Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

E-MTAB-9639

ABSTRACT: RNA-seq of human embryonic stem cells H1 ESC cells and the differentiated NPC cells with FOXK1/2 and SIN3A knock down and the control condition.

PROVIDER: E-MTAB-9639 | ExpressionAtlas | 2025-01-23

REPOSITORIES: ExpressionAtlas

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	E-MTAB-9639-analysis-methods.tsv	Tabular
	E-MTAB-9639-analytics.tsv	Tabular
	E-MTAB-9639-atlasExperimentSummary.Rdata	Rdata
	E-MTAB-9639-configuration.xml	Xml
	E-MTAB-9639-g1_g3-mvaPlot.png	Other

Items per page:

1 - 5 of 39

Similar Datasets

RNA-seq of human embryonic stem cells H1 ESC cells and the differentiated NPC cells with FOXK1/2 and SIN3A knock down and the control condition.

Project description:RNA-seq of human embryonic stem cells H1 ESC cells and the differentiated NPC cells with FOXK1/2 and SIN3A knock down and the control condition.

| PRJEB40683 | ENA

Effect of EtOH on neural stem cells derived from human embryonic stem cells

Project description:We have performed gene expression microarray analysis to profile transcriptomic signatures affected by EtOH during neural differentiation of human embryonic stem cells H1 human embryonic stem cells were differentiated into neural rosettes and neural progenitor cells in the presence or absence of 20mM EtOH treatment. Undifferentiated passage 40 H1 cells were used as a parental control. Total RNA was isolated from biological duplicates and subjected to gene expression profiling analysis using Affymetrix Human Genome U133 plus 2.0 Array

2014-04-19 | E-GEOD-56906 | biostudies-arrayexpress

Metabolomics Workbench ST000003 - GNPS - Metabolomic analysis of mouse embryonic fibroblasts, embryonic stem cells, and induced pluripotent stem cells

Project description:mouse embryonic fibroblasts, embryonic stem cells, and induced pluripotent stem cells were compared via metabolomic analysis

2018-08-02 | MSV000082680 | GNPS

Mus musculus

Project description:Expression changes in Yy1 knock down mouse embryonic stem cells

| PRJNA155053 | ENA

Nucleosome occupancy changes in mammalian cell differentiation and reprogramming (Mnase-Seq)

Project description:Embryonic stem cells (ESCs) and induced-pluripotent stem cells (iPSCs) self-renew and differentiate into an array of cell types in vitro and in vivo. A complex network of genetic and epigenetic pathways regulates the self-renewal and differentiation of these pluripotent cells, and the structure and covalent modifications of chromatin play a prominent role in this process. We examine nucleosome occupancy in mouse and human embryonic stem cells (ESCs), induced-pluripotent stem cells (iPSCs), and differentiated cell types using MNase-seq. To address variability inherent in this technique, we developed a bioinformatic approach that enabled the identification of regions of difference (RoD) in nucleosome occupancy between pluripotent and somatic cells. The majority of changes in nucleosomal signatures that occur in differentiation are reset during reprogramming. We conclude that changes in nucleosome occupancy are a hallmark of pluripotency and likely identify key regulatory regions that play a role in determining cell identity. Micrococcal nuclease digestion of chromatin in crosslinked cells was followed by high throughput sequencing. These experiments were carried out in four mouse cell types: embryonic stem cells, induced pluripotent stem cells, somatic tail-tip fibroblasts and liver, and three human cell types: H1-OGN embryonic stem cells, H1-OGN induced pluripotent stem cells, and fibroblasts differentiated from H1-OGN ESCs. At least two replicates performed with each cell type were sequenced.

2014-07-31 | E-GEOD-59062 | biostudies-arrayexpress

Quality assurance of hematopoietic stem cells by macrophages determines stem cell clonality

Project description:There are no described quality assurance mechanisms for newly formed stem cells. We observed intimate interactions between macrophages and blood stem cells in zebrafish embryos. Stressed stem cells were marked by surface Calreticulin, which stimulates macrophage interaction as an eat me signal. Macrophage-stem cell interactions either lead to removal of cytoplasmic material and stem cell proliferation or resulted in complete stem cell engulfment. Calreticulin knock down or embryonic macrophage depletion reduced the number of stem cell clones into adulthood. Our work supports a model in which embryonic macrophages determine hematopoietic clonality by monitoring stem cell quality.

2022-02-04 | MSV000088780 | MassIVE

ChIP-seq of FOXK2 in human embryonic stem cells H1 ESC, and the differentiated mesendoderm cells and and NPC cells

Project description:In order to investigate the genome-wide binding profile of the forkhead transcription factor FOXK2 in human embryonic stem cells (ESCs) and downstream cell types, we generated the ChIP-seq data of FOXK2 in H1 ESC cells and two differentiated types of cells, mesendoderm cells and NPC cells.

2020-12-21 | E-MTAB-9630 | biostudies-arrayexpress

Genome-wide bisulfite sequencing reveals enhancer as main target of DNA methyltion in neural conversion [Bisulfite-seq]

Project description:Genome-wide bisulfite sequencing and corresponding transcriptome are analyzed together to seek for methylation target during neural differentiation H1 human embryonic stem cells are able to differentiated into neural stem cells with induction of compound C in 72h. We extracted genomic DNA from 0, 24, 48h samples during induction and measured their DNA methylation level by BS-seq.

2015-07-17 | E-GEOD-70997 | biostudies-arrayexpress

RNA-seq of human embryonic stem cells H1 ESC cells and the differentiated NPC cells with FOXK1/2 and SIN3A knock down and the control condition.

Project description:In order to investigate the genome-wide binding profile of the forkhead transcription factor FOXK2 in human embryonic stem cells (ESCs) and downstream cell types, we generated the RNA-seq data with FOXK1/2 and SIN3A siRNA in H1 ESC cells and FOXK1/2 siRNA in the differentiated NPC cells.

2021-09-08 | E-MTAB-9639 | biostudies-arrayexpress

Rna-seq transcriptome data for insulin-GFP+ cells differentiated from NEUROD1 knock out and NEUROD1+/+ control human embryonic stem cells.

Project description:Rna-seq transcriptome data for insulin-GFP+ cells differentiated from NEUROD1 knock out and NEUROD1+/+ control human embryonic stem cells.

| PRJNA507177 | ENA

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