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4,004 results for “In vivo”
Synchronization of in vivo MacoNPV-A baculovirus infection by analysis of individual Mamestra configurata larval guts
<p><span>Many studies have examined the gene expression of baculoviruses during host infection by infecting cultured insect host cells; however, only a few have attempted to characterize the interaction between baculoviruses and insect larvae, which more accurately models the virus-insect relationship. The greatest challenge in assessing gene expression profiles <em>in vivo</em> in the larval gut is the lack of infection synchronization compared to cultured cells. Working with bertha armyworm, <em>Mamestra configurata</em>, larvae infected with the baculovirus Mamestra configurata nucleopolyhedrovirus-A<em> </em><span> </span>(MacoNPV-A), viral gene expression was measured using droplet-digital PCR showing that the rate of infection in individual insects varies extremely widely. Subsequent RNA-seq of individual guts revealed that gene expression patterns were consistent in individuals with similar levels of viral gene expression. Therefore, the best approach for analyzing baculovirus gene expression <em>in vivo</em> is to use the expression of an early viral gene as a means to select individuals that are closely matched in infection progress to produce the most synchronized infection cohorts for measuring gene expression profiles. In this way, a profile of gene expression was identified very early in infection that would have been masked by the activity of a few very robustly infected individuals present in sample pools made up of multiple individuals.</span></p>
In vivo evaluation of thermally drawn biodegradable optical fibers as brain implants
<p><strong>Dataset for Thermal, Molecular, and Optical Characterization of PDLLA Optical Fibers</strong></p> <p><span>Parinaz Abdollahian<sup>a,b</sup>,<sup> </sup>Kunyang Sui<sup>a,b</sup>, Guanghui Li<sup>b</sup>, Jiachen Wang<sup>a</sup>, Cuiling Zhang<sup>a</sup>, Yazhou Wang<sup>a</sup>, Rune W. Berg<sup>b</sup>, Marcello Meneghetti<sup>a,b</sup>, and Christos Markos<sup>*a</sup></span></p> <p><span><span>a. Department of Photonics and Electronic Engineering, Denmark Technical University, Denmark</span></span></p> <p><span><span>b. Department of Neuroscience, Copenhagen University, Copenhagen, Denmark</span></span></p> <p><strong>Description</strong>:<br>This dataset includes the experimental data and characterization results for amorphous poly(D,L-lactic acid) (PDLLA) optical fibers used in the study titled "In vivo evaluation of thermally drawn biodegradable optical fibers as brain implants." The dataset comprises the following key measurements:</p> <ol> <li><strong>Differential Scanning Calorimetry (DSC)</strong>: <ul> <li>Thermograms of PDLLA granules as purchased and after quenching, used to analyze thermal transitions.</li> </ul> </li> <li><strong>Gel Permeation Chromatography (GPC)</strong>: <ul> <li>Molecular weight data of PDLLA before and after in vivo degradation.</li> </ul> </li> <li><strong>Optical Transmission</strong>: <ul> <li>Spectral data for PDLLA fibers of different diameters (150 µm, 250 µm, and 320 µm) and their transmission properties before and after in vitro degradation in phosphate-buffered saline (PBS).</li> </ul> </li> </ol> <p><strong>Purpose</strong>:<br>The data support the evaluation of the thermal stability, molecular degradation, and optical performance of PDLLA fibers under in vitro and in vivo conditions. The goal is to assess their suitability as biodegradable neural interfaces for biomedical applications.</p> <p><strong>Methods</strong>:</p> <ul> <li>DSC was performed on a Q 2000 instrument with a temperature range of -10°C to 200°C at a heating rate of 10°C/min and a cooling rate of 50°C/min.</li> <li>GPC was conducted using a TOSOH HLC-8320 to measure molecular weight distributions.</li> <li>Optical transmission was characterized using a broadband supercontinuum source (NKT SuperK Extreme) and an ANDO AQ-6315A optical spectrum analyzer.</li> </ul> <p><strong>File Contents</strong>:</p> <ul> <li>DSC raw and processed data for granules and quenched PDLLA.</li> <li>GPC chromatograms and molecular weight calculations.</li> <li>Transmission spectra for PDLLA fibers, including pre- and post-degradation measurements.</li> </ul>
Ascorbic acid supports ex vivo generation of plasmacytoid dendritic cells from circulating hematopoietic stem cells: RNA-seq dataset
<p>Plasmacytoid dendritic cells (pDCs) constitute a rare type of immune cell with multifaceted functions, but their potential use as a cell-based immunotherapy is challenged by the scarce cell numbers that can be extracted from blood. Here, we systematically investigate culture parameters for generating pDCs from hematopoietic stem and progenitor cells (HSPCs). Using optimized conditions combined with implementation of HSPC pre-expansion, we generate an average of 465 million HSPC-derived pDCs (HSPC-pDCs) starting from 100,000 cord blood-derived HSPCs. Furthermore, we demonstrate that such protocol allows HSPC-pDC generation from whole blood HSPCs, and these cells display a pDC phenotype and function. Using GMP compliant medium, we observe a remarkable loss of TLR7/9 responses, which is rescued by ascorbic acid supplementation. Ascorbic acid induces transcriptional signatures associated with pDC-specific innate immune pathways suggesting an undescribed role of ascorbic acid for pDC functionality. This constitutes the first protocol for generating pDCs from whole blood, and lay the foundation for investigating HSPC-pDCs for cell-based immunotherapy.</p>
Source data for: Human monoclonal antibodies against Staphylococcus aureus surface antigens recognize in vitro biofilm and in vivo implant infections
<p class="CxSpFirst">Implant-associated <i>Staphylococcus aureus</i> infections are difficult to treat because of biofilm formation. Bacteria in a biofilm are often insensitive to antibiotics and host immunity. Monoclonal antibodies (mAbs) could provide an alternative approach to improve the diagnosis and potential treatment of biofilm-related infections. Here we show that mAbs targeting common surface components of <i>S. aureus</i> can recognize clinically relevant biofilm types. The mAbs were also shown to bind a collection of clinical isolates derived from different biofilm-associated infections (endocarditis, prosthetic joint, catheter). We identify two groups of antibodies: one group that uniquely binds <i>S. aureus </i>in biofilm state and one that recognizes <i>S. aureus </i>in both biofilm and planktonic state. Furthermore, we show that a mAb recognizing wall teichoic acid (WTA; clone 4497) specifically localizes to a subcutaneously implanted pre-colonized catheter in mice. In conclusion, we demonstrate the capacity of several human mAbs to detect <i>S. aureus</i> biofilms<i> in vitro</i> and <i>in vivo</i>.</p>
In Vivo Near-Infrared Imaging Using Ternary Selenide Semiconductor Nanoparticles with an Uncommon Crystal Structure
<p>Dataset of </p> <table> <tbody> <tr> <td>https://zenodo.org/record/5793282#.YcCG4GjMJPY</td> </tr> </tbody> </table>
Infrared-Emitting Multimodal Nanostructures for Controlled In Vivo Magnetic Hyperthermia
<p>Dataset of https://zenodo.org/record/5034409#.YcmFH2jMJPZ</p>
Treatment with 3-aminobenzamide during ex vivo lung perfusion of damaged rat lungs reduces graft injury and dysfunction after transplantation
<p>Ex vivo lung perfusion (EVLP) with pharmacological reconditioning may increase donor lung utilization for transplantation (LTx). 3-Aminobenzamide (3-AB), an inhibitor of poly (ADP-ribose) polymerase (PARP), reduces ex vivo lung injury in rat lungs damaged by warm ischemia (WI). Here we determined the effects of 3-AB reconditioning on graft outcome after LTx. Three groups of donor lungs were studied: Control (Ctrl): 1 hour WI + 3 hours cold ischemia (CI) + LTx; EVLP: 1 hour WI + 3 hours EVLP + LTx; EVLP + 3-AB: 1 hour WI + 3 hours EVLP + 3-AB (1 mg<sup>.</sup>mL<sup>−1</sup>) + LTx. Two hours after LTx, we determined lung graft compliance, edema, histology, neutrophil counts in bronchoalveolar lavage (BAL), mRNA levels of adhesion molecules within the graft, as well as concentrations of interleukin-6 and 10 (IL-6, IL-10) in BAL and plasma. 3-AB reconditioning during EVLP improved compliance and reduced lung edema, neutrophil infiltration, and the expression of adhesion molecules within the transplanted lungs. 3-AB also attenuated the IL-6/IL-10 ratio in BAL and plasma, supporting an improved balance between pro- and anti-inflammatory mediators. Thus, 3-AB reconditioning during EVLP of rat lung grafts damaged by WI markedly reduces inflammation, edema, and physiological deterioration after LTx, supporting the use of PARP inhibitors for the rehabilitation of damaged lungs during EVLP.</p>
Effects of cold or warm ischemia and ex-vivo lung perfusion on the release of damage associated molecular patterns and inflammatory cytokines in experimental lung transplantation
<p>Lung transplantation (LTx) is associated with sterile inflammation, possibly related to the release of damage associated molecular patterns (DAMPs) by injured allograft cells. We have measured cellular damage and the release of DAMPs and cytokines in an experimental model of LTx after cold or warm ischemia and examined the effect of pretreatment with ex-vivo lung perfusion (EVLP).</p>
Synapsin II Directly Suppresses Epileptic Seizures in Vivo
<p>Videorecordings of seizure activity </p>
SCOUT in vivo Data
<p>Data and analysis for <em>in vivo</em> recordings associated with SCOUT.</p>
On following pages: 462. Gray Rice Rat (Eremoryzomys polius); 463. Medium-tailed Rice Rat (Eremoryzomys mesocaudis Brazilian False Rice Rat (Pseudoryzomys simplex); 467. Venezuelan Marsh Rat (Holochilus venezuelae); 468. Amazonian (Holochilus brasiliensis); 471. Crafty Marsh Rat (Holochilus vulpinus); 472. Lagiglia's Marsh Rat (Holochilus lagiglia Rat (Cerradomys maracajuensis); 476. Lindbergh's Rice Rat (Cerradomys scott); 477. Akroa Rice Rat (Cerradomys Goytaca Rice Rat (Cerradomys goytaca); 481. Ucayali Water Rat (Amphinectomys savamis); 482. Trinidad Water Rat Rat (Nectomys apicalis); 485. South American Water Rat (Nectomys rattus); 486. Atlantic Water Rat (Nectomys squamipes), 464. Lund''s Water Rat (Lundomys molitor); 465. Paraguayan Rice Rat (Sooretamys angouya); 466. Marsh Rat (Holochilus sciureus); 469. Chacoan Marsh Rat (Holochilus chacarius); 470. Brazilian Marsh Rat); 473. Langguth's Rice Rat (Cerradomys langguthi); 474. Vivo's Rice Rat (Cerradomys vivoi); 475. Maracaju Rice akroal); 478. Marinho's Rice Rat (Cerradomys marinhus); 479. Terraced Rice Rat (Cerradomys subflavus); 480. (Nectomys palmipes); 483. Magdalena Water Rat (Nectomys magdalenae); 484. Western Amazonian Water ). in Cricetidae
On following pages: 462. Gray Rice Rat (Eremoryzomys polius); 463. Medium-tailed Rice Rat (Eremoryzomys mesocaudis Brazilian False Rice Rat (Pseudoryzomys simplex); 467. Venezuelan Marsh Rat (Holochilus venezuelae); 468. Amazonian (Holochilus brasiliensis); 471. Crafty Marsh Rat (Holochilus vulpinus); 472. Lagiglia's Marsh Rat (Holochilus lagiglia Rat (Cerradomys maracajuensis); 476. Lindbergh's Rice Rat (Cerradomys scott); 477. Akroa Rice Rat (Cerradomys Goytaca Rice Rat (Cerradomys goytaca); 481. Ucayali Water Rat (Amphinectomys savamis); 482. Trinidad Water Rat Rat (Nectomys apicalis); 485. South American Water Rat (Nectomys rattus); 486. Atlantic Water Rat (Nectomys squamipes), 464. Lund''s Water Rat (Lundomys molitor); 465. Paraguayan Rice Rat (Sooretamys angouya); 466. Marsh Rat (Holochilus sciureus); 469. Chacoan Marsh Rat (Holochilus chacarius); 470. Brazilian Marsh Rat); 473. Langguth's Rice Rat (Cerradomys langguthi); 474. Vivo's Rice Rat (Cerradomys vivoi); 475. Maracaju Rice akroal); 478. Marinho's Rice Rat (Cerradomys marinhus); 479. Terraced Rice Rat (Cerradomys subflavus); 480. (Nectomys palmipes); 483. Magdalena Water Rat (Nectomys magdalenae); 484. Western Amazonian Water ).
In vivo probabilistic atlas of white matter tracts of the human subthalamic area combining track density imaging and optimized diffusion tractography
<p>Sample code to reproduce the results of the paper "In vivo probabilistic atlas of white matter tracts of the human subthalamic area combining track density imaging and optimized diffusion tractography", by Basile et al., Brain Structure and Function 2022. </p> <p>The repository also includes the probabilistic atlas of the human subthalamic area.</p>
Ex-vivo meritve - posnetki termalne kamere
<p>Posnetki termalne kamere tekom hipertermične laserske lipolize na homogenem in heterogenem svinjskem tkivu</p>
In-vivo, high-resolution black-blood MRI in healthy rats at 7T
<p>Raw data, which were used to obtain the results shown in the article "In-vivo, high-resolution black-blood MRI in healthy rats at 7T".</p>
In vivo reduction of age-dependent neuromelanin accumulation mitigates features of Parkinson's disease
<p>Supplementary datasets (Supplementary tables 1 to 10)</p>
Metabolite-induced in vivo fabrication of substrate-free organic bioelectronics
<p>Dataset accompanying paper: Metabolite-induced in vivo fabrication of substrate-free organic bioelectronics. </p> <p>Corresponding author: M. Berggren</p>
Capturing alterations of intracellular-extracellular lactate distribution in the brain using diffusion-weighted MR spectroscopy in vivo
Open the record for dataset details and reuse information.
Cartilage Responses to Inflammatory Stimuli and Adipose Stem/Stromal Cell-Derived Conditioned Medium: Results from an Ex Vivo Model
Open the record for dataset details and reuse information.
A novel microfluidic tool for the evaluation of local drug delivery systems in simulated in vivo conditions
Open the record for dataset details and reuse information.
In vivo intracellular recording in the mouse V1 during passive visual stimulations and audiovisual discrimination task
<p>Whole cell recordings (Vm channel) performed in the layer 2/3 primary visual cortex (V1) of awake mice. Recordings are performed in current clamp (Im channel). A local ECoG was placed on the dura in the vincinity of the recorded neuron. Vistim channels indicate the orientation of the drifting grating (Vistim 1 frequency), contrast (Vistim 1 amplitude), temporal frequency (Vistim 2 frequency), and spatial frquency (Vistim 2 amplitude). The diode signal indicates the exact timing of the stimulus presentation. The two mouse channels (Mouse1 adn Mouse2) indicate the movement of the spherical treadmill on which the animal is standing. In the behavior database, the mice are performing a behavioral task (additional information can be found in those files: licking channel, auditory channel (one of two tones) reward (laser channel)). The script and the data are using an Igor Pro format. For converting the two mouse signals into locomotion, please refer to the script AnalysisMouseWaveProc.ipf or the functions imbeded in LoadExperiments 2013.ipf . Those data have been used for the article Einstein et al., 2017 (https://doi.org/10.1523/JNEUROSCI.3868-16.2017). The excel sheet provides additional information about the recording. If you want to open the ibw files directly in Matlab, use IBWread, m file</p> <p> </p>
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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.