Similar studies for GEO DataSets (Select 200075583) - GEO DataSets

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Items: 20

Select item 2000755831.

Single epicardial cell transcriptome sequencing identifies Caveolin-1 as an essential factor in zebrafish heart regeneration

(Submitter supplied) By contrast with mammals, adult zebrafish have a high capacity to regenerate damaged or lost myocardium through proliferation of spared cardiomyocytes. The epicardial sheet covering the heart is activated by injury and aids muscle regeneration through paracrine effects and as a multipotent cell source, and has received recent attention as a target in cardiac repair strategies. While it is recognized that epicardium is required for muscle regeneration and itself has high regenerative potential, the extent of cellular heterogeneity within epicardial tissue is largely unexplored. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL14875
40 Samples

Download data: TXT

Series

Accession:: GSE75583

ID:: 200075583

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001725112.

hapln1 defines an epicardial cell subpopulation that establishes cardiogenic hotspots during heart morphogenesis and regeneration

(Submitter supplied) The epicardium, a thin mesothelial tissue layer that encompasses the heart, is a dynamic structure that is essential for cardiac regeneration in species with elevated regenerative capacity like zebrafish. To dissect epicardial cell states and associated pro-regenerative functions, we performed single-cell RNA-sequencing and identified 7 epicardial cell clusters in adult zebrafish, with 3 of these clusters enhanced during regeneration. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL25922
2 Samples

Download data: MTX, TSV

Series

Accession:: GSE172511

ID:: 200172511

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2000894443.

Identification of enhancer regulatory elements that direct epicardial gene expression during zebrafish heart regeneration

(Submitter supplied) The epicardium is a mesothelial tissue layer that envelops the heart. Cardiac injury activates dynamic gene expression programs in epicardial tissue, which in the case of zebrafish enables subsequent regeneration through paracrine and vascularizing effects. To identify tissue regeneration enhancer elements (TREEs) that control injury-induced epicardial gene expression during heart regeneration, we profiled transcriptomes and chromatin accessibility in epicardial cells purified from regenerating zebrafish hearts. more...

Organism:: Danio rerio

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platforms:: GPL14875 GPL21741
18 Samples

Download data: BIGWIG, TXT

Series

Accession:: GSE89444

ID:: 200089444

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001681754.

Identification of targets of Vegfc signaling during cardiac regeneration in zebrafish

(Submitter supplied) Purpose:to identify with transcriptomic analysis, gene targets of Vegfc signaling during cardiac regeneration in zebrafish. Results: We were able to identify several differential expressed genes, many of which encode for immune related genes, as well as ECM components.

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
4 Samples

Download data: TXT

Series

Accession:: GSE168175

ID:: 200168175

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001745055.

Identification of Tcf21 downstream genes in the epicardial cells and cardiomyocytes by transcriptomic analysis

(Submitter supplied) Purpose: Studying the epicardium-myocardium crosstalk in the zebrafish larval heart. To do so, we aimed to identify, with RNA-seq, the genes dysregulated following the loss of the epicardial marker gene tcf21 in sorted epicardial cells and cardiomyocytes. Results: We first analyzed the transcriptome of epicardial and myocardial WT cells and identified cell-type specific/enriched genes. Then, we identified several differential expressed genes in tcf21 mutants, including several ligand-receptor couples known to mediate the epicardium-myocardium crosstalk.

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
8 Samples

Download data: TXT

Series

Accession:: GSE174505

ID:: 200174505

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 2001787516.

Distinct epicardial gene regulatory programmes drive development and regeneration of the zebrafish heart

(Submitter supplied) Unlike the adult mammalian heart, which has limited regenerative capacity, the zebrafish heart can fully regenerate following injury. Reactivation of cardiac developmental programmes is considered key to successfully regenerating the heart, yet the regulatory elements underlying the response triggered upon injury and during development remain elusive. Organ-wide activation of the epicardium is essential for zebrafish heart regeneration and is considered a potential regenerative source to target in the mammalian heart. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL20828
25 Samples

Download data: TXT

Series

Accession:: GSE178751

ID:: 200178751

PubMed Similar studies SRA Run Selector

Select item 2002028367.

An injury-associated transient progenitor state in the epicardium mediates heart regeneration

(Submitter supplied) Adult zebrafish regenerate heart muscle after severe cardiac damage without significant scarring. The epicardium, a mesothelial cell sheet covering the vetebrate heart, is activated by injury and supports muscle regeneration through paracrine effects and as a source of multipotent cells. The understudied cellular heterogeneity of the adult epicardium during heart regeneration has constrained the effort in mobilizing the epicardium for heart repair. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL21741
3 Samples

Download data: MTX, TSV

Series

Accession:: GSE202836

ID:: 200202836

PubMed Full text in PMC Similar studies

Select item 2000789458.

Fast revascularization of the injured area is essential to support zebrafish heart regeneration

(Submitter supplied) To better understand the possible mechanisms that vegfaa mutants display to compensate for the lack of vegfaa, we performed transcriptomic profiling of vegfaa+/+ and vegfaa-/- ventricles. Total RNA was isolated from hearts extracted from vegfaa+/+ and vegfaa-/- fish (8 months old) pooling 4 hearts per sample.

Organism:: Danio rerio

Type:: Expression profiling by array

Platform:: GPL20686
2 Samples

Download data: TXT

Series

Accession:: GSE78945

ID:: 200078945

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 2001468599.

Tp53 suppression promotes cardiomyocyte proliferation during zebrafish heart regeneration

(Submitter supplied) Transcriptome sequencing of uninjured and regenerating (7dpi) tp53M214K and tp53WT ventricles.

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL24776
12 Samples

Download data: TXT

Series

Accession:: GSE146859

ID:: 200146859

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20015766210.

Cardiomyocyte heterogeneity in zebrafish development and regeneration

(Submitter supplied) Contrary to adult mammals, zebrafish are able to regenerate their heart after cardiac injury. This regenerative response relies, in part, on the endogenous ability of cardiomyocytes (CMs) to dedifferentiate and proliferate to replenish the lost muscle. However, CM heterogeneity and population dynamics during development and regeneration remain poorly understood. Through comparative transcriptomic analyses of the developing and adult zebrafish heart, we identified tnnc2 and tnni4b.3 expression as markers for CMs at early and late developmental stages, respectively. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
4 Samples

Download data: TXT

Series

Accession:: GSE157662

ID:: 200157662

PubMed Similar studies SRA Run Selector

Select item 20012175011.

Functional heterogeneity within the developing zebrafish epicardium

(Submitter supplied) The epicardium is essential during cardiac development, homeostasis and repair and yet fundamental insights into its underlying cell biology, notably epicardium formation, lineage heterogeneity and functional cross-talk with other cell types in the heart, is currently lacking. In this study, we investigated epicardial heterogeneity and the functional diversity of discrete epicardial subpopulations in the developing zebrafish heart. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
661 Samples

Download data: TXT

Series

Accession:: GSE121750

ID:: 200121750

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20013921812.

Single-cell analysis uncovers that metabolic reprogramming is essential for cardiomyocyte proliferation in the regenerating heart.

(Submitter supplied) While the heart regenerates poorly in mammals, efficient heart regeneration occurs in certain amphibian and fish species. Zebrafish has been used extensively to study heart regeneration, resulting in a model in which preexisting cardiomyocytes dedifferentiate and reinitiate proliferation to replace the lost myocardium. However, there is limited knowledge about the cellular processes that occur in this rare population of proliferating cardiomyocytes during heart regeneration. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
4 Samples

Download data: CSV, TSV

Series

Accession:: GSE139218

ID:: 200139218

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20007465213.

Genome–wide transcriptional profiling with spatial resolution identifies Bone Morphogenetic Protein signaling as essential regulator of zebrafish cardiomyocyte regeneration.

(Submitter supplied) In contrast to mammals, zebrafish regenerate heart injuries via proliferation of cardiomyocytes located at the wound border. Here, we show that tomo-seq can be used to identify whole-genome transcriptional profiles of the injury zone, the border zone and the healthy myocardium. Interestingly, the border zone is characterized by the re-expression of embryonic cardiac genes that are also activated after myocardial infarction in mouse and human, including targets of Bone Morphogenetic Protein (BMP) signaling. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
2 Samples

Download data: CSV

Series

Accession:: GSE74652

ID:: 200074652

PubMed Similar studies SRA Run Selector

Select item 20013357114.

Pre-existent adult sox10+ cardiomyocytes contribute to myocardial regeneration in the zebrafish

(Submitter supplied) During heart regeneration in the zebrafish, fibrotic tissue is replaced by newly formed cardiomyocytes derived from pre-existing ones. It is unclear whether the heart is comprised of several cardiomyocyte populations bearing different capacity to replace lost myocardium. Here, using sox10 genetic fate mapping, we identified a subset of pre-existent cardiomyocytes in the adult zebrafish heart with a distinct gene expression profile that expanded massively after cryoinjury. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL23274
25 Samples

Download data: TXT

Series

Accession:: GSE133571

ID:: 200133571

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20015317015.

Prrx1b restricts fibrosis and promotes Nrg1-dependent cardiomyocyte proliferation during zebrafish heart regeneration

(Submitter supplied) Fibroblasts are activated to repair the heart following injury. Fibroblast activation in the mammalian heart leads to a permanent fibrotic scar that impairs cardiac function. In other organisms, such as zebrafish, cardiac injury is followed by transient fibrosis and scar-free regeneration. The mechanisms that drive scarring versus scar-free regeneration are not well understood. Here, we show that the homeobox-containing transcription factor Prrx1b is required for scar-free regeneration of the zebrafish heart as the loss of Prrx1b results in excessive fibrosis and impaired cardiomyocyte proliferation. more...

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL20828
4 Samples

Download data: CSV, TSV

Series

Accession:: GSE153170

ID:: 200153170

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20004891416.

Gene expression arrays of cardiomyocyte ribosome-associated RNAs during zebrafish heart regeneration

(Submitter supplied) A transgenic line cmlc2:TRAP was made to express EGFP-fused ribosomal protein L10a (EGFP-L10a) in zebrafish cardiomyocytes. Then ribosome-associated RNAs were immuoprecipitated from uninjured and injured adult cmlc2:TRAP fish to determine the differential expression changes during zebrafish heart regeneration.

Organism:: Danio rerio

Type:: Expression profiling by array

Platform:: GPL17210
9 Samples

Download data: PAIR

Series

Accession:: GSE48914

ID:: 200048914

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20007449417.

MicroRNA expression profiling of zebrafish heart regeneration

(Submitter supplied) Cardiovascular disease is the leading cause of morbidity and mortality in the Western world due to a limited regenerative capacity. In lieu of new muscle synthesis, the human heart replaces necrotic tissue with deposition of a non-contractile scar. In contrast, the adult zebrafish is endowed with a remarkable regenerative capacity, capable of de novo cardiomyocyte (CM) creation and scar tissue resolution when challenged with an acute injury. more...

Organism:: Danio rerio

Type:: Non-coding RNA profiling by array

Platform:: GPL21083
6 Samples

Download data: TXT

Series

Accession:: GSE74494

ID:: 200074494

PubMed Full text in PMC Similar studies Analyze with GEO2R

Select item 20008189318.

Genome-wide maps of histone variant H3.3 occupancy in zebrafish cardiomyocytes

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.

Organism:: Danio rerio

Type:: Genome binding/occupancy profiling by high throughput sequencing; Expression profiling by high throughput sequencing

Platform:: GPL21741
16 Samples

Download data: BED

Series

Accession:: GSE81893

ID:: 200081893

PubMed Full text in PMC Similar studies

Select item 20008186519.

Genome-wide maps of histone variant H3.3 occupancy in zebrafish cardiomyocytes [RNA]

(Submitter supplied) We report high-throughput profiling of gene expression from whole zebrafish ventricles. We profile mRNA in uninjured ventricles and those undergoing regeneration 14 days after genetic ablation. This study provides a framework for understanding transcriptional changes during adult models of regeneration.

Organism:: Danio rerio

Type:: Expression profiling by high throughput sequencing

Platform:: GPL21741
4 Samples

Download data: TXT

Series

Accession:: GSE81865

ID:: 200081865

PubMed Full text in PMC Similar studies SRA Run Selector

Select item 20008186320.

Genome-wide maps of histone variant H3.3 occupancy in zebrafish cardiomyocytes [H3K27Ac]

(Submitter supplied) We report high-throughput profiling of acetylation of lysine 27 on histone H3 from whole zebrafish ventricles. The H3K27Ac mark has been shown to be present at active enhancer elements and including regions of active chromatin. We profile H3K27Ac in uninjured cardiomyocytes and those undergoing regeneration 14 days after genetic ablation. This study provides a framework for understanding chromatin transitions during adult models of regeneration.

Organism:: Danio rerio

Type:: Genome binding/occupancy profiling by high throughput sequencing

Platform:: GPL21741
2 Samples

Download data: BED

Series

Accession:: GSE81863

ID:: 200081863

PubMed Full text in PMC Similar studies SRA Run Selector

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