Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Mus musculus

ABSTRACT: Transcriptomic profiling maps anatomically patterned subpopulations among single embryonic cardiac cells [RNA-seq]

PROVIDER: PRJNA306360 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR3092160_1.fastq.gz	Fastqsanger.gz
	SRR3092160_2.fastq.gz	Fastqsanger.gz
	SRR3092170_1.fastq.gz	Fastqsanger.gz
	SRR3092170_2.fastq.gz	Fastqsanger.gz
	SRR3092180_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6482

Similar Datasets

Mus musculus

Project description:Transcriptomic profiling maps anatomically patterned subpopulations among single embryonic cardiac cells [qPCR]

| PRJNA352273 | ENA

Transcriptomic profiling maps anatomically patterned subpopulations among single embryonic cardiac cells

Project description:Transcriptomic profiling maps anatomically patterned subpopulations among single embryonic cardiac cells

| PRJNA352266 | ENA

Mus musculus

Project description:Gene profiling of mouse embryonic stem cell subpopulations (CBX11)

| PRJDB19980 | ENA

Tanreqing capsule enhances immunity and protects intestinal barrier function in colorectal cancer patients via gut microbiota

Project description:Interventions: experimental group:Oral Tanreqing capsule;control group:oral placebo Primary outcome(s): gut microbiota;lymphocyte subpopulations;carcino-embryonic antigen Study Design: Cohort study

| 2741297 | ecrin-mdr-crc

Mus musculus

Project description:Cardiac differentiation of embryonic stem cells recapitulates embryonic cardiac development.

| PRJNA96951 | ENA

Spatial reconstruction of single-cell gene expression

Project description:Spatial localization is a key determinant of cellular fate and behavior, but spatial RNA assays traditionally rely on staining for a limited number of RNA species. In contrast, single-cell RNA-seq allows for deep profiling of cellular gene expression, but established methods separate cells from their native spatial context. Here we present Seurat, a computational strategy to infer cellular localization by integrating single-cell RNA-seq data with in situ RNA patterns. We applied Seurat to spatially map 851 single cells from dissociated zebrafish (Danio rerio) embryos, inferring a transcriptome-wide map of spatial patterning. We confirmed Seurat’s accuracy using several experimental approaches, and used it to identify a set of archetypal expression patterns and spatial markers. Additionally, Seurat correctly localizes rare subpopulations, accurately mapping both spatially restricted and scattered groups. Seurat will be applicable to mapping cellular localization within complex patterned tissues in diverse systems. We generated single-cell RNA-seq profiles from dissociated cells from developing zebrafish embryos (late blastula stage - 50% epiboly)

2015-04-13 | E-GEOD-66688 | biostudies-arrayexpress

A spatiotemporal organ-wide gene expression and cell atlas of the developing human heart

Project description:The process of cardiac morphogenesis in humans is incompletely understood. Its full characterization requires a deep exploration of the organ-wide orchestration of gene expression with a single-cell spatial resolution. Here, we present a molecular approach that reveals the comprehensive transcriptional landscape of cell types populating the embryonic heart at three developmental stages, and which maps cell type-specific gene expression to specific anatomical domains. Spatial Transcriptomics identified unique gene profiles corresponding to distinct anatomical regions in each developmental stage. Human embryonic cardiac cell types identified by single-cell RNA-sequencing confirmed and enriched the spatial annotation of embryonic cardiac gene expression. In situ sequencing was then used to refine these results and create spatial subcellular map for the three developmental phases. Finally, we generated a publicly available web resource of the human developing heart to facilitate future studies on human cardiogenesis.

| EGAS00001003996 | EGA

Transcriptome-guided functional analyses reveal novel biological properties and regulatory heirarchy of human embryonic stem cell derived ventricular cardiomyocytes.

Project description:Profiling global gene expression of undifferentiated human embryonic stem cells, artificially derived cardiomyocytes, fetal ventricular cardiomyocytes, and adult ventricular cardiomyocytes to determine transcriptomic variation between these cell types. Total RNA extracted from 10 human samples representing four stages of cardiac development from undifferentiated stem cells to mature adult cardiac tissue.

2013-09-10 | E-GEOD-50704 | biostudies-arrayexpress

Patterned human microvascular grafts enable rapid vascularization and increase perfusion in infarcted hearts

Project description:Vascularization and efficient perfusion are long-standing challenges in cardiac tissue engineering. Here, we engineer perfusable microvascular constructs, wherein human embryonic stem cell-derived endothelial cells (hESC-ECs) are seeded both into patterned microchannels and the surrounding collagen matrix. In vitro, the hESC-ECs lining the luminal walls readily sprout and anastomose with de novo-formed endothelial tubes in the matrix under flow. When implanted on infarcted rat hearts, the perfusable microvessel grafts integrate with coronary vasculature to a greater degree than non-perfusable self-assembled constructs at 5 days post-implantation. Optical microangiography imaging reveal that perfusable grafts have 6-fold greater vascular density, 2.5-fold higher vascular velocities and >20-fold higher volumetric perfusion rates. Implantation of perfusable grafts containing additional hESC-derived cardiomyocytes show higher cardiomyocyte and vascular density. Thus, pre-patterned vascular networks enhance vascular remodeling and accelerate coronary perfusion, potentially supporting cardiac tissues after implantation. These findings should facilitate the next generation of cardiac tissue engineering design.

2018-12-24 | GSE124314 | GEO

Mus musculus

Project description:Transcriptomic analysis of 4T1 invasively-distinct subpopulations

| PRJNA1082274 | ENA