Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

ScRNA-seq of intestinal epithelial organoids derived from human fetal duodenum

ABSTRACT: scRNA-seq of intestinal epithelial organoids derived from human fetal duodenum

PROVIDER: PRJEB54580 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other
	ERR9922130_1.fastq.gz	Fastqsanger.gz
	ERR9922130_2.fastq.gz	Fastqsanger.gz
	ERR9922131_1.fastq.gz	Fastqsanger.gz
	ERR9922131_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 7

Similar Datasets

scRNA-seq of intestinal epithelial organoids derived from human fetal duodenum

Project description:Here, we used single-cell RNA-sequencing (scRNA-seq) to profile intestinal epithelial only organoids (also known as enteroids) from human fetal duodenum after one passage of in vitro growth. Organoids were grown in the standard 25% LWRN media with either 100 ng/ml of epidermal growth factor (EGF) or 1 ng/ml of EPIREGULIN (EREG) added.

2022-07-17 | E-MTAB-11912 | biostudies-arrayexpress

Multiomic (Joint snRNA/snATAC) sequencing data of intestinal crypts and epithelial only organoids derived from human fetal duodenum

Project description:Here, we used joint single-nuclei RNA-sequencing (snRNA-seq) and single-nuclei ATAC sequencing (scATAC) to profile freshly isolated crypts from the human fetal intestine and matched intestinal epithelial only organoids (also known as enteroids) derived from these crypts after one passage of in vitro growth. Organoids were grown in the standard 25% LWRN media with either 100 ng/ml of EGF or 1 ng/ml of EREG added. Fresh crypts were not placed in culture but rather immediately frozen for multiomic processing.

2022-07-16 | E-MTAB-11908 | biostudies-arrayexpress

scRNA-seq of pluripotent stem cell derived human intestinal organoids, adult intestine, and human fetal endoderm derived organs

Project description:Here, we used single cell RNA-sequencing (scRNA-seq) to profile pluripotent stem cell derived human definitive endoderm and intestinal organoids (HIOs) at several timepoints of in vitro growth (7, 14, and 28 days) and after in vivo growth beneath the kidney capsule of a murine host (4 and 8 wks post-transplant). Additionally, we profiled HIOs grown in a non-adhesive alginate hydrogel and also CDX2 knockout HIOs. In order to benchmark the organoid cultures, we used scRNA-seq to profile primary human fetal esophagus (14.3 pcw, 16.7 pcw), stomach (6.7, 14.3, and 16.7 pcw), liver (14.4 pcw), small intestine ( 11.4 and 14.4 pcw) and colon (11.4, 14.4, and 18.9 pcw). Diverse cell lineages were captured across all tissues profiled, including: epithelium, mesenchyme, neurons, endothelium, and immune lineages.

2021-05-21 | E-MTAB-10187 | biostudies-arrayexpress

scRNA-seq of pluripotent stem cell derived human intestinal organoids

Project description:Here, we used single cell RNA-sequencing (scRNA-seq) to profile pluripotent stem cell derived human intestinal organoids (HIOs) grown in matrigel or a non-adhesive alginate hydrogel after 28 days of in vitro growth. Additionally, we used scRNA-seq to profile HIOs derived in the presence of Neuregulin 1 (NRG1) and/or EGF after 40 days of in vitro growth.

2021-05-21 | E-MTAB-10268 | biostudies-arrayexpress

Multiomic (Joint snRNA/snATAC) sequencing data of intestinal crypts and epithelial only organoids derived from human fetal duodenum

Project description:Multiomic (Joint snRNA/snATAC) sequencing data of intestinal crypts and epithelial only organoids derived from human fetal duodenum

| PRJEB54103 | ENA

scRNA-seq of human fetal intestinal jejunum tissue

Project description:Here, we performed single-cell RNA sequencing (scRNA-seq) of a human fetal jejunum tissue sample from 1 individual biological specimen age 40 weeks post conception. The data set is composed of cells from diverse intestinal lineages.

2022-02-01 | E-MTAB-11335 | biostudies-arrayexpress

scRNA-seq of human fetal intestinal ileum tissue

Project description:Here, we performed single cell RNA sequencing (scRNA-seq) of human fetal ileum tissue samples from 3 individual biological specimens ages 11.4, 14.4, and 18.9 weeks post conception. The data set is composed of over 16,000 cells from diverse intestinal lineages.

2021-02-22 | E-MTAB-9906 | biostudies-arrayexpress

scRNA-seq of pluripotent stem cell derived human intestinal organoids grown in suspension culture

Project description:Here, we used single-cell RNA-sequencing (scRNA-seq) to profile pluripotent stem cell derived human intestinal organoids (HIOs) grown in suspension culture after 28 days of in vitro growth. Grown in minigut media supplemented with EGF.

2022-02-04 | E-MTAB-11347 | biostudies-arrayexpress

scRNA-seq of pluripotent stem cell-derived human intestinal organoids grown in Epiregulin

Project description:Here, we used single-cell RNA-sequencing (scRNA-seq) to profile pluripotent stem cell-derived human intestinal organoids (HIOs) grown in media comprised of minigut media + varying concentrations of Epiregulin (EREG) 1 ng/ml, 10 ng/ml, 100 ng/ml after 28 days of in vitro growth.

2023-10-31 | E-MTAB-13463 | biostudies-arrayexpress

scRNA-seq data from GLI3 KO in brain organoids

Project description:To study the effect of GLI3 knockout in brain organoids, we collected scRNA-seq data from 45 day old brain organoids with GLI3 KO

2022-08-19 | E-MTAB-11997 | 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