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283 results for “MRS”
NIfTI-MRS Example Data
<p>Example data accompanying the <a href="https://doi.org/10.5281/zenodo.5084789">data format specification for the NIfTI-MRS file format</a>. NIfTI-MRS is a NIfTI derived format for storing magnetic resonance spectroscopy (MRS) and spectroscopic imaging (MRSI) data.</p> <p>Example data is generated from code at the <a href="https://github.com/wexeee/mrs_nifti_standard">NIfTI-MRS GitHub repository</a>.</p> <p>Each file is named example_{n}.nii.gz and corresponds to the following list:</p> <ol> <li>Manually converted SVS - Water suppressed STEAM</li> <li>spec2nii converted SVS - Water suppressed STEAM</li> <li>spec2nii converted edited SVS - MEGA-PRESS</li> <li>Manually converted 31P FID-MRSI (CSI sequence)</li> <li>spec2nii converted sLASER-localised 1H MRSI<strong>s</strong></li> <li>j-difference editing example (MEGA-PRESS)</li> <li>Variable echo time: full representation</li> <li>Variable echo time: short representation</li> <li>Multiple dynamic parameters "Fingerprinting"</li> <li>FSL-MRS processed MEGA-PRESS spectrum</li> </ol>
Chickadee breeding and parasite survey from Boulder, Sugarloaf, and MRS nest boxes, 2019 - 2021.
Between the years 2019 and 2021 chickadees were sampled at the NWT LTER as part of a broader study encompassing multiple projects (The Boulder Chickadee Study). Here we provide data on the presence of infections with haemosporidian parasites for Black-capped Chickadees (Poecile atricapillus) and Mountain Chickadees (P. gambeli). Haemosporidian parasites are a diverse group of apicomplexans that infect vertebrate hosts during a portion of their life cycle (Valkiunas, G. 2004). We screened chickadees for infections with three haemosporidian genera: Leucocytozoon, Plasmodium, and Haemoproteus using a nested PCR protocol (Hellgren et al. 2004). Both nestlings and adults were screened for parasites in 2019 and 2020 but we only screened adults in 2021. Chickadees sampled at NWT LTER did not have detectable infections with Haemoproteus or Plasmodium, however, we found multiple infections with Leucocytozoon. In conjunction with findings at other field sites, infections with Leucocytozoon parasites appear more common for adult chickadees sampled at higher elevation, while Plasmodium parasites were almost exclusively found in the city of Boulder (Theodosopoulos et al. 2023).
Synthetic JWST MIRI-MRS Observations of Mid-IR Noble Gas Emission from T Cha
<p>Synthetic detctor images for the continuum + line emission from [Ne II], [Ne III], [Ar II], [Ar III] for T Cha made with MIRISim (Klaassen et al. 2021) for the overall best fitting model with r_in = 0.1 rG (both with and without a cavity). Also provided are backgrounds for the source observation (applicable to both with and without a cavity) and models for a synthetic standard star and its background. </p> <p>The .fits files are the underlying data cubes for the [Ne II] and [Ar II] lines which were provided as inputs to the simulator. </p> <p>For a full description, see Sellek et al. (2024a).</p>
NeuroMET - SPECIAL MRS Reproducibility
<p>Magnetic Resonance Spectroscopy Data acquired in 9 healthy volunteers using a SPECIAL Localization with three different adiabatic inversion pulses (hyperbolic secant, WURST, GOIA) at a 7T Magnetom whole-body system (Siemens Healthineers, Erlangen, Germany). Every volunteer was examined 4 times (twice on day one including a repositioning between the measurements, and twice on day two a week later without repositioning between alike measurements) to investigate the repeatability and reproducibility. Please find more details in L.T. Riemann, C.S. Aigner, S.L.R. Ellison, R. Brühl, R. Mekle, S. Schmitter, O. Speck, G. Rose, B. Ittermann, A. Fillmer, "Assessment of Measurement Precision in Single Voxel Spectroscopy at 7 T: Towards Minimal Detectable Changes of Metabolite Concentrations in the Human Brain In-Vivo", Magn Reson Med DOI: DOI: 10.1002/mrm.29034 (in press).</p> <p>Correspondence: layla.riemann@ptb.de, ariane.fillmer@ptb.de</p> <p>Code to generate the restricted maximum-likelihood estimation (REML) and the Bland-Altman (BA) plots of the spectral shape can be found under https://gitlab1.ptb.de/LRiemann/repeatability_reproducibility.git</p> <p>Following data sets are provided:</p> <p>1. ConcentrationsPaper-mrm29034_20211012_Riemann-Fillmer.xls</p> <p>Data that is used with the R code to obtain the REML analysis of the metabolite concentrations. Note that the zeros indicate that the metabolite concentration could not be quantified.</p> <p>2. RawData-mrm29034_20211012_Riemann-Fillmer.zip folder</p> <p>Raw spectral data from Magnetom Siemens 7 T scanner<br> file names have the following structure: "SubjectNumber_Session_ScanBlock_Pulse.dat", e.g. "p1_T1_1_GOIA.dat"</p> <p>3. npy-files-mrm29034_20211012_Riemann-Fillmer.zip folder</p> <p>Spectral data in a python format to generate the BA plots with the shared code;<br> data names have the following structure: "SubjectNumber_PulseSessionScanBlock", e.g. "p1_GOIAT11.npy" for Subject p1, GOIA Pulse (AHS for hyperbolic secant), Session T1, ScanBlock 1</p> <p>4. AnonymizedVolunteerData-mrm29034_20211012_Riemann-Fillmer.xlsx</p> <p>Anonymized measurement data for each individual volunteer and measurement:<br> age, gender, transmit voltage, linewidth, peak voltages for all three pulses (HS, GOIA, WURST), CSF -, gray and white matter fraction in the scanned voxel for each subject.</p>
Neurometabolic changes in a rat pup model of type C HE - 1H MRS dataset (hippocampus)
<p>1H MRS in hippocampus was used to study longitudinally the effect of chronic liver disease (bile duct ligated rat model) in the brain (type C hepatic encephalopathy) of animals having developed disease a post natal day 15 (p15) corresponding to ~4 months old human brain. The dataset contains MR spectra and LCModel Quanifications from 7 bile duct ligated and 8 control animals at week 2, 4 and 6 after surgery.</p> <p>Please cite the following manuscript if you are using these data</p> <p><a href="https://pubmed.ncbi.nlm.nih.gov/37148431/">Neurometabolic changes in a rat pup model of type C hepatic encephalopathy depend on age at liver disease onset - PubMed (nih.gov)</a></p>
Longitudinal structural MRI, MRS, and behavioral data for mice prenatally exposed to maternal immune activation at gestational day 9
<p>Previous evidence from our lab (https://cobralab.ca/) and others suggest that prenatal exposure to maternal immune activation (MIA) can impact trajectories of neurodevelopment as measured through brain anatomy and behavior in mice. Yet, there are still open questions regarding the alterations to developmental trajectories, as well as the impact on brain chemistry, that this data set seeks to explore. The dataset presented here includes magnetic resonance imaging (MRI) and magnetic resonance spectroscopy (MRS) data from two timepoints, adolescence (postnatal day [PND 35]) and young adulthood (PND 60) in C57BL/6J mice prenatally exposed either to poly I:C (POL) inducing maternal immune activation (MIA) or saline (SAL) at gestational day (GD) 9. The dataset also includes three behaviors acquired after each scanning session with 2 days of rest between the scans and each behavior: open field test, social novel object preference test, and prepule inhibition. Finally, the data also include cytokine assays acquired from a separate sample of pregnant mice and a test-retest of MRS acquired from a voxel in the anterior cingulate area. </p> <p>The data here published were collected and analyzed for a paper under review, available as a preprint where more details can be found here: https://www.preprints.org/manuscript/202203.0136/v1. In brief, using whole-brain, voxelwise analysis techniques (deformation-based morphometry) we found MIA subtly altered developmental trajectories, reducing volume relative to SAL offspring in the hippocampus and the anterior, right caudate putamen, and increasing volume in the posterior, left caudate putamen and cerebellum. Additionally, there was a trending decrease of myo-inositol and GABA in MIA offspring at PND 60 compared to SAL controls. Finally, there was a trending decrease in ratio of distance travelled in the anxiogenic center zone of an open field compared to the outer areas at PND 35 for MIA offspring. </p> <p>In this dataset you will find a total of <strong>80 preprocessed structural MRIs</strong> in minc format acquired at postnatal day ~35 and ~60 in mice exposed to 5mg/kg poly I:C or vehicle control (0.9% sterile saline) at GD9. The images are included in CUPO_MIA_mncs.zip. These are T1-weighted structural images with two averages; repetition time (TR)/echo time (TE) = 21.55 ms/5.13 ms, matrix size = 260 x 158 x 210, voxel dimensions =&thinsp;70 µm isotropic, flip angle =&thinsp;20°, 23 min total using 5% isoflurane for induction, 1.5% for maintenance of anesthesia during the scan on a cryogenically-cooled surface coil. T1-weighted scans were preprocessed by stripping native coordinates, flipping left-right to maintain fidelity, denoising, correcting inhomogeneities in the bias field using the N4 algorithm, and registering in LSQ6 alignment (i.e. 6 degrees of freedom are allowed for imagine alignment: translations and rotations along x, y, and z dimensions). The demographics information for each animal is included in the <strong>demographics.csv</strong> file. </p> <p>Behavioural tests were performed following the postnatal day 35 and 60 scans in all animals with a 2 day rest period. These include: open field test, three chambered social approach, and prepulse inhibition. The data for all of these tests is presented in individual .csv spreadsheet and includes data for both the timepoints evaluated. Additionally, cytokine panels were collected from an independent cohort of 7 dams. <strong>MRS </strong>data are included in two formats: 1) preprocessed quantifications from LCModel software in csvs, and 2) raw data with press and press_w (respectively water supressed and unsupressed acquisitions) for analysis. The raw data were released in upload version 1.1.0. MRS was acquired from a 1.2 x 2.6 x 2.5 mm3 voxel in the ACA with a Point Resolved Spectroscopy sequence (PRESS; TR/TE=3000/8.5 ms, 256 averages). Within the raw_data.zip,</p> <p>Included in this data set are the structural MRIs in MINC format, the behavioural .csv data, the MRS data (csvs and raw files), and a <strong>README</strong> file providing further detail on the data structure and content, and on how to interpret the data column titles. DICOMS are also available for the structural MRI data, as are the raw (not-preprocessed) MINC files, available upon request to the authors. </p>
A SLC1A3 variant associated with hemiplegic migraine and acetazolamide-responsive MRS changes
<p>Familial hemiplegic migraine (FHM) is a group of rare familial disorders caused, in most cases, by mutations in <em>CACNA1A</em> and <em>ATP1A2</em>.<sup><a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7357413/#R1">1</a></sup> Heterozygous mutations in solute carrier family 1 member 3 (<em>SLC1A3</em>), encoding glial glutamate transporter, are associated with episodic ataxia type 6 (EA6).<sup><a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7357413/#R2">2</a>,<a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7357413/#R3">–</a><a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7357413/#R5">5</a></sup> In addition to episodic ataxia (EA), alternating hemiplegia and hemiplegic migraine have been reported twice in patients with EA6.<sup><a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7357413/#R2">2</a>,<a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7357413/#R4">4</a></sup> Mutations in <em>SLC1A3</em> are very rare; screenings in cohorts of EA and alternating hemiplegia have yielded either negative results<sup><a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7357413/#R3">3</a>,<a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7357413/#R6">6</a>,<a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7357413/#R7">–</a><a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7357413/#R8">8</a></sup> or variants of unclear significance.<sup>e-1--e-3</sup> Herein, we characterize a patient featuring sporadic hemiplegic migraine (SHM) responsive to acetazolamide (ACZ) and mild cerebellar atrophy associated with a new variant in <em>SLC1A3.</em> We also report the utility of proton magnetic resonance spectroscopy (MRS) for this condition.</p>
NIfTI-MRS example data (raw data)
<p>Raw data required to generate the example data associated with the NIfTI-MRS data standard.</p> <p>The data standard can be found on Zenodo (https://doi.org/10.5281/zenodo.5084788).</p> <p>The generated example data is also on Zenodo (https://doi.org/10.5281/zenodo.5085448).</p> <p>Example data generation code is available on Github (https://github.com/wexeee/mrs_nifti_standard/tree/master/example_data)</p> <p> </p>
JWST MIRI MRS spectrum of IC 348
<p>This spectrum was extracted from the IFU cube (which was downloaded via the MAST platform, from the GTO program ID 1236 (PI Michael Ressler) ) using a circular aperture of radius 1.15”, centered on coordinates (3:43:56.980,+32:03:03.98).</p> <p>First column correcponds to wavelength in microns, the second column to flux in MJy/sr.</p> <p>All JWST MIRI MRS channels are included in one single spectrum.</p> <p> </p>
JWST MIRI MRS dataset
<p>These are x1d test files for the JWST's MIRI MRS mode. They are used by specutils' unit tests to test the reader code.</p>
Assessing Neuroinflammation in GWI Using MRS
ClinicalTrials.gov study NCT04638998. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Pharmaco-Magnetic Resonance Spectroscopy (MRS) Study of Clavulanic Acid
ClinicalTrials.gov study NCT04411914. IPD Sharing: NO. Countries: 1. Publications: 2.
Functional Effects of Botox on the Brain Using MRS and fMRI
ClinicalTrials.gov study NCT03373162. IPD Sharing: NO. Countries: 1. Publications: 1.
Myocardial Lipid and Creatine of Heart Failure on MRS
ClinicalTrials.gov study NCT02378402. IPD Sharing: Not stated. Countries: 1. Publications: 1.
A SLC1A3 variant associated with hemiplegic migraine and acetazolamide-responsive MRS changes
Open the record for dataset details and reuse information.
Data from: Application of a 1H brain MRS benchmark dataset to deep learning for out-of-voxel artifacts
Open the record for dataset details and reuse information.
Plaque Gift to Mrs. Stanford - High Resolution
For more information about this item visit: https://bhpsite.org/ Source: Objaverse 1.0 / Sketchfab
Plaque Gift to Mrs. Stanford - Preview
For more information about this item visit: https://bhpsite.org/ Source: Objaverse 1.0 / Sketchfab
Mrs. Thaxter Plate
For more information about this item visit: https://bhpsite.org/ Source: Objaverse 1.0 / Sketchfab
FIGURE 4 in The "Mr. and Mrs. Ghat crab", Ghatiana dvirupa sp. nov. (Decapoda: Brachyura: Gecarcinucidae) from the Central Western Ghats of India
FIGURE 4. Ghatiana dvirupa sp. nov.: A–C, paratype male (29.99 × 20.05 mm), ZSI-WRC C.2444; D–F, paratype female (28.67 × 19.07 mm), ZSI-WRC C.2444. A, D, habitus, dorsal view; B, pleonal somites 3–6 and telson; C, dorsal view of left G1; E, pleonal somites 4–6 and telson; F, thoracic sternites showing vulvae. Scale bars = 10 mm (A, D), 5 mm (B, E, F), 1 mm (C).
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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)
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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.