Browse
Submit Data
Databases
API
Help

Metabolomics,Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

CutnRun of O-GlcNac in mouse ES cells in low glucose condition at 6 hours, 8 hours, and 1 week

ABSTRACT: Study of the chromatin occupancy of O-GlcNac in mouse ES cells cultivated in low glucose condition at 6 hours, 8 hours, and 1 week

INSTRUMENT(S): NextSeq 500

ORGANISM(S): Mus musculus

SUBMITTER: Nicolas Descostes

PROVIDER: E-MTAB-14309 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

CutnRun of O-GlcNac in mouse ES cells in high glucose condition

Project description:Study of the chromatin occupancy of O-GlcNac in mouse ES cells cultivated in a high glucose concentration media

2024-08-31 | E-MTAB-14308 | biostudies-arrayexpress

ChIP-seq O-GlcNac in mouse ES cells

Project description:Analysis of O-GlcNac occupancy on chromatin in mouse ES cells by ChIP-seq

2024-08-31 | E-MTAB-14310 | biostudies-arrayexpress

CutnRun directed against O-GlcNac in the human DLD-1 cell line with doxycycline treatment to induce RNA Polymerase II degradation

Project description:This experiment aimed at investigating how O-GlcNac occupancy sites are impacted by RNA Polymerase II removal upon doxycycline stimulation. These human colon adenocarcinoma DLD-1 cells express OsTIR and a cassette encoding mini-AID (mAID) and fluorescent protein mClover (mAID+mClover) at the initiation site of the endogenous Rpb1 gene locus (POLR2A) (Nagashima 2019).

2024-08-31 | E-MTAB-14307 | biostudies-arrayexpress

ATAC-seq in the differentiation system ESC to NPC upon O-GlcNAc removal

Project description:This experiment uses a transgenic cell line expressing bacterial OGA BtGH84 fused to a localization peptide (NLS) and regulated by Tet-On system. OGA is a glycosidase that removes O-GlcNAc modifications. We evaluated the changes in chromatin openness before and after O-GlcNac removal by OGA.

2024-08-31 | E-MTAB-14350 | biostudies-arrayexpress

Total RNA-seq upon degradation of OGT by siRNA

Project description:Evaluation of change in gene expression upon degradation of OGT by siRNA

2024-08-31 | E-MTAB-14313 | biostudies-arrayexpress

Nuclear mRNA-seq in the differentiation system ESC to NPC upon O-GlcNAc removal

Project description:This experiment uses a transgenic cell line expressing bacterial OGA BtGH84 fused to a localization peptide (NLS) and regulated by Tet-On system. OGA is a glycosidase that removes O-GlcNAc modifications. We evaluated the changes in gene expression before and after O-GlcNac removal by OGA.

2024-08-31 | E-MTAB-14311 | biostudies-arrayexpress

Single-cell RNA-sequencing of spinal cord ependymal cells from FOXJ1-EGFP mice

Project description:The spinal cord neural stem cell potential is contained within the ependymal cells lining the central canal. Ependymal cells are, however, heterogeneous and we know little about what this reflects. To gain new insights into ependymal cell heterogeneity, we microdissected the ependymal cell layer from the thoracic spinal cord of 4 FOXJ1-EGFP transgenic mice (2.5-to-3-month old). After after dissociating the tissue into a cell suspension, we sorted single GFP-positive ependymal cells into lysis plates. cDNA synthesis was performed using Smart-seq2 technology.

2022-12-13 | E-MTAB-11563 | biostudies-arrayexpress

HiC-sequencing in human monocyte differentiation (3D-MO)

Project description:This dataset consists of in situ HiC-seq data from human monocytes, monocyte-derived dendritic cells as well as monocyte-derived cells that were subjected to siRNA treatment targeting CTCF or RAD21. In total, the data set includes 42 samples.

2022-06-24 | E-MTAB-10848 | biostudies-arrayexpress

Single-cell RNA-sequencing of mouse thymic epithelial cells across the first year of life

Project description:The thymus shapes the T cell receptor repertoire, and is one of the first organs to rapidly age, with gross changes in cellularity and architecture. To resolve the nature of these changes we used SMART-Seq2 on FACS purified thymic epithelial cells (TEC) across the first year of mouse life. We sorted 4 TEC populations in each of 5 mice at each age (1 week, 4 weeks, 16 weeks, 32 weeks and 52 weeks old).

2020-09-14 | E-MTAB-8560 | biostudies-arrayexpress

Single-nucleus RNA-seq of adult female and male mouse livers for sex-biased gene expression analyses

Project description:To obtain new insight into the sexual dimorphism of mammalian livers, single-nucleus RNA-seq was performed on the liver samples from two female and two male adult mice. The single-nucleus libraries were generated on the 10X Chromium Next GEM Single Cell 3ʹ platform and sequenced on Illumina NextSeq 550. We used the data to understand the heterogeneity and sex-biased gene expression of liver cell types. The data revealed significant sex differences primarily focused on hepatocytes. Specifically, from the sex-biased genes detected at the bulk tissue level, we observed that male-biased genes are more highly expressed in male hepatocytes, and female-biased genes are more highly expressed in female hepatocytes.

2023-08-03 | E-MTAB-12180 | 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