Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Analysis of gene expression after RNAi (siPool)-mediated knockdown of TEDAR (LINC00302) lncRNA in primary human keratinocytes

ABSTRACT: Long non-coding RNAs (lncRNAs) are emerging as key regulators of epidermal differentiation. To investigate the function of the skin-enriched lncRNA TEDAR (LINC00302), we performed RNAi (siPool)-mediated knockdown in 3D organotypic skin models and analyzed changes in gene expression using the GeneChip™ Human Transcriptome Array 2.0 microarray platform. Differential expression analysis demosntrated that TEDAR regulated genes involved in late epidermal differentiation and barrier formation.

ORGANISM(S): Homo sapiens

PROVIDER: GSE302049 | GEO | 2026/07/01

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Disrupted transcripitonal network in ΔNp63 AEC tissue model [gene expression]

Project description:The transcriptional basis for disrupted epidermal differentiation arising from TP63 AEC mutations remains to be elucidated. Here we present an organotypic model of AEC dysfunction that phenocopies differentiation defects observed in AEC patient skin. Transcriptional analysis of model AEC tissue revealed impaired induction of differentiation regulators, including OVOL1, GRHL3, KLF4, PRDM1 and ZNF750. Genome wide binding analyses of TP63 during epidermal differentiation showed direct binding of OVOL1, GRHL3, and ZNF750 promoters suggesting AEC mutants prevent normal activation of these targets by direct transcriptional interference. Remarkably, exogenous ZNF750 restores impaired epidermal differentiation caused by AEC mutation. Thus, repression of ZNF750 is central to disrupted epidermal differentiation in model AEC tissue. Gene expression analysis: To establish a differentiation signature for primary human keratinocytes, with p63i-depleted, and ΔNp63α AEC mutants overexpressed, total RNA was isolated in biologic duplicate from cells in different conditions and hybridized to Affymetrix HG-U133 2.0 Plus arrays.

2012-06-17 | E-GEOD-33495 | biostudies-arrayexpress

Analysis of gene expression after CRISPR-mediated activation of TEDAR (LINC00302) lncRNA in primary human keratinocytes

Project description:Long non-coding RNAs (lncRNAs) are emerging as key regulators of epidermal differentiation. To investigate the function of the skin-enriched lncRNA TEDAR (LINC00302), we performed CRISPR-mediated activation in primary human keratinocytes and profiled global gene expression using the Affymetrix Clariom D Human microarray platform. Differential expression analysis demonstrated that TEDAR regulated genes involved in late epidermal differentiation and barrier formation.

2026-07-01 | GSE302073 | GEO

The effects of UVB and the organic osmolyte betaine on rat epidermal keratinocytes in an organotypic culture system

Project description:Betaine (trimethylglycine) is a non-toxic, highly water-soluble organic osmolyte widely used in skin care due to its assumed moisturizing and protective properties, but only few studies have addressed its specific effects in skin. Here, the cellular and molecular targets of betaine were analyzed by genome-wide expression analysis in organotypic cultures of rat epidermal keratinocytes (REK). In this model, we also examined whether betaine modifies the impacts of acute UVB exposure. The expression of several genes relevant to epidermal biology, proliferation/differentiation or malignancy as well as solute transport were verified by independent methods (qRT-PCR, western blotting). The data concerning changes in calcium metabolism after UVB exposure has been published separately (Bart et al., Br. J. Dermatol. 171:376-387, 2014). Organotypic cultures of rat epidermal keratinocytes (REK) were prepared by plating cells on a collagen-coated insert (submerged in medium), lifting the confluent cell layer to the air-liquid interface 3 days after plating. These 3D cultures were divided in four treatment groups with three replicates in each: control, betaine (10 mM), UVB (30 mJ/cm2) and betaine + UVB. Betaine was added to the cultures for 11 days, starting from day 4 until sample collection. UVB exposure was performed 24 h prior to sample collection for 2-week-old 3D cultures with a well-formed epidermal layer. For further details on the experimental set-up and characteristics of the UV source, please refer to Bart et al. (Br. J. Dermatol. 171:376-387, 2014) and Rauhala et al. (J. Biol. Chem. 288:17999-18012, 2013).

2015-10-26 | E-GEOD-63004 | biostudies-arrayexpress

The effects of UVB and the organic osmolyte betaine on rat epidermal keratinocytes in an organotypic culture system

2015-10-26 | GSE63004 | GEO

VZV infection of primary keratinocytes

Project description:Our aim was to investigate the interaction between epidermal differentiation and VZV infection. By means of a calcium-induced keratinocyte differentiation model and RNA-seq we show VZV infection has a profound effect on differentiating keratinocytes and hijacks the normal process of epidermal gene expression to generate a signature resembling patterns of gene expression seen in both heritable and acquired skin-blistering disorders. Analysis of the viral transcriptome provides evidence that VZV replication in skin is tightly linked to differentiation and critically, that late viral gene expression is associated with cellular differentiation. The experiment was performed on human primary keratinocytes under four conditions: undifferentiated/uninfected, uninfected/differentiated, VZV-infected/undifferentiated and VZV-infected/differentiated.

2014-05-29 | E-MTAB-1717 | biostudies-arrayexpress

Expression data from autophagy-deficient keratinocytes and normal keratinocytes

Project description:There is increasing evidence that autophagy contributes to the epidermal differentiation; however, the role of autophagy in epidermal tight junction (TJ) barrier remains unclear. To evaluate the role of autophagy in the maintenance of skin TJ barrier, we knocked out autophagy in human primary keratinocytes by infecting cells with autophagy-related gene 3 (Atg3) C264S mutant adenovirus.

2022-07-14 | GSE183921 | GEO

Enforced MAB21L4 expression enhances epidermal diferentiation

Project description:RNA-seq was used to define the role of MAB21L4 in epidermal differentiation by placing primary human keratinocytes transduced to overexpress MAB21L4 onto human dermis and grown for three days at the air-liquid interface to generate organotypic skin tissue.

2022-06-24 | GSE190865 | GEO

Disrupted transcriptional network in ΔNp63 AEC tissue model [ChIP-Seq]

Project description:The transcriptional basis for disrupted epidermal differentiation arising from TP63 AEC mutations remains to be elucidated. Here we present an organotypic model of AEC dysfunction that phenocopies differentiation defects observed in AEC patient skin. Transcriptional analysis of model AEC tissue revealed impaired induction of differentiation regulators, including OVOL1, GRHL3, KLF4, PRDM1 and ZNF750. Genome wide binding analyses of TP63 during epidermal differentiation showed direct binding of OVOL1, GRHL3, and ZNF750 promoters suggesting AEC mutants prevent normal activation of these targets by direct transcriptional interference. Remarkably, exogenous ZNF750 restores impaired epidermal differentiation caused by AEC mutation. Thus, repression of ZNF750 is central to disrupted epidermal differentiation in model AEC tissue. ChIP-Seq analysis: Examination of p63 binding in proliferating and differentiating human keratinocytes

2012-06-18 | E-GEOD-33571 | biostudies-arrayexpress

Gene profiling using microarray analysis between the ΔMet treated and control groups at different stages

Project description:Undifferentiated cells, hiPSC-derived differentiated cells on day3 DE cells, day 5 PG cells, day 11 PP cells and day 25 EC cells were compared, using GeneChip™ Human Gene 2.0 ST Array Methionine deprivation (ΔMet) pretreatment potentiates late-stage differentiation of human iPS cells into insulin-expressing β cells

2022-07-21 | GSE151794 | GEO

Disrupted transcriptional network in ΔNp63 AEC tissue model [ChIP-Seq]

2012-06-18 | GSE33571 | GEO