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ShareScore release 0.9.0
Dataset results
190 results for “brain metabolism”
Microglia are not necessary for maintenance of blood-brain barrier properties in health, but PLX5622 alters brain endothelial cholesterol metabolism (Liver Seq)
GEO Series GSE267594. Mus musculus. 6 samples. Type: Expression profiling by high throughput sequencing.
Effect of Traumatic Brain Injury, Erythropoietin and Anakinra on Hepatic Metabolizing Enzymes and Transporters in an Experimental Rodent Model
GEO Series GSE64886. Rattus norvegicus. 50 samples. Type: Expression profiling by array.
Preclinical Model of Military Burn Pit Exposure Reveals Altered Inflammatory and Metabolic Pathways in the Rat Lung-Brain Axis
GEO Series GSE281993. Rattus norvegicus. 20 samples. Type: Expression profiling by high throughput sequencing.
Diabetes and Insulin in Regulation of Brain Cholesterol Metabolism
GEO Series GSE62013. Mus musculus. 17 samples. Type: Expression profiling by array.
SMPD4 mediated sphingolipid metabolism regulates brain and primary cilia development
GEO Series GSE250472. Homo sapiens. 18 samples. Type: Expression profiling by high throughput sequencing.
Pharmacological Targeting of a Metabolic Co-Dependency Pathway in Brain Cancers
GEO Series GSE78703. Homo sapiens. 12 samples. Type: Expression profiling by array.
Cell-type-specific contributions to impaired blood-brain barrier and altered cerebral metabolism in prodromal 5XFAD mice
GEO Series GSE295077. Mus musculus. 16 samples. Type: Expression profiling by high throughput sequencing.
Brain histone beta-hydroxy-butirylation couples metabolism with gene expression
GEO Series GSE168725. Mus musculus. 24 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing.
Microglia are not necessary for maintenance of blood-brain barrier properties in health, but PLX5622 alters brain endothelial cholesterol metabolism (Brain Endo Bulk Seq)
GEO Series GSE267592. Mus musculus. 10 samples. Type: Expression profiling by high throughput sequencing.
Mild traumatic brain injury in mice beneficially alters structural and metabolic protein expression in mouse lung to enhance survival after Pseudomonas aeruginosa infection
GEO Series GSE120326. Mus musculus. 5 samples. Type: Expression profiling by array.
Metabolomics Data - Integrated multi-omics analysis using MENTOR reveals metabolic reprogramming in the Niemann-Pick type C mouse brain
<p>Mice were euthanized with isoflurane followed by decapitation. Brains were collected rapidly from 7 week old mice from each genotype (WT and Npc1-/-), and the forebrains were quickly dissected and flash frozen in liquid nitrogen. Tissue samples were removed from -80 °C storage and maintained on wet ice throughout the processing steps. Tissues were carefully weighed to 30 mg +/- 2 mg and the extraction solvent (1:1:1:1: Methanol:Acetone:Acetonitrile:Water) containing internal standards was scaled to the tissue weight (30:1). Tissue was disrupted using a probe sonicator at 40% output power, 40% duty cycle for 20 seconds. Samples were allowed to rest on wet ice for 10 min, then centrifuged at 4° C, 14,000 rpm for 10 min. 10 µL of each sample was removed and pooled in a separate autosampler vial for quality control purposes. 200 µL of supernatant was transferred to an autosampler vial and brought to complete dryness using a nitrogen drier in ambient conditions. Samples and pools were reconstituted with 100 µL and 150 µL of water: methanol (8:2 by volume).</p> <p>Analysis was performed on an Infinity Lab II UPLC coupled with a 6545 QTof mass spectrometer (Agilent Technologies) using a JetStream ESI source in negative mode. The following source parameters were used: Gas Temp: 250 °C, Gas Flow: 13 L/min, Nebulizer: 35 psi, Sheath Gas Temp: 325 °C, Sheath Gas Flow: 12 L/min, Capillary: 3500 V, Nozzle Voltage: 1500 V.</p> <p>The UPLC was equipped with a 10-port valve configured to allow the column to be either eluted to the mass spectrometer or back-flushed to waste. The chromatographic separation was performed on an Agilent ZORBAX RRHD Extend 80Å C18, 2.1 × 150 mm, 1.8 μm column with an Agilent ZORBAX SB-C8, 2.1 mm × 30 mm, 3.5 μm guard column. The column temperature was 35 °C. Mobile phase A consisted of 97:3 water/ methanol and mobile phase B was 100% methanol; both A and B contained tributylamine and glacial acetic acid at concentrations of 10mM and 15mM, respectively. The column was back-flushed with mobile phase C (100% acetonitrile, no additives) between injections for column cleaning.<br>The LC gradient was as follows: 0-2min, 0%B; 2-12 min, linear ramp to 99%B; 12-17.5 min, 99%B. At 17.5 min, the 10-port valve was switched to reverse flow (back-flush) through the column, and the solvent composition changed to 99%C. From 20.5-21 min the flow rate was ramped to 0.8 mL/min, held until 22.5 min, then reduced to 0.6mL/min. From 22.7-23.5 min the solvent was ramped from 99% to 0% C while flow was simultaneously ramped down from 0.6-0.4mL/min and held until 29.4 min, at which point flow rate was returned to starting conditions at 0.25mL/min. The 10-port valve was returned to restore forward flow through the column at 28.5 min. An isocratic pump was used to introduce reference mass solution through the reference nebulizer for dynamic mass correction. Total run time was 30 min. The injection volume was 5 uL.</p> <p>Data analysis for this platform follows a hybrid targeted/non-targeted approach. Semi-quantitative data for known compounds is obtained by manual integration using Profinder v8.00 (Agilent Technologies, Santa Clara, CA.) Metabolites were identified by matching the retention time (+/- 0.1 min), mass (+/- 10 ppm) and isotope profile (peak height and spacing) to authentic standards. Non-targeted data analysis was performed using Agilent’s MassHunter Find by Molecular Feature workflow (v7.0) with recursion using Agilent’s Mass Profiler Pro (v8.0).</p> <p>A combined feature set was generated by merging untargeted features and named metabolites into a single feature list. The combined feature set underwent data reduction using Binner <em>(M. Kachman et al., 2020)</em>. Briefly, Binner first performs RT-based binning, followed by clustering of features by Pearson’s correlation coefficient, and the assignment of isotopes, adducts or in-source fragments by searching for known mass differences between highly correlated features. After Binner data reduction in-house software was used to search Refmet (https://www.metabolomicsworkbench.org/databases/refmet/index.php) to provide MS1 <em>(L. W. Sumner et al., 2007)</em> Level III identifications, or to an in-house library of authentic standards to provide MS1 Level I identifications.</p> <p>Iterative Data Dependent Acquisition (iDDA) ms/ms analysis was performed on the pooled sample material. iDDA captures ms/ms in stepwise fashion, with rolling excluded precursors. For untargeted platforms, we collect 8 rounds of iDDA at 3 different collision energies. At each collision energy, ~8000 ms/ms spectra are collected, which represent ms/ms spectra for approximately 75-95% of the features obtained by the untargeted data analysis. Analysis of iDDA spectra using NIST2020 was performed to provide MS1 Level II identifications for statistically significant features.</p>
Impact of Early Goal-Directed Therapy to Perfusion and Metabolism of Brain
ClinicalTrials.gov study NCT02706379. IPD Sharing: NO. Countries: 0. Publications: 0.
Effect of Propofol-Dexmedetomidine on Cerebral Oxygenation and Metabolism During Brain Tumor Resection
ClinicalTrials.gov study NCT02575521. IPD Sharing: Not stated. Countries: 0. Publications: 0.
Microglia are not necessary for maintenance of blood-brain barrier properties in health, but PLX5622 alters brain endothelial cholesterol metabolism (Astro Seq)
GEO Series GSE267590. Mus musculus. 6 samples. Type: Expression profiling by high throughput sequencing.
HMGB3 promotes brain metastasis in lung adenocarcinoma by recruiting SSBP1 for nuclear translocation to remodel mitochondrial metabolism
GEO Series GSE293936. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing.
Effects of 5-Ion Beam Irradiation and Hindlimb Unloading on Metabolic Pathways in Plasma and Brain of Behaviorally Tested WAG/Rij Rats
A limitation of simulated space radiation studies is that radiation exposure is not the only environmental challenge astronauts face during missions. Therefore, we characterized behavioral and cognitive performance of male WAG/Rij rats 3 months after sham-irradiation or total body irradiation with a simplified 5-ion mixed beam exposure in the absence or presence of simulated weightlessness using hindlimb unloading (HU) alone. Six months following behavioral and cognitive testing or 9 months following sham-irradiation or total body irradiation, plasma and brain tissues (hippocampus and cortex) were processed to determine whether the behavioral and cognitive effects were associated with long-term alterations in metabolic pathways in plasma and brain. Sham HU, but not irradiated HU, rats were impaired in spatial habituation learning. Rats irradiated with 1.5 Gy showed increased depressive-like behaviors. This was seen in the absence but not presence of HU. Thus, HU has differential effects in sham-irradiated and irradiated animals and specific behavioral measures are associated with plasma levels of distinct metabolites 6 months later. The combined effects of HU and radiation on metabolic pathways in plasma and brain illustrate the complex interaction of environmental stressors and highlights the importance of assessing these interactions. This study derives results from the Open Field, Novel Object Recognition and Forced Swim Test behavior assays.
The consequences of trehalose intake on brain metabolism in mice
GEO Series GSE112976. Mus musculus. 8 samples. Type: Expression profiling by array.
E4F1 COORDINATES PYRUVATE METABOLISM AND THE ACTIVITY OF THE ELONGATOR COMPLEX TO ENSURE TRANSLATION FIDELITY DURING BRAIN DEVELOPMENT
GEO Series GSE158595. Mus musculus. 6 samples. Type: Expression profiling by high throughput sequencing.
Mitochondrial regulator PGC-1a in neuronal metabolism and brain aging
GEO Series GSE246478. Mus musculus. 43 samples. Type: Expression profiling by high throughput sequencing.
Integrative Epigenomic and Transcriptomic Analysis Reveals Robust Metabolic Switching During Intermittent Fasting in the Brain
GEO Series GSE135945. Mus musculus. 42 samples. Type: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing.
ScienceDex guides
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These curated guides explain access requirements, typical timelines, costs, and reuse considerations for widely used research datasets.
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.