Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Comparative analysis of glioblastoma initiating cells and patient-matched EPSC-derived neural stem cells as a discovery tool and drug matching strategy [RNA-Seq]

ABSTRACT: Comparative analysis of glioblastoma initiating cells and patient-matched EPSC-derived neural stem cells as a discovery tool and drug matching strategy [RNA-Seq]

PROVIDER: PRJNA648056 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR12302900_1.fastq.gz	Fastqsanger.gz
	SRR12302900_2.fastq.gz	Fastqsanger.gz
	SRR12303000_1.fastq.gz	Fastqsanger.gz
	SRR12303000_2.fastq.gz	Fastqsanger.gz
	SRR12302901_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 292

Similar Datasets

Comparative analysis of glioblastoma initiating cells and patient-matched EPSC-derived neural stem cells as a discovery tool and drug matching strategy

Project description:Comparative analysis of glioblastoma initiating cells and patient-matched EPSC-derived neural stem cells as a discovery tool and drug matching strategy

| PRJNA656282 | ENA

Comparative analysis of glioblastoma initiating cells and patient-matched EPSC-derived neural stem cells as a discovery tool and drug matching strategy [array]

Project description:Comparative analysis of glioblastoma initiating cells and patient-matched EPSC-derived neural stem cells as a discovery tool and drug matching strategy [array]

| PRJNA656280 | ENA

Comparative analysis of glioblastoma initiating cells and patient-matched EPSC-derived neural stem cells as a discovery tool and drug matching strategy [Seq]

Project description:Comparative analysis of glioblastoma initiating cells and patient-matched EPSC-derived neural stem cells as a discovery tool and drug matching strategy [Seq]

| PRJNA645954 | ENA

Comparative analysis of glioblastoma initiating cells and patient-matched EPSC-derived neural stem cells as a discovery tool and drug matching strategy [array]

Project description:Malignant gliomas are the most common intrinsic brain tumors in adults and are associated with a very poor prognosis, which has not improved in the last 20 years. We show here that glioblastoma initiating cells (GIC) and syngeneic neural stem cells derived from enhanced pluripotent stem cells (iNSC) are a suitable novel pre-clinical pipeline to discover new patient-specific disease mechanisms and to identify druggable targets for personalized therapy.

2021-09-17 | GSE155985 | GEO

Comparative analysis of glioblastoma initiating cells and patient-matched EPSC-derived neural stem cells as a discovery tool and drug matching strategy [Seq]

Project description:Malignant gliomas are the most common intrinsic brain tumours in adults and are associated with a very poor prognosis, which has not improved in the last 20 years. We show here that glioblastoma initiating cells (GIC) and syngeneic neural stem cells derived from enhanced pluripotent stem cells (iNSC) are a suitable novel pre-clinical pipeline to discover new patient-specific disease mechanisms and to identify druggable targets for personalised therapy.

2021-09-17 | GSE154367 | GEO

Comparative analysis of glioblastoma initiating cells and patient-matched EPSC-derived neural stem cells as a discovery tool and drug matching strategy [RNA-Seq]

2021-09-17 | GSE154958 | GEO

Comparative analysis of glioblastoma initiating cells and patient-matched EPSC-derived neural stem cells as a discovery tool and drug matching strategy

Project description:This SuperSeries is composed of the SubSeries listed below.

2021-09-17 | GSE155994 | GEO

RNA-seq for siNr1h2 in mouse blastoid samples and T0901317-treatment in mouse ESC and EPSC

Project description:Bulk RNA-seq were performed on E14 EPSCs knockdown during blastoid formation with siRNA, as well as E14 ESC and EPSC treated with T0901317

2024-10-23 | GSE210788 | GEO

A flexible matching strategy for matched nested case-control studies.

Project description:PurposeIndividual matching in case-control studies improves statistical efficiency over random selection of controls but can lead to selection bias if cases are excluded due to the lack of appropriate controls or residual confounding with less strict matching criteria. We introduce flex matching, an algorithm using multiple rounds of control selection with successively relaxed matching criteria to select controls for cases.MethodsWe simulated exposure-disease relationships in multiple cohort data sets with a range of confounding scenarios and conducted 16,800,000 nested case-control studies, comparing random selection of controls, strict matching, and flex matching. We computed average bias and statistical efficiency in estimates of exposure-disease relationships under each matching strategy.ResultsOn average, flex matching produced the least biased estimates of exposure-disease associations with the smallest standard errors. Strict matching algorithms that excluded cases for whom matched controls could not be identified produced biased estimates with larger standard errors. Estimates from studies with random assignment of controls were relatively unbiased, but the standard errors were larger than from studies using flex matching.ConclusionsFlex matching should be considered for case-control designs, especially for biomarker studies where matching on technical artifacts is necessary and maximizing efficiency is a priority.

| S-EPMC10538416 | biostudies-literature

Analysis of Nr1h2 and H3K27ac genomic binding targets in ESC and EPSC under Nr1h2 activation

Project description:ChIP-seq for Nr1h2 in NrESC, ESC. H3K27ac ChIP-seq in NrESC, ESC, EPSC, EPSCT09 Embryonic stem cells upon extrinsic induction could self-assemble into blastocyst-like structures. However, the intrinsic regulation of such blastoid forming potential remain to be addressed. We discover that the activity of nuclear receptor subfamily 1, group H, member 2 (Nr1h2) in expanded potential stem cell (EPSC) positively correlates with blastoid efficiency and quality. In addition, Nr1h2 agonist, T0901317, improves natural blastocyst development. Surprisingly, Nr1h2-activated ESC (NrESC) is rewired towards a distinct pluripotency state that is capable of self-organizing into blastoids and contribute to embryonic and extraembryonic lineage. We hypothesize that Nr1h2 activation broadly affects the transcriptome landscape by regulating chromatin accessibility and epigenome to rewire ESC state. Indeed, from Nr1h2 and H3K27Ac ChIP-seq, we observe that annotated genes with upregulated Nr1h2 binding as well as H3K27Ac marks in NrESC or EPSC treated with T09 are enriched in processes such as lipid metabolism, pluripotency maintenance and trophectoderm maturation, which are known to be essential to blastocyst development. In summary, our study demonstrates a novel Nr1h2-centric regulation of expanded pluripotency.

2024-10-23 | GSE217824 | 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