Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Divergent roles of KLF4 and TFCP2L1 in ground-state naive pluripotency and human primordial germ cell development

ABSTRACT: Divergent roles of KLF4 and TFCP2L1 in ground-state naive pluripotency and human primordial germ cell development

PROVIDER: PRJNA625486 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR11549068.fastq.gz	Fastqsanger.gz
	SRR11549069.fastq.gz	Fastqsanger.gz
	SRR11549070.fastq.gz	Fastqsanger.gz
	SRR11549071.fastq.gz	Fastqsanger.gz
	SRR11549072.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 8

Similar Datasets

Divergent roles of KLF4 and TFCP2L1 in ground-state naive pluripotency and human primordial germ cell development

Project description:During development, human primordial germ cells (hPGCs) transition through a transcriptional and epigenetic state similar to pre-implantation epiblast cells called naive ground-state pluripotency. Diagnostic transcription factors that define this state include TFAP2C, KLF4, and TFCP2L1, with TFAP2C necessary for both establishment of the naive-like state in hPGC-like cells (hPGCLCs) as well as establishment and self-renewal of naive human embryonic stem cells (hESCs). Here, we show that KLF4 and TFCP2L1 are not required for hPGC specification or establishment of the naive-like state in hPGCLCs. Instead, KLF4 and TFCP2L1 are each required for reversion of primed hESCs to the self-renewing naive ground state. Additionally, TFCP2L1 but not KLF4 function after hPGC specification in the proliferation of the hPGCLC population.

2022-04-30 | GSE148717 | GEO

Divergent roles for KLF4 and TFCP2L1 in naive ground state pluripotency and human primordial germ cell development.

Project description:During embryo development, human primordial germ cells (hPGCs) express a naive gene expression program with similarities to pre-implantation naive epiblast (EPI) cells and naive human embryonic stem cells (hESCs). Previous studies have shown that TFAP2C is required for establishing naive gene expression in these cell types, however the role of additional naive transcription factors in hPGC biology is not known. Here, we show that unlike TFAP2C, the naive transcription factors KLF4 and TFCP2L1 are not required for induction of hPGC-like cells (hPGCLCs) from hESCs, and they have no role in establishing and maintaining a naive-like gene expression program in hPGCLCs with extended time in culture. Taken together, our results suggest a model whereby the molecular mechanisms that drive naive gene expression in hPGCs/hPGCLCs are distinct from those in the naive EPI/hESCs.

| S-EPMC8969886 | biostudies-literature

Resetting Transcription Factor Control Circuitry Towards Ground State Pluripotency In Human

Project description:Current human pluripotent stem cells lack the transcription factor circuitry that governs the ground state of mouse embryonic stem cells (ESC). Here we report that short-term expression of two components, NANOG and KLF2, is sufficient to ignite other elements of the network and reset the human pluripotent state. Inhibition of ERK and protein kinase C signalling sustains a transgene-independent rewired state. Reset cells self-renew continuously without ERK signalling, are phenotypically stable and karyotypically intact. They differentiate in vitro and form teratomas in vivo. Metabolism is reprogrammed in reset cells with activation of mitochondrial respiration as in ESC. DNA methylation is dramatically reduced and transcriptome state is globally realigned across multiple cell lines. Depletion of ground state transcription factors, TFCP2L1 or KLF4 has marginal impact on conventional human pluripotent stem cells, but collapses the reset state. These findings demonstrate feasibility of installing and propagating functional control circuitry for ground state pluripotency in human cells. DNA methylation analysis in Conventional and Reset human embryonic stem cells by whole genome bisulfite sequencing, in triplicate, using the Illumina platform

2014-09-10 | E-GEOD-60945 | biostudies-arrayexpress

Resetting Transcription Factor Control Circuitry Towards Ground State Pluripotency In Human

2014-09-10 | GSE60945 | GEO

The role of KLF4 in the development of human primordial germ cell

Project description:Primordial germ cells (PGCs) are the founder cells that develop into mature gametes. PGCs emerge during weeks 2-3 of human embryo development. Pluripotency genes are reactivated during PGCs specification, including Kruppel-like factor KLF4, but its precise role in PGC development is unknown. Here, we investigated the role of KLF4 in PGC development using our in vitro model for human PGC-like cells (hPGCLCs). We show that depletion of KLF4 using acute protein degradation strategies reduced the efficiency of hPGCLC specification. We conducted transcriptome analysis of KLF4-depleted hPGCLCs, and observed downregulation of genes involved in pattern specification, stem cell differentiation, and epigenetic modifications. Notably, KLF4 depletion led to the derepression of some somatic genes related to endodermal and neuronal differentiation. In PGCLCs, the KLF4 Cut&Run results showed significant co-enrichment with SP and STAT motifs, prominently localized to promoter regions. This represents a distinct binding pattern compared to that observed in naive embryonic stem cells. Our study reveals that KLF4 contributes to the differentiation and maintenance of human PGCLCs by comprehensively regulating both gene activation and repression.

2025-01-29 | GSE271818 | GEO

Identification of CDK1 phosphorylation of TFCP2L1 from murine embryonic stem cells and bladder cancer cells

Project description:Molecular programs involved in embryogenesis are frequently upregulated in oncogenic dedifferentiation and metastasis. However, their precise roles and regulatory mechanisms remain elusive. Here, we showed that CDK1 phosphorylation of TFCP2L1, a pluripotency-associated transcription factor, orchestrated pluripotency and cell-cycling in embryonic stem cells (ESCs) and was aberrantly activated in aggressive bladder cancers (BCs). In murine ESCs, the protein interactome and transcription targets of Tfcp2l1 indicated its involvement in cell-cycle regulation. Tfcp2l1 was phosphorylated at Thr177 by Cdk1, which affected ESC cell-cycle progression, pluripotency, and differentiation. LC-MS was used to characterize thr177 phosphorylation in TFCP2L1 protein obtained by IP experiment and kinase assay. The CDK1-TFCP2L1 pathway was activated in human BC cells, stimulating their proliferation, self-renewal, and invasion. Lack of TFCP2L1 phosphorylation impaired the tumorigenic potency of BC cells in a xenograft model. In patients with BC, high co-expression of TFCP2L1 and CDK1 was associated with unfavorable clinical characteristics including tumor grade, lymphovascular and muscularis propria invasion, and distant metastasis and was an independent prognostic factor for cancer specific survival. These findings demonstrate the molecular and clinical significance of CDK1-mediated TFCP2L1 phosphorylation in stem-cell pluripotency and in the tumorigenic stemness features associated with BC progression.

2019-11-08 | PXD015635 | Pride

The role of KLF4 in the development of human primordial germ cell

Project description:The role of KLF4 in the development of human primordial germ cell

| PRJNA1133677 | ENA

RNA sequencing analysis of TFCP2L1 overexpression in thyroid cancer cells

Project description:To investigate the genes and pathways regulated by TFCP2L1 in thyroid cancer cells, we established TFCP2L1-overexpressing TPC1 cell line and performed RNA sequencing for further study.

2024-05-22 | GSE252658 | GEO

Tfcp2l1 controls cellular patterning of the collecting duct.

Project description:Gene expression analysis of mouse kidney after conditional inactivation of transcription factor Tfcp2l1

2017-06-19 | GSE85325 | GEO

Identify Tfcp2l1-regulated genes in mouse embryonic stem cells grown in 2i medium

Project description:Mouse embryonic stem cells (ESCs) grown in the 2i (an ERK inhibitor, PD0325901, and a GSK-3b inhibitor, CHIR99021) mimic pluripotent epiblasts in preimplantation blastocysts. ESCs grown in FBS containing medium are more heterogenous in morphology and expression of stem cell factors. Tfcp2l1 is a transcription factor highly expressed in ESCs grown in the 2i medium, suggesting that it plays in important role in ESC biology. To search for the putative role(s) of Tfcp2l1 in ESCs, we plan to use an integrated genomic approach--combing RNA-seq and ChIP-seq--to identify the direct targets of Tfcp2l1 in ESCs. RNA-seq is used to identify the transcripts regulated by Tfcp2l1 in ESCs grown in the 2i medium.

2021-03-01 | GSE159937 | 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