Find research datasets worth reusing
Search datasets from major research repositories and use ShareScore to quickly assess how well each record supports discovery, access, and reuse.
18
datasets available to search
ShareScore release 0.9.0
Dataset results
18 results for “cell extrusion”
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>
Data from: A novel mechanism of gland formation in zebrafish involving transdifferentiation of renal epithelial cells and live cell extrusion
Transdifferentiation is the poorly understood phenomenon whereby a terminally differentiated cell acquires a completely new identity. Here, we describe a rare example of a naturally occurring transdifferentiation in zebrafish in which kidney distal tubule epithelial cells are converted into an endocrine gland known as the Corpuscles of Stannius (CS). We find that this process requires Notch signalling and is associated with the cytoplasmic sequestration of the Hnf1b transcription factor, a master-regulator of renal tubule fate. A deficiency in the Irx3b transcription factor results in ectopic transdifferentiation of distal tubule cells to a CS identity but in a Notch-dependent fashion. Using live-cell imaging we show that CS cells undergo apical constriction en masse and are then extruded from the tubule to form a distinct organ. This system provides a valuable new model to understand the molecular and morphological basis of transdifferentiation and will ad vance efforts to exploit this rare phenomenon therapeutically.
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: A novel mechanism of gland formation in zebrafish involving transdifferentiation of renal epithelial cells and live cell extrusion
Open the record for dataset details and reuse information.
Regulation of cohesin loop extrusion underlies changes in enhancer-promoter interactions during pancreatic cell differentiation
GEO Series GSE211101. Homo sapiens. 148 samples. Type: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing.
Characterization of induced cohesin loop extrusion trajectories in living cells [BrU-seq]
GEO Series GSE278397. Homo sapiens. 9 samples. Type: Other.
Basal cell extrusion primes pluripotent cells for differentiation
GEO Series GSE213336. Mus musculus. 35 samples. Type: Expression profiling by high throughput sequencing; Methylation profiling by high throughput sequencing.
Characterization of induced cohesin loop extrusion trajectories in living cells [ATAC-seq]
GEO Series GSE278395. Homo sapiens. 6 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Characterization of induced cohesin loop extrusion trajectories in living cells [4C-seq]
GEO Series GSE278982. Homo sapiens. 14 samples. Type: Other.
Regulation of cohesin loop extrusion underlies changes in enhancer-promoter interactions during pancreatic cell differentiation (Hi-C)
GEO Series GSE210524. Homo sapiens. 12 samples. Type: Other.
Characterization of induced cohesin loop extrusion trajectories in living cells
GEO Series GSE218803. Homo sapiens. 179 samples. Type: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Other.
Characterization of induced cohesin loop extrusion trajectories in living cells [ChIP-seq]
GEO Series GSE277608. Homo sapiens. 147 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Regulation of cohesin loop extrusion underlies changes in enhancer-promoter interactions during pancreatic cell differentiation (Hi-ChIP)
GEO Series GSE210525. Homo sapiens. 78 samples. Type: Other.
Chromatin Fiber Folding Represses Transcription and Loop Extrusion in Quiescent Cells
GEO Series GSE167020. Saccharomyces cerevisiae. 88 samples. Type: Genome binding/occupancy profiling by high throughput sequencing; Other.
Characterization of induced cohesin loop extrusion trajectories in living cells [Hi-C]
GEO Series GSE281421. Homo sapiens. 3 samples. Type: Other.
Chromatin Fiber Folding Represses Transcription and Loop Extrusion in Quiescent Cells (Micro-C XL)
GEO Series GSE167019. Saccharomyces cerevisiae. 8 samples. Type: Other.
Uniform dynamics of cohesin-mediated loop extrusion in living human cells
GEO Series GSE273257. Homo sapiens. 14 samples. Type: Other.
Chromatin Fiber Folding Represses Transcription and Loop Extrusion in Quiescent Cells (ChIP-Seq)
GEO Series GSE167017. Saccharomyces cerevisiae. 80 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
ScienceDex guides
Understand access before you commit
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.