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301 results for “primary culture”
Zellige example dataset: primary culture of human bronchial cells infected by SARS-CoV-2
<p>A human bronchial epithelium was infected by SARS-CoV-2. The specimen was imaged four days post-infection. The z-stack image encompasses the very irregular epithelium surface. It was acquired with a point scanning microscope (Zeiss LSM700) equipped with Zeiss Plan-Apochromat 63x lens (NA=1.4). Pixel size 0.110µm, z step 0.4µm. This dataset contains both the ground-truth height map and the height map generated with Zellige. The Zellige parameters used are: <span class="math-tex">\(T_{A}=23, T_{otsu}=16, S_{min}=5, \sigma_{xy}=4, \sigma_{z}=1, T_{OSE1}=0.9, R_{1}=5, C_{1}=0.9, T_{OSE2}=0.1, R_{2}=5, C_{2}=0.8.\)</span>.</p> <p>Nota: to compare the ground truth height map with the Zellige height map, one first needs to substrat 1 to all values of the Zellige height map.</p> <p>See the related paper:<br> <a href="https://hal-pasteur.archives-ouvertes.fr/pasteur-03319522">https://hal-pasteur.archives-ouvertes.fr/pasteur-03319522</a></p> <p>See the accompanying paper: Extracting multiple surfaces from 3D microscopy images in complex biological tissues with the Zellige software tool. Trébeau <em>et al.</em> 2022: <a href="https://doi.org/10.1101/2022.04.05.485876">https://doi.org/10.1101/2022.04.05.485876</a></p> <p> </p>
Confocal microscopy images (CZI files) of human chondrocytes in different cell culture media with stained nuclei and primary cilia
<p>1. Methods</p> <p>1.1 Cell culture</p> <p>For investigating the influence of the cell culture medium composition on the lengths of primary cilia, human non-degenerative chondrocytes from a 30-year-old male donor (NHAC-kn, CC-2550; LONZA, Walkersville Inc., Walkersville, MD, USA) were used. These chondrocytes were seeded in passage four with a density of 28000 cells/cm<sup>2</sup> on collagen-coated glass coverslips (GG-15-Collagen; Neuvitro Corporation, Camas, WA, USA). The cells were cultivated in 12-well plates (Thermo Fisher Scientific Inc., Waltham, MA, USA) under hypoxic conditions at 37°C, 5% CO<sub>2</sub> and 5% O<sub>2</sub> with different media compositions for three days.<br> The basal medium consisted of Dulbecco’s Modified Eagle Medium (DMEM) (Gibco™) including high glucose (GlutaMAX™), sodium pyruvate supplements (Thermo Fisher Scientific Inc., Waltham, MA, USA), as well as 1% penicillin/streptomycin (Pen/Strep; Thermo Fisher Scientific Inc.), 1% Amphotericin B (Biochrom GmbH, Berlin, Germany), and 50 µg mL<sup>−1</sup> ascorbic acid (Sigma-Aldrich, Merck KGaA, Darmstadt, Germany). To this basal medium, different supplements were added, creating four groups:<br> 1) ITS: 1% Insulin-Transferrin-Selenium (ITS+™ Premix, BD Biosciences, Franklin Lakes, NJ, USA),<br> 2) ITS with Dexa: 1% Insulin-Transferrin-Selenium (ITS+™) and 100 nM dexamethasone (Sigma-Aldrich, Merck KGaA, Darmstadt, Germany),<br> 3) ITS with Dexa + IGF-1 + TGF-β1: 1% Insulin-Transferrin-Selenium (ITS+™), 100 nM dexamethasone, 50 ng mL<sup>−1</sup> insulin-like growth factor (IGF)-1 (R&D Systems, Minneapolis, MN, USA) and 50 ng mL<sup>−1</sup> transforming growth factor (TGF)-β1 (Peprotec, Hamburg, Germany),<br> 4) FBS: 10% fetal bovine serum (FBS, Pan Biotech, Aidenbach, Germany).</p> <p>1.2 Immunocytochemistry</p> <p>After three days of cultivation in the different media compositions, the chondrocytes were washed once with phosphate-buffered saline (PBS; Biochrom GmbH, Berlin, Germany) and fixed for 10 min at room temperature (RT) with 4% paraformaldehyde (ROTI ® Histofix, Carl Roth GmbH + Co. KG, Karlsruhe, Germany). After fixation, cells were washed again and permeabilized with 0.2% Triton-X100 (Merck, Darmstadt, Germany) for 10 min. For blocking the unspecific binding sites, cell-seeded coverslips were incubated with bovine serum albumin (BSA; Sigma-Aldrich) with a concentration of 5% in PBS for one hour at RT after another washing step with PBS. To stain the primary cilium, cells were incubated with anti-acetylated α-tubulin (6-11B-1) (RRID: AB 628409) labeled with Alexa Fluor 647 (sc-23950 AF647, Santa Cruz Biotechnology, Dallas, TX, USA) diluted 1:200 in PBS at 4°C overnight. Additionally, the Actin cytoskeleton was stained with Acti-stain 488 Fluorescent Phalloidin (Cytoskeleton, Inc., Denver, CO, USA) diluted 10 in PBS for 30 min at RT. Afterward, cells were washed three times with PBS, and the coverslips were fixed with Fluoroshield™ (Sigma-Aldrich) containing 4’,6-Diamidino-2-phenylindole (DAPI).</p> <p>1.3 Image acquisition</p> <p>Three-dimensional fluorescence images of stained cells were acquired with a ZEISS ELYRA LSM 780 confocal laser scanning microscope (CLSM) (Carl Zeiss AG, Oberkochen, Germany). Images were recorded using a Plan-Apochromat 63×/1.40 Oil DIC M27 objective (Carl Zeiss AG, Oberkochen, Germany). The distance of two layers was 0.2814 µm and the resolution 1024 × 1024 pixels (scan magnification: 0.6, pixel length: 0.2196 µm).</p>
Figure 6 in Potential neuroprotective of trans-resveratrol a promising agent tempeh and soybean seed coats-derived against beta-amyloid neurotoxicity on primary culture of nerve cells induced by 2-methoxyethanol
Figure 6. Treatment Group with resveratrol standard after induced by Beta-Amyloid (10 x10).
Figure 3 in Potential neuroprotective of trans-resveratrol a promising agent tempeh and soybean seed coats-derived against beta-amyloid neurotoxicity on primary culture of nerve cells induced by 2-methoxyethanol
Figure 3. Treatment group: 2- ME + Resveratrol isolated from Tempeh (10 x10).
Figure 8 in Potential neuroprotective of trans-resveratrol a promising agent tempeh and soybean seed coats-derived against beta-amyloid neurotoxicity on primary culture of nerve cells induced by 2-methoxyethanol
Figure 8. Treatment Group with resveratrol tempeh + 2-ME after induced by Beta-Amyloid (10 x10).
Figure 5 in Potential neuroprotective of trans-resveratrol a promising agent tempeh and soybean seed coats-derived against beta-amyloid neurotoxicity on primary culture of nerve cells induced by 2-methoxyethanol
Figure 5. Treatment group: 2- ME (10 x10).
Figure 9. Treatment Group with 2 in Potential neuroprotective of trans-resveratrol a promising agent tempeh and soybean seed coats-derived against beta-amyloid neurotoxicity on primary culture of nerve cells induced by 2-methoxyethanol
Figure 9. Treatment Group with 2-ME after induced by Beta-Amyloid (10 x10).
Figure 2 in Potential neuroprotective of trans-resveratrol a promising agent tempeh and soybean seed coats-derived against beta-amyloid neurotoxicity on primary culture of nerve cells induced by 2-methoxyethanol
Figure 2. Treatment group: 2- ME + Resveratrol Standard (10 x10).
Figure 1 in Potential neuroprotective of trans-resveratrol a promising agent tempeh and soybean seed coats-derived against beta-amyloid neurotoxicity on primary culture of nerve cells induced by 2-methoxyethanol
Figure 1. Control Group (10 x10).
Table 4 in Potential neuroprotective of trans-resveratrol a promising agent tempeh and soybean seed coats-derived against beta-amyloid neurotoxicity on primary culture of nerve cells induced by 2 - methoxyethanol
<p><b>Table 4.</b> Cytotoxic effect of various concentrations of Resveratrol and 2-Methoxyethanol Against Primary Neuron cell viability in MTT assay (570 nm).</p><table><tbody><tr><th><b>% Inhibition</b></th></tr></tbody><tbody><tr><th><b>Concentration of 2-Methoxyethanol</b></th><td><b>2-ME (10mM)</b></td><td><b>2-ME (10mM)</b></td><td><b>2-ME (10mM)</b></td></tr><tr><th><b>and Resveratrol</b></th><td><b>Resveratrol (Standard)</b></td><td><b>Resveratrol (Tempeh)</b></td><td><b>Resveratrol (Soybean Seed Coat)</b></td></tr><tr><th>IC50</th><td>(17.38 ± 0.99 µg/mL)</td><td>(31.14 ± 0.02 µg/mL)</td><td>(13.40 ± 0.30 µg/mL)</td></tr><tr><th>1.4 (µg/mL)</th><td>12.57</td><td>0</td><td>11.98</td></tr><tr><th>2.8 (µg/mL)</th><td>4.59</td><td>1.75</td><td>17.03</td></tr><tr><th>4.2 (µg/mL)</th><td>0</td><td>0</td><td>0</td></tr></tbody></table>
Table 3 in Potential neuroprotective of trans-resveratrol a promising agent tempeh and soybean seed coats-derived against beta-amyloid neurotoxicity on primary culture of nerve cells induced by 2 - methoxyethanol
<p><b>Table 3.</b> Cytotoxic effect of various concentrations of Resveratrol and 2-Methoxyethanol Against Primary Neuron cell viability in MTT assay (540 nm).</p><table><tbody><tr><th><b>% Inhibition</b></th></tr></tbody><tbody><tr><th><b>Concentration of 2-Methoxyethanol</b></th><td><b>2-ME (10mM)</b></td><td><b>2-ME (10mM)</b></td><td><b>2-ME (10mM)</b></td></tr><tr><th><b>and Resveratrol</b></th><td><b>Resveratrol (Standard)</b></td><td><b>Resveratrol (Tempeh)</b></td><td><b>Resveratrol (Soybean Seed Coat)</b></td></tr><tr><th>IC50</th><td>(17.64 ± 0.99 µg/mL)</td><td>(32.22 ± 1.18 µg/mL)</td><td>(17.43 ± 0.16 µg/mL)</td></tr><tr><th>1.4 (µg/mL)</th><td>11.8</td><td>0</td><td>7.95</td></tr><tr><th>2.8 (µg/mL)</th><td>5.27</td><td>0</td><td>14.41</td></tr><tr><th>4.2 (µg/mL)</th><td>0</td><td>0</td><td>0</td></tr></tbody></table>
Table 2 in Potential neuroprotective of trans-resveratrol a promising agent tempeh and soybean seed coats-derived against beta-amyloid neurotoxicity on primary culture of nerve cells induced by 2 - methoxyethanol
<p><b>Table 2.</b> Effect of Various concentrations of Resveratrol and 2-Methoxyethanol against Primary Neuron cell viability (570 nm).</p><table><tbody><tr><th><b>% Cell Viability</b></th></tr></tbody><tbody><tr><th><b>Concentration of 2-Methoxyethanol</b></th><td><b>2-ME (10mM)</b></td><td><b>2-ME (10mM)</b></td><td><b>2-ME (10mM)</b></td></tr><tr><th><b>and Resveratrol</b></th><td><b>Resveratrol (Standard)</b></td><td><b>Resveratrol (Tempeh)</b></td><td><b>Resveratrol (Soybean Seed Coat)</b></td></tr><tr><th>1.4 (µg/mL)</th><td>87.43</td><td>100</td><td>88.02</td></tr><tr><th>2.8 (µg/mL)</th><td>95.41</td><td>98.25</td><td>82.97</td></tr><tr><th>4.2 (µg/mL)</th><td>100</td><td>100</td><td>100</td></tr></tbody></table>
Table 1 in Potential neuroprotective of trans-resveratrol a promising agent tempeh and soybean seed coats-derived against beta-amyloid neurotoxicity on primary culture of nerve cells induced by 2 - methoxyethanol
<p><b>Table 1.</b> Effect of Various concentrations of Resveratrol and 2-Methoxyethanol against Primary Neuron cell viability (540 nm).</p><table><tbody><tr><th><b>% Cell Viability</b></th></tr></tbody><tbody><tr><th><b>Concentration of 2-Methoxyethanol</b></th><td><b>2-ME (10mM)</b></td><td><b>2-ME (10mM)</b></td><td><b>2-ME (10mM)</b></td></tr><tr><th><b>and Resveratrol</b></th><td><b>Resveratrol (Standard)</b></td><td><b>Resveratrol (Tempeh)</b></td><td><b>Resveratrol (Soybean Seed Coat)</b></td></tr><tr><th>1.4 (µg/mL)</th><td>88.2</td><td>100</td><td>92.05</td></tr><tr><th>2.8 (µg/mL)</th><td>94.73</td><td>100</td><td>85.59</td></tr><tr><th>4.2 (µg/mL)</th><td>100</td><td>100</td><td>100</td></tr></tbody></table>
Primary Cell Culture of Hepatic Tumorous Cells From Routine Fine-needle Aspiration
ClinicalTrials.gov study NCT01549275. IPD Sharing: Not stated. Countries: 1. Publications: 1.
Culture media strongly influences primary human bronchial epithelial cells' transcriptomic response to ozone exposure
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Effect of hexanediol treatment on clusters of RNA polymerase II in zebrafish embryo primary cell culture
<p>This data set assesses changes in RNA polymerase II clusters upon treatment with 3% 1,6-hexanediol in zebrafish embryos. RNA polymerase was labeled by immunofluorescence, microscopy images were acquired by instant-SIM microscopy and analyzed using MatLab scripts and the bioformats importer. This data set contains the raw image data as well as all further analysis scripts.</p>
Data from: Immune Transcriptional Response in Head Kidney Primary Cell Cultures Isolated from the Three Most Important Species in Chilean Salmonids Aquaculture.
<p>Data from Immune Transcriptional Response in Head Kidney Primary Cell Cultures Isolated from the Three Most Important Species in Chilean Salmonids Aquaculture. Files in .JBN and .xlsx format</p>
Virtual Screening and Testing of GSK-3 Kinase Inhibitors Using human SH-SY5Y Neuronal cells Expressing Tau Folding Reporter and Mouse Hippocampal Primary Neuron Culture Under Tau Cytotoxicity
<p>Supplementary Figure S1. for IJMS</p>
PDMS microstructures and rGO MEA primary hippocampal cultures
<p>CLSM images and videos of primary hippocampal cultures. Used as supporting information for various chapters of my doctorl thesis.</p>
Nasal organoids as optimal models for studying structure and function of primary nasal epithelial cell cultures - DIA-MS Dataset
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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.