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17 results for “Actin dynamics”
Movie files: Actin dynamics and the Bmp pathway drive apical extrusion of proepicardial cells.
<p>The epicardium, the outer mesothelial layer enclosing the myocardium, plays key roles in heart development and regeneration. During embryogenesis it arises from the proepicardium (PE), a cell cluster that appears in the dorsal pericardium (DP) close to the venous pole of the heart. Little is known about how the PE emerges from the pericardial mesothelium. Using the zebrafish model and a combination of genetic tools, pharmacological agents and quantitative <em>in vivo</em> imaging, we reveal that a coordinated collective movement of DP cells drives PE formation. We found that BMP signaling and the actomyosin cytoskeleton promote constriction of the DP, which enabled PE cells to extrude apically. We provide evidence that cell extrusion, which has been described in the elimination of unfit cells from epithelia and the emergence of hematopoietic stem cells, is also a mechanism for PE cells to exit an organized mesothelium and fulfil the developmental fate to form a new tissue layer, the epicardium.</p>
All-atom accelerated molecular dynamics (aMD) simulations of Filamin-A (FLNa) actin-binding Domain, immunoglobulin-like Domains 3, 4, 5, 21 and 24 to investagate the impact of known missense mutations associated with periventricular nodular heterotopia in the liveborn males
<p>Data includes all of the wild-type and mutant trajectories of accelerated all-atom molecular dynamics (aMD) simulations of Filamin-A (FLNa, the product of <em>FLNA</em> gene located on chromosome X). Wild-type proteins are from the PDB structures with IDs: 4M9P, 3HOP, 3CNK. The mutations, including R484Q that we discovered in a Turkish family, were formerly found in the liveborn males with <em>FLNA</em>-associated periventricular nodular heterotopia (PNH), who survived with the only copy of mutated <em>FLNA</em>. To understand how these mutations lead to the PNH and simultaneously allow their survival, we performed these MD simulations for the wild-type and mutant systems.</p> <p>Systems were prepared in Visual Molecular Dynamics (VMD 1.9.3) by placing them in a TIP3P water box with approximately 20 Å thickness from the protein surface and neutralizing the system by adding counter ions in the form of NaCl. Of note, only protein parts were kept for the submission to reduce the size of files. Nanoscale Molecular Dynamics (NAMD 2.13-CUDA) was used to perform MD simulations with CHARMM36m force field. For pressure and temperature controls, Nosé-Hoover Langevin barostat and Langevin thermostat were used. ShakeH algorithm of NAMD was applied for water molecule constraints. 12 Å cut-off distance was used for van der Waals interactions. Switching function starts at 10 Å and reaches zero at 14 Å. Integration time-step was 2 fs. To compute the long-range Coulomb interactions, the particle-mash Ewald method was used. After a 10000-step minimization with conjugate gradient algorithm and an equilibration for 1 ns at 298 K under NVT ensemble, production simulations were run along 100 ns. Only the production simulations were supplied in this dataset. Further details are available in the regarding configuration files.</p> <p>Resulting analysis files and scripts are included with the carbon alpha-containing dcd files of the simulations.</p> <p>This dataset is not used directly for any study, but they are preliminary results for the usage of aMD to understand rare disease mechanisms.</p> <p>Related publications:</p> <pre>Zenodo repo of classical MD for these variants: https://doi.org/10.5281/zenodo.4483108</pre> <p>Journal article based on classical MD:</p> <p>Gerlevik U, Saygı C, Cangül H, Kutlu A, Çaralan EF, Topçu Y, et al. (2022) Computational analysis of missense filamin-A variants, including the novel p.Arg484Gln variant of two brothers with periventricular nodular heterotopia. PLoS ONE 17(5): e0265400. https://doi.org/10.1371/journal.pone.0265400</p>
Files associated with coordination of actin plus-end dynamics paper.
<p>Files associated with coordination of actin plus-end dynamics paper.</p>
Indoor Daylight Photo Dynamic Therapy for Actinic Keratosis
ClinicalTrials.gov study NCT03805737. IPD Sharing: NO. Countries: 1. Publications: 10.
Actin chromobody imaging reveals sub-organellar actin dynamics
<p>This dataset contains all of the raw imaging data and quantification we used for our manuscript here: <a href="https://doi.org/10.1038/s41592-020-0926-5">https://doi.org/10.1038/s41592-020-0926-5</a></p>
Figure data: Actin dynamics and the Bmp pathway drive apical extrusion of proepicardial cells.
<p>The epicardium, the outer mesothelial layer enclosing the myocardium, plays key roles in heart development and regeneration. During embryogenesis it arises from the proepicardium (PE), a cell cluster that appears in the dorsal pericardium (DP) close to the venous pole of the heart. Little is known about how the PE emerges from the pericardial mesothelium. Using the zebrafish model and a combination of genetic tools, pharmacological agents and quantitative <em>in vivo</em> imaging, we reveal that a coordinated collective movement of DP cells drives PE formation. We found that BMP signaling and the actomyosin cytoskeleton promote constriction of the DP, which enabled PE cells to extrude apically. We provide evidence that cell extrusion, which has been described in the elimination of unfit cells from epithelia and the emergence of hematopoietic stem cells, is also a mechanism for PE cells to exit an organized mesothelium and fulfil the developmental fate to form a new tissue layer, the epicardium.</p>
Data from: Evolutionary rate covariation analysis of E-cadherin identifies Raskol as a regulator of cell adhesion and actin dynamics in Drosophila
Open the record for dataset details and reuse information.
SILAC identifies LAD1 as an oncogenic filamin binder regulating actin dynamics in response to EGF and marking aggressive breast tumors
GEO Series GSE103531. Homo sapiens. 12 samples. Type: Expression profiling by high throughput sequencing.
F-actin dynamics regulates mammalian organ growth and cell fate maintenance
GEO Series GSE116993. Mus musculus. 8 samples. Type: Expression profiling by high throughput sequencing.
TAZ is involved in breast cancer cell migration via regulating actin dynamics
GEO Series GSE264547. Homo sapiens. 6 samples. Type: Expression profiling by high throughput sequencing.
Disruption of Actin Dynamics Regulated by Rho Effector mDia1 Attenuates Pressure Overload-Induced Cardiac Hypertrophic Responses and Exacerbates Dysfunction
GEO Series GSE142697. Mus musculus. 2 samples. Type: Expression profiling by array.
miR-129-3p control cilia assembly by regulating CP110 and actin dynamics [miR-129-3p overexpression]
GEO Series GSE34846. Homo sapiens. 2 samples. Type: Expression profiling by array.
Angio-modulation in endothelial cells: an unexpected role of desmoglein-2 in regulating actin dynamics and its relevance to angiogenesis deregulation in systemic sclerosis
GEO Series GSE21547. Homo sapiens. 6 samples. Type: Expression profiling by array.
Role of Cofilin 1 pathway and actin dynamics in nuclear retinoid receptor function
GEO Series GSE31665. Homo sapiens. 12 samples. Type: Expression profiling by array.
In vivo RNAi screening identifies regulators of actin dynamics as key determinants of lymphoma progression
GEO Series GSE16090. synthetic construct; Mus musculus. 8 samples. Type: Non-coding RNA profiling by high throughput sequencing.
FBXO44 Regulates Rac1 Spatiotemporal Dynamics: An Exploitable Therapeutic Vulnerability for Actin Cytoskeleton-Targeted Treatment in Gastric Cancer
GEO Series GSE292280. Homo sapiens. 6 samples. Type: Expression profiling by high throughput sequencing.
Arc/Arg3.1 functionally defines migrating 1 dendritic cells and regulates actin dynamics
GEO Series GSE71937. Mus musculus. 12 samples. Type: Expression profiling by array.
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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.