Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

RNA-Seq of WT and UBQLN1 KO hESCs treatment with 5%O2 or NAC

ABSTRACT: RNA-Seq of WT and UBQLN1 KO hESCs treatment with 5%O2 or NAC

PROVIDER: PRJNA879088 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR21523023_1.fastq.gz	Fastqsanger.gz
	SRR21523023_2.fastq.gz	Fastqsanger.gz
	SRR21523024_1.fastq.gz	Fastqsanger.gz
	SRR21523024_2.fastq.gz	Fastqsanger.gz
	SRR21523025_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 24

Similar Datasets

RNA-Seq of WT and UBQLN1 KO hESCs treatment with 5%O2 or NAC

Project description:We aimed to investigate the transcriptional change after treatment with NAC or 5% O2

2024-06-26 | GSE213094 | GEO

RNA Sequencing of H1 WT hESCs, H1 QSER1 KO hESCs, H1 TET1 KO hESCs, H1 QSER1/TET1 DKO hESCs, WT Day10 EBs, QSER1 KO Day10 EBs, TET1 KO Day10 EBs, QSER1/TET1 DKO Day10 EBs, WT PP1, QSER1 KO PP1, TET1 KO PP1, and QSER1/TET1 DKO PP1.

Project description:RNA Sequencing of H1 WT hESCs, H1 QSER1 KO hESCs, H1 TET1 KO hESCs, H1 QSER1/TET1 DKO hESCs, WT Day10 embryoid bodies (EBs), QSER1 KO Day10 EBs, TET1 KO Day10 EBs, QSER1/TET1 DKO Day10 EBs, WT pancreatic progenitors (PP1), QSER1 KO PP1, TET1 KO PP1, and QSER1/TET1 DKO PP1. DNA methylation is essential to mammalian development, and dysregulation can cause serious pathological conditions. Key enzymes responsible for deposition and removal of DNA methylation are known, but how they cooperate to tightly regulate the methylation landscape remains a central question. Utilizing a knockin DNA methylation reporter, we performed a genome-wide CRISPR/Cas screen in human embryonic stem cells to discover DNA methylation regulators. The top screen hit was an uncharacterized gene QSER1, which proved to be a key guardian of bivalent promoters and poised enhancers of developmental genes, especially those residing in DNA methylation valleys (or canyons). We further demonstrate cooperation of QSER1 and TET1 through genetic and biochemical interactions to inhibit DNMT3-mediated de novo methylation and safeguard developmental programs.

2021-03-19 | GSE169209 | GEO

Project description:RNA Sequencing of H1 WT hESCs, H1 QSER1 KO hESCs, H1 TET1 KO hESCs, H1 QSER1/TET1 DKO hESCs, WT Day10 EBs, QSER1 KO Day10 EBs, TET1 KO Day10 EBs, QSER1/TET1 DKO Day10 EBs, WT PP1, QSER1 KO PP1, TET1 KO PP1, and QSER1/TET1 DKO PP1.

| PRJNA715661 | ENA

Global gene expression of SLC35F2 Knock-out (KO) H9 with control hESCs

Project description:Analysis of SLC35F2 KO hESCs compared with control hESCs. In order to investigate whether SLC35F2 KO affect pluripotency in hESCs, we performed RNA-Seq with SLC35F2 KO and control H9 cells. After establishing SLC35F2 KO hESCs, total RNA was extracted from each cell lines and RNA-Seq was performed after Quality control.

2019-03-21 | GSE128588 | GEO

Genome-wide maps of EED binding genes in WT and JARID2 KO human embryonic stem cells (hESCs)

Project description:We wanted to know whether JARID2 KO in hESCs could affect EED occupancy on chromatin.

2021-06-10 | GSE149351 | GEO

Global transcriptome analysis of WT versus HEB-/- hESCs

Project description:To examine genome-wide changes in mRNA expression, we performed RNA-Seq on HEB-/- and WT hESCs. There were 274 significant changes in mRNA expression (p<0.05) between HEB-/- and WT hESCs; 126 transcripts were lower and 148 transcripts were higher

2017-06-24 | GSE100417 | GEO

DNA methylation profiles in seven mutant hESCs and wt hESCs(control, empty vector) at 9 days

Project description:To investigate the effect of oncogenic mutations on genome-wide DNA methylation in stem cells, we performed an Infinium MethylationEPIC BeadChip assays. To clarify that the epigenetic change is caused only by one oncogenic mutation, we introduced each oncogene into individual wt hESCs, using dox to overexpress the GoF mutation gene for nine days. The DNA methylation profiles demonstrated that the seven mutant hESCs and wt hESCs as control (empty vector) were distinguished by DNA methylated gene loci.

2025-05-01 | GSE268459 | GEO

WT and ATRX KO

Project description:WT and ATRX KO

| PRJNA254835 | ENA

mRNAseq and proteomic data set of one week old WT (Chop wt/wt CkmmCre wt/wt Dars2 fl/fl), Chop KO (Chop ko/ko CkmmCre wt/wt Dars2 fl/fl), Dars2 KO (Chop wt/wt CkmmCre tg/wt Dars2 fl/fl) and DKO (Chop ko/ko CkmmCre tg/wt Dars2 fl/fl) mice

Project description:mRNAseq and proteomic data set of one week old WT (Chop wt/wt CkmmCre wt/wt Dars2 fl/fl), Chop KO (Chop ko/ko CkmmCre wt/wt Dars2 fl/fl), Dars2 KO (Chop wt/wt CkmmCre tg/wt Dars2 fl/fl) and DKO (Chop ko/ko CkmmCre tg/wt Dars2 fl/fl) mice

| PRJNA627135 | ENA

Single cell RNA-seq revealed different cell types induced by loss of ARID1A in undifferentiated and differentiation (day 10) H9 hESCs.

Project description:We reported loss of ARID1A promoted neurogenesis and inhibited cardiogenesis. Under microscopy, we observed that spontaneously differentiated cells were induced in ARID1A KO H9 hESCs cultured in mTesR medium. After cardiac differentiation for 10 days, we also observed the cell types were totally different between WT and ARID1A KO cells. We did not know what cells types were. Here scRNA-seq were used to identify the cell types in WT H9 hESCs and ARID1A KO H9 hESCs.

2020-06-19 | GSE139342 | GEO

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