Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Analysis of transposable element expression in mouse ESCs with and without Ncor1, and a time course RNA-seq of mouse ESC differentiation to EpiLCs

ABSTRACT: Analysis of transposable element expression in mouse ESCs with and without Ncor1, and a time course RNA-seq of mouse ESC differentiation to EpiLCs

PROVIDER: PRJNA566099 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR10136074_1.fastq.gz	Fastqsanger.gz
	SRR10136074_2.fastq.gz	Fastqsanger.gz
	SRR10136075_1.fastq.gz	Fastqsanger.gz
	SRR10136075_2.fastq.gz	Fastqsanger.gz
	SRR10136076_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 32

Similar Datasets

Analysis of transposable element expression in mouse ESCs with and without Ncor1, and a time course RNA-seq of mouse ESC differentiation to EpiLCs

Project description:Mouse embryonic stem cells (ESCs) were differentiated to Epiblast-like cells (EpiLCs) according to the protocol in Hayashi et al., 2011. Samples were taken at 0, 12, 24, 36 and 48 hours. Wildtype and Ncor2 knockout ESCs were also sequenced to measure gene expression.

2020-07-22 | GSE137627 | GEO

Transcriptomes of mouse PGCLCs isolated from 6-day culture embryoid bodies were compared with transcriptomes of their precur cells (ESCs, iPSCs, and EpiLCs) and E12.5 in vivo mouse PGCs

Project description:Transcriptomes of mouse E12.5 primordial germ cells (PGCs), primordial germ cell-like cells (PGCLCs) isolated from 6-day culture embryoid bodies, and the precursor pluripotent stem cells [embryonic stem cells (ESCs) and induced pluripotent stem cells (iPSCs)] and epiblast-like cells (EpiLCs) Total RNA was isolated from FACS-enriched, SSEA1+/CD61+ double-positive PGCs and PGCLCs. RNA was also isolated from ESC, iPSC, and EpiLC cultured without enrichment. Transcriptomes were determined using Affymetrix microarray.

2016-08-22 | E-GEOD-80983 | biostudies-arrayexpress

Single-cell transcriptome profiling during the in vitro differentiation of mouse ESCs (mESCs) into epiblast-like cells (EpiLCs).

Project description:We performed single-cell RNA sequencing (RNA-seq) during the in vitro transition of mouse ESCs (mESCs) from a naïve pluripotent state into epiblast-like cells (EpiLCs), a primed pluripotent state. We derived pseudotime expression trajectories to investigate transcript dynamics of key metabolic regulators, with the aim to identify metabolic pathways that potentially impact on early embryonic cell state transitions.

2018-12-06 | GSE107761 | GEO

Open chromatin profiling on ESC transition to day1- and day2-epiblast-like stem cells

Project description:Identification of open chromatin profiles at ESC, d1EpiLC and d2EpiLC. The accessible chromatin landscape of naive ESCs (Rex1GFPd2 mouse embryonic stem cell line; parental line; E14Tg2a) and their transition to EpiLCs over a two day period was determined using ATAC-seq.

2019-05-11 | E-MTAB-7207 | biostudies-arrayexpress

Transcriptomes of mouse PGCLCs isolated from 6-day culture embryoid bodies were compared with transcriptomes of their precur cells (ESCs, iPSCs, and EpiLCs) and E12.5 in vivo mouse PGCs

2016-08-22 | GSE80983 | GEO

DNA methylation and hydroxymethylation profiles were compared between mouse PGCLCs isolated from 6-day culture embryoid bodies, their precursor cells (ESCs, iPSCs, and EpiLCs), and E12.5 in vivo mouse PGCs.

Project description:DNA methylation and hydroxymethylation in the genomes of mouse E12.5 primordial germ cells (PGCs), primordial germ cell-like cells (PGCLCs) isolated from 6-day culture embryoid bodies, and the precursor pluripotent stem cells [embryonic stem cells (ESCs) and induced pluripotent stem cells (iPSCs)] and epiblast-like cells (EpiLCs)

2016-08-22 | GSE81175 | GEO

Transcriptional profiling by 4SU-seq in mouse ESCs and ESC-derived neural progenitor cells.

Project description:Nascent RNA was metabolically labelled with 4SU in undifferentiated and ESC-derived neural progenitor cells (NPCs). 4SU incorporated RNA was isolated and deep-sequenced at day 0 (ESCs), 3, 5 and 7 of differentiation. NPC differentiation was monitored through expression of a GFP reporter insereted into the Sox1 locus (46C reporter ESC line; PMID: 12524553). The aim was to monitor changes in transcription as ESCs differentiate into NPCs and relate this to enhancer activity.

2019-01-12 | GSE115774 | GEO

Gene expression profiles in human ESCs and ESC-derived purified cardiomyocytes

Project description:Differences of metabolism-related gene expression profiles in human ESCs and ESC-derived purified cardiomyocytes were analyzed and successfully identified. Human ESCs and ESC-derived purified cardiomyocytes were used for this experiment.

2016-03-31 | E-GEOD-77518 | biostudies-arrayexpress

Mdivi-1 treatment regulates mouse ESC epigenome

Project description:We treated mouse embryonic stem cells (ESCs) with Mdivi-1 and exmained changes of ESC epigenome.

2023-05-05 | GSE221886 | GEO

Expression data from embryonic stem cells (ESCs) and ESC-like cells

Project description:The transplantation of ESCs into living recipients causes teratoma formation which accompanies with several biological reactions in both the transplanted cells and recipient. Co-injection of ESCs with somatic cells that influence donor-recipient homogeneity can affect transcriptional profile of transplanted ESCs. We investigated global gene expression of parental ESCs and ESC-like cells derived from teratomas which were formed by different injection conditions to find transcriptional differences according to donor-recipient homogeneity and somatic cell co-injection. Parental ESCs or teratoma-derived ESC-like cells from different treatments were retrieved for RNA extraction and hybridization on Affymetrix microarrays.

2014-06-23 | E-GEOD-58725 | 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