Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Single-cell transcriptomics of human-skin-equivalent organoids

ABSTRACT: Single-cell transcriptomics of human-skin-equivalent organoids

PROVIDER: PRJNA787971 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR17200251.fastq.gz	Fastqsanger.gz
	SRR17200252.fastq.gz	Fastqsanger.gz
	SRR17200253.fastq.gz	Fastqsanger.gz
	SRR17200254.fastq.gz	Fastqsanger.gz
	SRR17200255.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 6

Similar Datasets

Single-cell transcriptomics of human-skin-equivalent organoids

Project description:Several methods for generating human-skin-equivalent (HSE) organoid cultures are in use to study skin biology; however, few studies thoroughly characterize these systems. To fill this gap, we use single-cell transcriptomics to compare in vitro HSEs, xenograft HSEs, and in vivo epidermis. By combining differential gene expression, pseudotime analyses, and spatial localization, we reconstruct HSE keratinocyte differentiation trajectories that recapitulate known in vivo epidermal differentiation pathways and show that HSEs contain major in vivo cellular states. However, HSEs also develop unique keratinocyte states, an expanded basal stem cell program, and disrupted terminal differentiation. Cell-cell communication modeling shows aberrant epithelial-to-mesenchymal transition (EMT)-associated signaling pathways that alter upon epidermal growth factor (EGF) supplementation. Last, xenograft HSEs at early time points post transplantation significantly rescue many in vitro deficits while undergoing a hypoxic response that drives an alternative differentiation lineage. This study highlights the strengths and limitations of organoid cultures and identifies areas for potential innovation.

2023-05-18 | GSE190695 | GEO

Single-cell transcriptomic analysis of human skin organoids during folliculogenesis

Project description:In this study, we defined a differentiation approach for guiding human pluripotent stem cells in to complex hair-bearing skin tissue, known as skin organoids. The primary goal of this single-cell RNA-sequencing analysis was to define the cellular composition of skin organoids before, during, and after the process of hair folliculogenesis. The secondary goal was to determine whether skin organoids generated using different cell lines (WA25 hESCs and DSP-GFP hiPSCs) contain similar cell types and accurately reflect features of developing fetal skin tissue.

2024-05-01 | GSE231607 | GEO

Single-cell transcriptomic analysis of immune responses within a microfluidic skin equivalent

Project description:Single-cell transcriptomic analysis of immune responses within a microfluidic skin equivalent

| PRJNA1186661 | ENA

Single-Cell Transcriptomics of Genome-Edited Kidney Organoids

Project description:Single-Cell Transcriptomics of Genome-Edited Kidney Organoids

| PRJNA559570 | ENA

Single cell transcriptomics of irradiated colorectal cancer organoids

Project description:Single cell transcriptomics of irradiated colorectal cancer organoids

| PRJEB53814 | ENA

Single-Cell Transcriptomics of Genome-Edited Kidney Organoids

Project description:We report the first use of genome-edited human kidney organoids, combined with single-cell transcriptomics, to study APOL1 risk variants at the native genomic locus in different nephron cell types. This approach captures interferon-mediated induction of APOL1 gene expression and cellular dedifferentiation with a secondary insult“second hit” of endoplasmic reticulum stress.

2020-01-24 | GSE135663 | GEO

Single-cell RNA-seq of telencephalic organoids from healthy CTRL and HD (Huntington’s disease) hESC (RUES2) grown as mono-culture or co-culture of chimeric organoids

Project description:Use of single-cell transcriptomics to test early HD selective vulnerability by comparing CTRL and HD telencephalic organoids at day 45 and 120 of differentiation. To test the influence and the interactions between healthy and HD cells, chimeric organoids composed of CTRL and HD cells juxtaposed within the same organoid were grown and analyzed by scRNAseq at day 120.

2024-07-02 | E-MTAB-12924 | biostudies-arrayexpress

Single-cell transcriptomic analysis of human skin organoids during folliculogenesis

Project description:Single-cell transcriptomic analysis of human skin organoids during folliculogenesis

| PRJNA966992 | ENA

Single cell RNA-seq of healthy mouse skin fibroblasts

Project description:Single cell RNA-seq was performed on healthy mouse skin fibroblasts. This data along with single cell transcriptomics datasets of fibroblasts from other healthy tissues was used to construct a steady state mouse fibroblast atlas.

2021-05-04 | E-MTAB-10315 | biostudies-arrayexpress

Spatial transcriptomics of fetal skin

Project description:Spatial organization of different cell types within prenatal skin across various anatomical sites is not well understood. To address this, here we have generated spatial transcriptomics data from prenatal facial and abdominal skin obtained from a donor at 10 post conception weeks. This in combination with our prenatal skin scRNA-seq dataset has helped us map the location of various identified cell types.

2024-06-04 | E-MTAB-13024 | biostudies-arrayexpress

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data