular to A, and C is the approximate number of CT slices with hemorrhage multiplied by the slice thickness (14 (link)), as shown in
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Basal Ganglia
Blood Pressure
Brain Stem
Cerebellum
Cerebral Ventricles
Cerebrospinal Fluid
Head
Heart Ventricle
Hematoma
Hemorrhage
Hospitalization
Hydrocephalus
Neurosurgeon
Patient Discharge
Patients
Pupil Malformations
Signs, Vital
Thalamus
Treatment, Emergency
X-Ray Computed Tomography
X-Rays, Diagnostic
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More about "Basal Ganglia"
The basal ganglia are a complex network of subcortical nuclei in the brain that play a crucial role in various neurological and cognitive processes.
This interconnected system includes key structures such as the striatum, globus pallidus, substantia nigra, and subthalamic nucleus.
The basal ganglia are involved in a wide range of functions, including the initiation and modulation of voluntary movement, habit formation, procedural learning, and certain aspects of cognition and emotion.
Dysfunction or impairment of the basal ganglia is implicated in several movement disorders, such as Parkinson's disease, Huntington's disease, and dystonia, as well as some psychiatric conditions.
Researchers continue to uncover the intricate neurobiological mechanisms underlying the diverse roles of the basal ganglia in health and disease.
Advanced techniques like the use of APX-60 systems, Discovery MR750 magnetic resonance imaging, stereotactic frames, protein assay kits, Hybond-C pure nitrocellulose membranes, microinfusion pumps, and specialized holders, as well as the application of collagenase type VII and goat anti-rabbit IgG, have greatly contributed to our understanding of basal ganglia structure, function, and pathology.
By leveraging the power of AI-driven platforms like PubCompare.ai, researchers can efficiently locate the best protocols from literature, preprints, and patents, optimizing their basal ganglia research and unlocking new discoveries.
This cutting-edge technology streamlines the workflow and helps researchers uncover the complex neurobiological underpinnings of the basal ganglia and its diverse roles in both health and disease.
This interconnected system includes key structures such as the striatum, globus pallidus, substantia nigra, and subthalamic nucleus.
The basal ganglia are involved in a wide range of functions, including the initiation and modulation of voluntary movement, habit formation, procedural learning, and certain aspects of cognition and emotion.
Dysfunction or impairment of the basal ganglia is implicated in several movement disorders, such as Parkinson's disease, Huntington's disease, and dystonia, as well as some psychiatric conditions.
Researchers continue to uncover the intricate neurobiological mechanisms underlying the diverse roles of the basal ganglia in health and disease.
Advanced techniques like the use of APX-60 systems, Discovery MR750 magnetic resonance imaging, stereotactic frames, protein assay kits, Hybond-C pure nitrocellulose membranes, microinfusion pumps, and specialized holders, as well as the application of collagenase type VII and goat anti-rabbit IgG, have greatly contributed to our understanding of basal ganglia structure, function, and pathology.
By leveraging the power of AI-driven platforms like PubCompare.ai, researchers can efficiently locate the best protocols from literature, preprints, and patents, optimizing their basal ganglia research and unlocking new discoveries.
This cutting-edge technology streamlines the workflow and helps researchers uncover the complex neurobiological underpinnings of the basal ganglia and its diverse roles in both health and disease.