Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

E-MTAB-1171

ABSTRACT: Transcription profiling by array of Mouse erythro-leukaemia cells during differentiation to investigate the influence of Runx1 transcription factor

PROVIDER: E-MTAB-1171 | ExpressionAtlas | 2015-11-02

REPOSITORIES: ExpressionAtlas

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	E-MTAB-1171-analysis-methods.tsv	Tabular
	E-MTAB-1171-atlasExperimentSummary.Rdata	Rdata
	E-MTAB-1171-configuration.xml	Xml
	E-MTAB-1171-percentile-ranks.tsv	Tabular
	E-MTAB-1171.condensed-sdrf.tsv	Tabular

Items per page:

1 - 5 of 105

Similar Datasets

Transcription profiling by array of Mouse erythro-leukaemia cells during differentiation to investigate the influence of Runx1 transcription factor

Project description:We investigated the influence of Runx1 transcription factor on gene expression during the differentiation of Mouse Erythro-Leukaemia cells. Cultured cells were induced to differentiate by DMSO. Transcription profiling was done in triplicates, before and after Runx1 knockdown in both induced and non-induced MEL cells.

2012-06-12 | E-MTAB-1171 | biostudies-arrayexpress

To characterize the DMTF1 proximity proteome using BioID-mass spectrometry analysis

Project description:Neural stem cells (NSCs) contribute to brain development and homeostasis via their unique properties of self-renewal and differentiation. DMTF1 is a transcription factor that is proposed to be a tumor suppressor in cancer cells. However, the exact role of DMTF1 in NSC biology remains poorly understood. We found that DMTF1 depletion reduced the proliferation/self-renewal of mouse and human NSCs in vitro. To elucidate how DMTF1 may regulate gene transcription along with other proteins, we have employed BioID-mass spectrometry analysis of DMTF1 vs GFP proximity proteomes in 293T cells. The identified candidate DMTF1 protein interactors will subsequently be validated in mouse NSC. This study aims to investigate how DMTF1 regulates NSC proliferation.

2025-03-10 | PXD050501 | JPOST Repository

Novel binding partners of nucleolar HIF1A in hypoxic breast cancer cells

Project description:Solid tumors such as breast cancer have intratumoral regions of low oxygen tension, which influence a vast array of cellular responses. Hypoxia-Inducible Factor 1-alpha (HIF1α) represents the principal transcription factor orchestrating cellular responses to hypoxic conditions, mediating the regulation of genes implicated in oxygen homeostasis. The nucleolus is central stress response hub in the cell, as such we sought to identify novel binding partners of HIF1α in the nucleolar compartment during hypoxic stress.

2025-07-15 | PXD053134 | Pride

1H NMR metabolite monitoring during the differentiation of human induced pluripotent stem cells provides new insights into the molecular events that regulate embryonic chondrogenesis

Project description:The integration of cell metabolism with signalling pathways, transcription factor networks and epigenetic mediators is critical in coordinating molecular and cellular events during embryogenesis. Induced pluripotent stem cells (IPSCs) are an established model for embryogenesis, germ layer specification and cell lineage differentiation, advancing the study of human embryonic development and the translation of innovations in drug discovery, disease modelling and cell-based therapies. The metabolic regulation of IPSC pluripotency is mediated by balancing glycolysis and oxidative phosphorylation, but there is a paucity of data regarding the influence of individual metabolite changes during cell lineage differentiation. We used <sup>1</sup>H NMR metabolite fingerprinting and footprinting to monitor metabolite levels as IPSCs are directed in a three-stage protocol through primitive streak/mesendoderm, mesoderm and chondrogenic populations. Metabolite changes were associated with central metabolism, with aerobic glycolysis predominant in IPSC, elevated oxidative phosphorylation during differentiation and fatty acid oxidation and ketone body use in chondrogenic cells. Metabolites were also implicated in the epigenetic regulation of pluripotency, cell signalling and biosynthetic pathways. Our results show that <sup>1</sup>H NMR metabolomics is an effective tool for monitoring metabolite changes during the differentiation of pluripotent cells with implications on optimising media and environmental parameters for the study of embryogenesis and translational applications.

2023-05-24 | MTBLS4854 | MetaboLights

Homo sapiens

Project description:Transcription factor binding dynamics during human ES cell differentiation

| PRJNA261253 | ENA

Elucindating the role of the transcription factor IRF4 in Th17 and Treg cells

Project description:- transcription factor interferon regulatory factor 4 (IRF4) = crucial transcription factor for different immune cells, incl pro-inflammatory Th17 and anti-inflammatory Treg cells - IRF4 is essential for the cell differentiation and fate determination - however molecular mechanisms of IRF4-mediated gene expression in fully differentiated Th17/Treg cells are still not fully understood - integration of data derived from affinity-purification and full mass spectrometry-based proteome analysis with chromatin immune precipitation sequencing (ChIP-Seq) - characterization of proteins generally involved in the T cell development as well as subtype-specific differentiation and identification of novel, yet uncharted IRF4 interactors

2024-08-02 | PXD044298 | JPOST Repository

Gene expression analysis of E2A forced homodimer overexpression in mouse embryonic stem cells.

Project description:We set out to investigate whether overexpression of the bHLH transcription factor, E2A, is sufficient to drive neural differentiation in mouse embryonic stem cells under non-permissive culture conditions. Having identified that overexpression of specifically E2A homodimers, but not E2A monomers, was sufficient to drive neural differentiation, we sought to identify early downstream targets of E2A during the process of neural commitment using RNA-sequencing.

2020-06-10 | GSE152118 | GEO

RIME Analysis of HNF4A binding partners in the intestinal epithelium

Project description:The mechanisms driving gene expression changes during intestinal differentiation are unclear. Our studies have shown differential recruitment and occupancy of Pol II to be a major driver of these gene expression changes. Additionally, we have identified the transcription factor HNF4 as a key player in shaping this phenomenon. To gain insights into the protein-based mechanisms underlying HNF4-mediated Pol II recruitment, we performed RIME (Rapid Immunoprecipitation Mass Spectrometry of Endogenous proteins) using anti-HNF4A antibodies in primary mouse epithelium.

2023-10-09 | MSV000093071 | MassIVE

Mammalian CDC14 control differentiation from pluripotent cells by modulating UTF1 activity on bivalent promoters

Project description:CDC14 phosphatases are critical components of the cell cycle machinery that drives exit from mitosis in yeast. However, the two mammalian paralogs, CDC14A and CDC14B, are dispensable for cell cycle progression or exit, and their function remains unclear. By generating a double Cdc14a; Cdc14b-null mouse model, we report here that CDC14 phosphatases control cell differentiation in pluripotent cells and their absence results in deficient development of the neural system. Lack of CDC14 impairs neural differentiation from embryonic stem cells (ESCs) accompanied by deficient induction of genes controlled by bivalent promoters. During ESC differentiation, CDC14 directly dephosphorylates and destabilizes Undifferentiated embryonic Transcription Factor 1 (UTF1), a critical regulator of stemness. In the absence of CDC14, increased UTF1 levels prevent the firing of bivalent promoters, resulting in defective induction of the transcriptional programs required for differentiation. These results suggest that mammalian CDC14 phosphatases function during the terminal exit from the cell cycle by modulating the transition from the pluripotent to the differentiated chromatin state, at least partially by controlling chromatin dynamics and transcription in a UTF1-dependent manner.

2022-10-31 | PXD030296 | Pride

Gene expression of normal and ASCC1-mutant skin fibroblasts after serum starvation and serum challenge

Project description:In order to investigate the genes that might be regulated by the activating signal cointegrator 1 (ASC-1) complex we performed an expression analysis using the GeneChip® Human Gene 2.0 ST Array (Affymetrix) Since ASC-1 was predicted to have an influence on the transcription regulation by the serum response factor (SRF), we investigated gene expression after serum starvation and subsequent serum challenge.

2015-10-01 | GSE67627 | 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