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303 results for “cerebrospinal fluid”
dataset related to article: " Cerebrospinal fluid neuropathological biomarkers in beta-propeller protein-associated neurodegeneration, with complicated parkinsonian phenotype"
<p>analysis sanger electropherograms in the patient's in .abi format and segregation in the family (mother; father and sister</p>
Nanopore sequencing assay to detect and diagnose tuberculous meningitis via cerebrospinal fluid
<p>This study aimed to evaluate the efficiency of nanopore sequencing for the early diagnosis of tuberculous meningitis (TBM) using cerebrospinal fluid and compared it with acid-fast bacilli (AFB) smear, mycobacterial growth indicator tube (MGIT) culture, and Xpert MTB/Rifampicin (RIF). We enrolled 64 adult patients with presumptive TBM admitted to our hospital from August 2021 to August 2023. We calculated the sensitivity, specificity, positive predictive value (PPV), and negative predictive value (NPV) of AFB smear, culture, Xpert MTB/RIF, and nanopore sequencing to evaluate their diagnostic efficacy compared with a composite reference standard for TBM. Among these 64 patients, all tested negative for TBM by AFB smear. The sensitivity, specificity, PPV, and NPV were 11.11%, 100%, 100%, and 32.2% for culture, 13.33%, 100%, 100%, and 2.76% for Xpert MTB/RIF, and 77.78%, 100%, 100% and 65.52% for nanopore sequencing, respectively. The diagnostic accuracy of the nanopore sequencing test was significantly higher than that of conventional testing methods used to detect TBM.</p>
Detection of Neoplasms by Metagenomic Sequencing of Cerebrospinal Fluid
<p>Detection of Neoplasms by Metagenomic Sequencing of Cerebrospinal Fluid</p> <p>Wei Gu, MD, PhD<sup>1,2</sup>*, Andreas M. Rauschecker, MD, PhD<sup>3</sup>, Elaine Hsu, BS<sup>1</sup>, Kelsey C. Zorn, BS<sup>4</sup>, Yasemin Sucu, BS<sup>1</sup>, Scot Federman, BS<sup>1</sup>, Allan Gopez, BS<sup>1</sup>, Shaun Arevalo, BS<sup>1</sup>, Hannah A. Sample, BS<sup>4</sup>, Eric Talevich, PhD<sup>5</sup>, Eric D. Nguyen, MD, PhD<sup> 1</sup>, Marc Gottschall, BS<sup>1</sup>, Bardia Nourbakhsh, MD, MAS<sup>6</sup>, Carl A. Gold, MD, MS<sup>7</sup>, Bruce A.C. Cree, MD, PhD, MAS<sup>8</sup>, Vanja Douglas, MD<sup>8</sup>, Megan B. Richie, MD<sup>8</sup>, Maulik P. Shah, MD, MHS<sup>8</sup>, S. Andrew Josephson, MD<sup>8</sup>, Jeffrey M. Gelfand, MD, MAS<sup>8</sup>, Steve Miller, MD, PhD<sup> 1</sup>, Linlin Wang, MD<sup>1</sup>, Tarik Tihan, MD, PhD<sup>9</sup>, Joseph L. DeRisi, PhD<sup>4,10</sup>, Charles Y. Chiu, MD, PhD<sup>11,12</sup>, Michael R. Wilson, MD, MAS<sup>8</sup>*</p> <p> </p> <p><sup>1</sup>Department of Laboratory Medicine, University of California San Francisco, CA 94107, USA</p> <p><sup>2</sup>Department of Pathology, Stanford University, CA 94305, USA</p> <p><sup>3</sup>Department of Radiology and Biomedical Imaging, University of California San Francisco, CA 94107, USA</p> <p><sup>4</sup>Department of Biochemistry and Biophysics, University of California San Francisco, CA 94107, USA</p> <p><sup>5</sup>DNANexus, Mountain View, CA 94040, USA</p> <p><sup>6</sup>Department of Neurology, Johns Hopkins University, MD 21287, USA</p> <p><sup>7</sup>Department of Neurology, Stanford University, CA 94305, USA</p> <p><sup>8</sup>Weill Institute for Neurosciences, Department of Neurology, University of California San Francisco, CA 94107, USA</p> <p><sup>9</sup>Department of Pathology, University of California San Francisco, CA 94107, USA</p> <p><sup>10</sup>Chan Zuckerberg Biohub, San Francisco, CA 94107, USA</p> <p><sup>11</sup>UCSF-Abbott Viral Diagnostics and Discovery Center, San Francisco, CA 91407, USA</p> <p><sup>12</sup>Department of Medicine, Division of Infectious Diseases, University of California San Francisco, CA 94107, USA</p> <p> </p> <p>* Corresponding authors:</p> <p>Michael Wilson, MD, MAS</p> <p>UCSF Department of Neurology</p> <p>675 Nelson Rising Lane, NS212</p> <p>San Francisco, CA 94158</p> <p><a href="mailto:Michael.Wilson@ucsf.edu">Michael.Wilson@ucsf.edu</a></p> <p> </p> <p>Wei Gu, MD, PhD</p> <p>Stanford University, Department of Pathology</p> <p>3373 Hillview Ave, 218</p> <p>Palo Alto, CA 94304</p> <p>650-723-1914</p> <p><a href="mailto:weigu@stanford.edu">weigu@stanford.edu</a></p>
Data from: Decreased cerebrospinal fluid orexin levels not associated with clinical sleep disturbance in Parkinson's disease: A retrospective study
<p><span>Patients with Parkinson's disease (PD) often suffer from sleep disturbances, including excessive daytime sleepiness (EDS) and rapid eye movement sleep behavior disorder (RBD). These symptoms are also experienced by patients with narcolepsy, which is characterized by orexin neuronal loss. In PD, a decrease in orexin neurons is observed pathologically, but the association between sleep disturbance in PD and cerebrospinal fluid (CSF) orexin levels is still unclear. This study aimed to clarify the role of orexin as a biomarker in patients with PD.</span></p> <p><span>CSF samples were obtained from a previous cohort study conducted between 2015 and 2020. We cross-sectionally and longitudinally examined the association between CSF orexin levels, sleep, and clinical characteristics.</span></p> <p><span>We analyzed 78 CSF samples from 58 patients with PD and 21 samples from controls. CSF orexin levels in patients with PD (median = 272.0 [interquartile range = 221.7–334.5] pg/mL) were lower than those in controls (352.2 [296.2–399.5] pg/mL, p = 0.007). There were no significant differences in CSF orexin levels according to EDS, RBD, or the use of dopamine agonists. Moreover, no significant correlation was observed between CSF orexin levels and clinical characteristics by multiple linear regression analysis. Furthermore, the longitudinal changes in orexin levels were also not correlated with clinical characteristics.</span></p> <p><span>This study showed decreased CSF orexin levels in patients with PD, but these levels did not show any correlation with any clinical characteristics. Our results suggest the limited efficacy of CSF orexin levels as a biomarker for PD, and that sleep disturbances may also be affected by dysfunction of the nervous system other than orexin, or by dopaminergic treatments in PD.</span><span> Understanding the reciprocal role of orexin among other neurotransmitters may provide a better treatment strategy for sleep disturbance in patients with PD.</span></p>
Collection and Study of Cerebrospinal Fluid in Patients With Hunter Syndrome
ClinicalTrials.gov study NCT01449240. IPD Sharing: Not stated. Countries: 2. Publications: 3.
Elvitegravir (EVG) Cerebrospinal Fluid (CSF) Pharmacokinetics in HIV-Infected Individuals
ClinicalTrials.gov study NCT02251236. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Genetic Predictors of Raltegravir Penetration Into Cerebrospinal Fluid
ClinicalTrials.gov study NCT00729924. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Impact of Ocrelizumab on Cerebrospinal Fluid Biomarkers at Multiple Sclerosis Onset
ClinicalTrials.gov study NCT04466150. IPD Sharing: YES. Countries: 1. Publications: 45.
Microembolic Signals and Cerebrospinal Fluid Markers of Neuronal Damage After Surgical Aortic Valve Replacement
ClinicalTrials.gov study NCT01319799. IPD Sharing: NO. Countries: 1. Publications: 6.
Study to Measure Cerebrospinal Fluid Mutant Huntingtin Protein in Participants With Early Manifest Stage I or Stage II Huntington's Disease
ClinicalTrials.gov study NCT03664804. IPD Sharing: Not stated. Countries: 4. Publications: 0.
Evaluation of Outcomes Related to Cerebrospinal Fluid Drain Placement
ClinicalTrials.gov study NCT04505423. IPD Sharing: YES. Countries: 1. Publications: 2.
Cerebrospinal Fluid (CSF) Pharmacokinetics of Antimicrobials in Children
ClinicalTrials.gov study NCT00991185. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Data from: Decreased cerebrospinal fluid orexin levels not associated with clinical sleep disturbance in Parkinson’s disease: A retrospective study
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Using cerebrospinal fluid nanopore sequencing assay to diagnose tuberculous meningitis: a retrospective cohort study in China
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Data from: Changes in cerebrospinal fluid proteins across the spectrum of untreated and treated chronic HIV-1 infection
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BAFF 60-mer and BAFF 60-mer-dissociating activities in serum, cord blood and cerebrospinal fluid
<p>This dataset is related to "BAFF 60-mer, and differential BAFF 60-mer dissociating activities in human serum, cord blood and cerebrospinal fluid" (Eslami M, Meinl E, Eibel H, Willen L, Donzé O, Distl O, Schneider H, Speiser DE, Tsiantoulas D, Yalkinoglu Ö, Samy E, Schneider P).</p>
Data from: Acute necrotizing encephalopathy with SARS-CoV-2 RNA confirmed in Cerebrospinal fluid
Here we report a case of Covid-19-related acute necrotizing encephalopathy (ANE) where SARS-CoV-2 RNA was found in cerebrospinal spinal fluid (CSF) first 19 days after symptom onset after negative findings earlier. Even though monocytes and protein levels in CSF were only marginally increased, and our patient never experienced a hyperinflammatory state, she deteriorated in neurological function and became comatose. Magnetic resonance imaging of the brain showed pathological signal symmetrically in central thalami, subinsular regions, medial temporal lobes and brain stem. Extremely high concentrations of the neuronal injury markers neurofilament light (NfL) and tau, as well as an astrocytic activation marker glial fibrillary acidic protein (GFAp), were measured in CSF in parallel to in-depth proteomics analysis. The patient received intravenous immunoglobulins (IVIG) and plasma exchange (PLEX). Her neurological status improved and she was extubated four weeks after symptom onset. This case report highlights the neurotropism of SARS-CoV-2 in selected patients and emphasizes the importance of repeated lumbar punctures and CSF analyses in patients with suspected Covid-19 and neurological symptoms.
Simulation results: effects of Chiari type 1 malformation on cerebrospinal fluid dynamics during arterial pulsations and coughing
<p>The folder contains the simulation results corresponding to the computational fluid dynamics study: Effects of Chiari type 1 malformation on cerebrospinal fluid dynamics during arterial pulsations and coughing</p> <p>Data is organized in the following way with files in .csv and .xlsx format</p> <ul> <li>Cropped model: <ul> <li>output_*: flow time in seconds, pressure in the fourth ventricle (Pv), outflow in m³/s or kg/s, and pressure at plane in spinal SAS (Psas) for physical herniations and herniations created by porous zones</li> </ul> </li> <li>Full model <ul> <li>arterial_pulsations: data with all boundary conditions (arterial) except from cough</li> <li>arterial_pulsations_and_cough: data with all boundary conditions (arterial) including cough</li> <li>file content: <ul> <li>*_boundary_data: time step number, number of coupling iterations necessary per time step, flow time (s), pressure (P) and flow (Q) at outlets with interstitium (1), spinal (2), lymphatic (3) and arachnoid villi (4), first element of Jacobian (J11), flow residual, value of perturbation (dP) in Pa, converged?: 1 when converged, 0 when not, perturbation parameter, number of times the perturbation value needed to be reduced.</li> <li>*_flow: flow time in seconds, volumetric flow through aqueduct, and spinal SAS</li> <li>*_pressure_data: flow time in seconds, relative pressure compared to interstitium outlet at the fourth ventricle (v4), the spinal SAS (sas) and the lateral ventricle (lv)</li> </ul> </li> </ul> </li> </ul>
Dataset to "Analysing cerebrospinal fluid with explainable deep learning: From diagnostics to insights"
<p>Accompanying dataset for our paper "Analysing cerebrospinal fluid with explainable deep learning: From diagnostics to insights", in Neuropathology and Applied Neurobiology.</p>
Data from: Origin and role of the cerebrospinal fluid bidirectional flow in the central canal
<p>The circulation of cerebrospinal fluid (CSF) plays pivotal roles for body axis formation and brain development. During embryogenesis, CSF is rich in particles and proteins and flows bidirectionally in the central canal. The origins of bidirectional flow and its impact on development are unknown. Experiments combined with modeling and simulations demonstrate that the bidirectionality of CSF flow is generated locally by caudally-polarized motile cilia confined to the ventral wall of the central canal. Such active bidirectional flow of the CSF accelerates the long-range transport of particles propagating rostrally and caudally. In addition, spontaneous muscle contractions increase local CSF flow and consequently enhance long-range transport of extracellular lipidic particles. Focal ablation of the channel connecting brain ventricles to the central canal reduces embryo length, indicating that long-range transport contributes to embryonic growth. Our study also demonstrates that at this early stage, motile cilia ensure the proper formation of the central canal.</p>
ScienceDex guides
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Allen Brain Atlas
Allen Brain Atlas is an Allen Institute collection of brain map atlases, datasets, APIs, and analysis tools covering mouse, human, and non-human primate brain resources.
Annotated Behaviour and Observability Dataset (ABODe)
ABODe is a University of Edinburgh DataShare dataset for behavior classification in group-housed mice using home-cage video, identities, bounding boxes, ground-plate positions, and annotator labels.
DANDI Archive for NWB datasets
DANDI is a BRAIN Initiative archive for publishing and sharing neurophysiology data, including electrophysiology, optophysiology, and behavioral data packaged as NWB and related standards.
International Brain Laboratory public data
The International Brain Laboratory public data releases expose standardized mouse decision-making experiments, including Neuropixels recordings, widefield calcium imaging, behavior, and session metadata accessed through the ONE API.
OpenNeuro
OpenNeuro is a free, open platform for sharing neuroimaging datasets, with public search, dataset pages, and download paths for web, S3, DataLad, and the OpenNeuro CLI.