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25 results for “branching morphogenesis”
Competitive branching: the morphogenesis of tidal creek networks
<p>Data and codes used in the paper entitled "<strong>Competitive branching: the morphogenesis of tidal creek networks</strong>".</p>
Source data for the manuscript "Theory of branching morphogenesis by local interactions and global guidance"
<p>The zip file includes source data used in the main text of the manuscript "Theory of branching morphogenesis by local interactions and global guidance", as well as a representative Jupyter notebook to reproduce the main figures. A sample script for the simulations of branching and annihilating random walks is also included (Sample_script_for_simulations_of_BARWs.ipynb) to generate exemplary branched networks under external guidance. A detailed description of the simulation setup is provided in the supplementary information of the manuscipt.</p>
Data from: Ret and Etv4 promote directed movements of progenitor cells during renal branching morphogenesis
Branching morphogenesis of the epithelial ureteric bud forms the renal collecting duct system and is critical for normal nephron number, while low nephron number is implicated in hypertension and renal disease. Ureteric bud growth and branching requires GDNF signaling from the surrounding mesenchyme to cells at the ureteric bud tips, via the Ret receptor tyrosine kinase and coreceptor Gfrα1; Ret signaling up-regulates transcription factors Etv4 and Etv5, which are also critical for branching. Despite extensive knowledge of the genetic control of these events, it is not understood, at the cellular level, how renal branching morphogenesis is achieved or how Ret signaling influences epithelial cell behaviors to promote this process. Analysis of chimeric embryos previously suggested a role for Ret signaling in promoting cell rearrangements in the nephric duct, but this method was unsuited to study individual cell behaviors during ureteric bud branching. Here, we use Mosaic Analysis with Double Markers (MADM), combined with organ culture and time-lapse imaging, to trace the movements and divisions of individual ureteric bud tip cells. We first examine wild-type clones and then Ret or Etv4 mutant/wild-type clones in which the mutant and wild-type sister cells are differentially and heritably marked by green and red fluorescent proteins. We find that, in normal kidneys, most individual tip cells behave as self-renewing progenitors, some of whose progeny remain at the tips while others populate the growing UB trunks. In Ret or Etv4 MADM clones, the wild-type cells generated at a UB tip are much more likely to remain at, or move to, the new tips during branching and elongation, while their Ret−/− or Etv4−/− sister cells tend to lag behind and contribute only to the trunks. By tracking successive mitoses in a cell lineage, we find that Ret signaling has little effect on proliferation, in contrast to its effects on cell movement. Our results show that Ret/Etv4 signaling promotes directed cell movements in the ureteric bud tips, and suggest a model in which these cell movements mediate branching morphogenesis.
Data from: Ret and Etv4 promote directed movements of progenitor cells during renal branching morphogenesis
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Transmural pressure is a master regulator of airway branching morphogenesis
GEO Series GSE90148. Mus musculus. 15 samples. Type: Expression profiling by high throughput sequencing.
Positional cues underlie cell fate specification during branching morphogenesis of the embryonic mammary epithelium
GEO Series GSE210594. Mus musculus. 4 samples. Type: Expression profiling by high throughput sequencing.
Gene expression dynamics of branching morphogenesis in pancreatic cancer organoids
GEO Series GSE200308. Mus musculus. 23 samples. Type: Expression profiling by high throughput sequencing.
A Grhl2-dependent gene network controls trophoblast branching morphogenesis
GEO Series GSE65963. Mus musculus. 14 samples. Type: Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing.
A Grhl2-dependent gene network controls trophoblast branching morphogenesis [ChIP-seq]
GEO Series GSE65962. Mus musculus. 2 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Amniotic fluid stem cell extracellular vesicle therapy improves lung growth and branching morphogenesis in fetal hypoplastic lungs secondary to oligohydramnios
GEO Series GSE247978. Rattus norvegicus. 9 samples. Type: Expression profiling by high throughput sequencing.
Analysis of gene network branching during optic cup morphogenesis in zebrafish
GEO Series GSE150189. Danio rerio. 4 samples. Type: Genome binding/occupancy profiling by high throughput sequencing.
Gene expression dynamics of branching morphogenesis in pancreatic cancer organoids (2)
GEO Series GSE261159. Homo sapiens; Mus musculus. 181 samples. Type: Expression profiling by high throughput sequencing.
Lin28a and Lin28b are required for lung branching morphogenesis and epithelial cell differentiation via coordination of signaling pathway feedback loops in a let7-independent manner
GEO Series GSE93571. Mus musculus. 3 samples. Type: Expression profiling by high throughput sequencing.
Analysis of gene network branching during optic cup morphogenesis in zebrafish (RNA-Seq)
GEO Series GSE150346. Danio rerio. 15 samples. Type: Expression profiling by high throughput sequencing.
HNF1B controls epithelial organization and cell polarity during ureteric bud branching and collecting duct morphogenesis
GEO Series GSE106085. Mus musculus. 4 samples. Type: Expression profiling by high throughput sequencing.
A Grhl2-dependent gene network controls trophoblast branching morphogenesis [array]
GEO Series GSE65960. Mus musculus. 12 samples. Type: Expression profiling by array.
Epithelial inactivation of Yy1 abrogates lung branching morphogenesis
GEO Series GSE66171. Mus musculus. 12 samples. Type: Expression profiling by array.
Time course gene expression profiling of mouse mammary gland TEB and duct cells throughout branching morphogenesis
GEO Series GSE57724. Mus musculus. 50 samples. Type: Expression profiling by array.
FGF-regulated Sox9 and Sox10 are required for the formation and branching morphogenesis of mouse ocular glands
GEO Series GSE54802. Mus musculus. 12 samples. Type: Expression profiling by array.
A comprehensive analysis of fibroblast growth factor receptor 2b signalling on epithelial tip progenitor cells during early mouse lung branching morphogenesis
GEO Series GSE124157. Mus musculus. 28 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)
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
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