Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Transcriptional analysis of intermediates during human primed and naïve reprogramming.

ABSTRACT: We report transcriptional time-course profiling (RNA-seq) of intermediate populations of reprogramming of human fibroblasts into primed and naïve pluripotent states

ORGANISM(S): Homo sapiens

PROVIDER: GSE149694 | GEO | 2020/05/15

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Chromatin accessibility analysis of intermediates during human primed and naïve reprogramming.

Project description:We report chromatin accessibility time-course profiling (ATAC-seq) of intermediate populations of reprogramming of human fibroblasts into primed and naïve pluripotent states

2020-05-15 | GSE147641 | GEO

Single-nucleus RNA sequencing of intermediates during human primed and naïve reprogramming.

Project description:We report single-nucleus RNA time-course profiling of intermediate populations of reprogramming of human fibroblasts into primed and naïve pluripotent states

2020-05-15 | GSE147564 | GEO

Single-cell RNA sequencing of intermediates during human primed and naïve reprogramming.

Project description:We report single-cell RNA time-course profiling of intermediate populations of reprogramming of human fibroblasts into primed and naïve t2iLGoY and RSeT pluripotent states

2020-05-15 | GSE150311 | GEO

Transcriptional analysis of intermediates during human primed and naïve reprogramming.

Project description:Transcriptional analysis of intermediates during human primed and naïve reprogramming.

| PRJNA629766 | ENA

Chromatin accessibility analysis of intermediates during human primed and naïve reprogramming.

Project description:Chromatin accessibility analysis of intermediates during human primed and naïve reprogramming.

| PRJNA615864 | ENA

Single Cell Sequencing Reveals Early PGC-like Intermediates During Mouse Primed to Naïve Transition

Project description:Single cell analysis provides clarity unattainable with bulk approaches. Here we apply single cell RNA-seq to a newly established BMP4 induced mouse primed to naive transition (Bi-PNT) system and show that the reset is not a direct reversal of cell fate but through developmental intermediates. We first show that mEpiSCs bifurcate into c-Kit+ naïve and c-Kit- placenta-like cells, among which, the naive branch undergoes further transition through a primordial germ cell-like cells (PGCLCs) intermediate capable of spermatogenesis in vivo. Indeed, deficiency of Prdm1/Blimp1, the key regulator for PGC specification, blocks the induction of PGCLCs and naïve cells. Instead, Gata2 knockout arrests placenta-like fate, but facilitates the generation of PGCLCs. Our results not only reveal a newly cell fate dynamics between primed and naive states at single-cell resolution, but also provide a model system to explore mechanisms involved in regaining germline competence from primed pluripotency.

2021-03-09 | GSE147088 | GEO

Single-cell RNA sequencing of intermediates during human primed and naïve reprogramming.

Project description:Single-cell RNA sequencing of intermediates during human primed and naïve reprogramming.

| PRJNA631752 | ENA

Single-nucleus RNA sequencing of intermediates during human primed and naïve reprogramming.

Project description:Single-nucleus RNA sequencing of intermediates during human primed and naïve reprogramming.

| PRJNA615387 | ENA

Defining Essential Regulators of Naïve Human Pluripotent Cell Reprogramming

Project description:Defining how human pluripotent cell identity is controlled and in particular how naïve pluripotency is acquired during cell reprogramming is crucial for the future applications of pluripotent stem cells. However, the regulatory pathways of naïve cell reprogramming remain incompletely understood. Here, we used genome-wide CRISPR-Cas9 screening to identify novel regulators of primed to naïve pluripotent stem cell reprogramming, including genes that are essential for reprogramming and genes that normally impede reprogramming and whose targeted deletion led to enhanced reprogramming. Integrated analysis defined specific chromatin complexes and signalling pathways as critical regulators of naïve reprogramming, and were largely distinct from regulators of somatic cell reprogramming. Mechanistically, PRC1.3 and PRDM14 are jointly required to transcriptionally repress developmental and gene regulatory factors to ensure naïve cell reprogramming. Additionally, small molecule inhibitors of reprogramming impediments increased the efficiency of naïve cell reprogramming, and are of practical benefit that can improve on current reprogramming methods. Taken together, we have identified novel regulators controlling the establishment of naïve pluripotency in human cells, which will open up new ways to exploit the full potential of pluripotent stem cells. These results also provide new insights into mechanisms that destabilise and reconfigure cell identity during cell state transitions.

2022-04-06 | PXD023547 | Pride

The translational landscape of naïve and primed state pluripotency

Project description:Translational control plays a central role in regulation of gene expression and can lead to significant divergence between mRNA- and protein-abundance. The translational landscape of early mammalian development and its impact on cellular proteome, however, remains largely un-explored. Here we used genome-wide approaches combined with time-course analysis to measure the mRNA-abundance, mRNA-translation rate and protein expression during the transition of naïve into primed embryonic stem cells (ESCs). We found that the ground state ESCs cultured with GSK3- and MEK-inhibitors and LIF (2iL) display higher ribosome density on a selective set of mRNAs. These mRNAs show reduced translation during the exit from ground state pluripotency and transition to serum/LIF (SL) culture or upon commitment to primed epiblast-like stem cells (EpiLSCs). Strikingly, integrative analysis with cellular proteome indicate a strong translational buffering of this set of mRNAs in 2iL-ESCs leading to stable protein expression levels. Our data reveal that the global alteration of cellular proteome is largely accompanied by transcriptional rewiring. Furthermore, we identified a set of genes (including UHRF1 and KRAS) that undergo selective post-translational regulation during the transition of naïve into primed pluripotency and linked the observed changes to upstream GSK- and MEK/MAPK-signaling pathways using single inhibitor treated ESCs. Thus, we provide a comprehensive and detailed overview of the global changes in gene expression during the transition of naïve to primed pluripotency and dissect the relative contributions of RNA-transcription, translation and regulation of protein stability in controlling protein abundance.

2020-04-03 | PXD014528 | Pride

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