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RNA sequencing of HDFs(Human dermal fibroblasts) with or without Sal-B and UVB treatment

ABSTRACT: RNA sequencing of HDFs(Human dermal fibroblasts) with or without Sal-B and UVB treatment

PROVIDER: PRJNA1017397 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR26060223_1.fastq.gz	Fastqsanger.gz
	SRR26060223_2.fastq.gz	Fastqsanger.gz
	SRR26060224_1.fastq.gz	Fastqsanger.gz
	SRR26060224_2.fastq.gz	Fastqsanger.gz
	SRR26060225_1.fastq.gz	Fastqsanger.gz

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A subset of human dermal fibroblasts overexpressing Cockayne syndrome group B protein resist UVB radiation-mediated premature senescence

Project description:Ultraviolet B (UVB) radiation is a major contributor to skin photo-ageing. Although mainly absorbed by the epidermis, UVB photons managing to penetrate the upper dermis affect human dermal fibroblasts (HDFs), leading, among others, to the accumulation of senescent cells. In vitro studies have shown that repeated exposures to subcytotoxic UVB radiation doses provoke HDFs’ premature senescence shortly after the end of the treatment period. Here, we found that repetitive exposures to non-cytotoxic UVB radiation doses after several days lead to mixed cultures, containing both senescent cells and fibroblasts resisting senescence. “Resistant” fibroblasts were more resilient to a novel intense UVB radiation stimulus. RNA-seq analysis revealed that ERCC6, encoding Cockayne syndrome group B (CSB) protein, is upregulated in resistant HDFs compared to young and senescent cells, also confirmed at the protein level. CSB was found to be a key molecule conferring protection towards UVB cytotoxicity, as siRNA-mediated CSB loss-of-expression rendered HDFs significantly more susceptible to a high UVB radiation dose. In accordance, cells from a CSB-deficient patient were found to be dramatically more photosensitive. UVB-resistant HDFs remained normal (able to undergo replicative senescence) and non-tumorigenic. Even though they formed a distinct population in-between young and senescent cells, resistant HDFs retained numerous tissue-impairing characteristics of the senescence-associated secretory phenotype, including increased matrix metalloprotease activity and promotion of epidermoid tumor xenografts in immunodeficient mice. Collectively, here we describe a novel subpopulation of HDFs showing increased resistance to UVB-mediated premature senescence, as well as undesirable traits that may negatively affect skin homeostasis.

2025-03-19 | GSE268564 | GEO

RNA sequencing of HDFs(Human dermal fibroblasts) with or without Sal-B and UVB treatment

Project description:Skin aging is a complex biological process that is influenced by multiple factors, including environmental and genetic factors. Ultraviolet (UV) irradiation can cause short-term sun damage, such as erythema and edema, as well as chronic damage, which accelerates skin aging and produces skin wrinkles and skin laxity. Salvianolic acid B (Sal-B) is the most abundant and bioactive water-soluble extractant from the well-known herbal medicine--Salvia Miltiorrhiza in Chinese traditional medicine. Many studies have found that Sal-B exerts powerful antioxidant and anti-inflammatory effects. Therefore, we speculate that salvianolic acid B may have potential therapeutic value in the aspect of anti-photoaging.

2024-09-14 | GSE243204 | GEO

Acetylated proteome data of young, old, FTO-knockdown and KAT8-overexpression human dermal fibroblasts

Project description:Acetylated proteome data of young human dermal fibroblasts (HDFs) [Young], old HDFs [Old], FTO-knockdown HDFs [shFTO], KAT8-overexpression HDFs [KAT8] and KAT8-overexpressed HDFs after FTO deprivation [shFTO_KAT8] were analysed by LC‒MS/MS.

2024-12-20 | PXD059135 |

Expression data in human oral mucosa fibroblasts (hOFs), dermal fibroblasts, and hOFs-derived iPS cells

Project description:To define the characteristics of human oral mucosa fibroblasts (hOFs), we analyzed the gene expression of hOFs compared with that of human dermal fibroblasts (hDFs), and that of hOF-derived induced pluripotent stem cells (hOF-iPSCs). In this dataset, we found that 5,738 probes and 5672 probes were differently expressed in hOFs and hDFs respectively, compared with those in hOF-iPSCs at more than 2-fold levels. In contrast, only 434 probes are differently expressed between hOFs and hDFs.

2016-04-21 | GSE56805 | GEO

ChIP-seq analysis of primary human dermal fibroblasts overexpressing ANKRD1 in human dermal fibroblasts (HDFs)

Project description:ChIP-seq analysis of primary human dermal fibroblasts overexpressing ANKRD1 in human dermal fibroblasts (HDFs)

| PRJNA902739 | ENA

Unveiling Aging Heterogeneities in Human Dermal Fibroblasts via Nanosensor Chemical Cytometry

Project description:To investigate aging heterogeneity in tissue-regeneration cells, we conducted RNA-seq analysis of human dermal fibroblasts (hDFs) at two distinct aging stages: passage 5 (p5) and passage 15 (p15). hDFs were cultured under standard conditions, and total RNA was extracted for sequencing. Transcriptomic profiling was performed to identify differentially expressed genes associated with cellular aging. This RNA-seq dataset was used to validate the phenotypic changes observed via a label-free, nondestructive single-cell analytics platform called nanosensor chemical cytometry (NCC). The integrated analysis revealed that transcriptomic aging signatures correspond with aging phenotypes such as changes in cell size, shape, refractive index, and H2O2 efflux. This dataset provides insight into the molecular mechanisms underlying cell aging and supports the development of predictive models for therapeutic performance in regenerative medicine.

2025-06-19 | GSE297406 | GEO

ER71/ETV2-mediated direct reprogramming of human dermal fibroblasts (HDFs) into endothelial-like cells

Project description:Samples 1-6: HDFs transduced with ER71/ETV2 were sorted on KDR expression at day 7. The isolated KDR+ cells together with human umbilical venous endothelial cells (HUVECs) and untransduced HDFs were subjected to genomic gene expression profiling. A significant number of genes related with vessel development and angiogenesis was significantly upregulated in KDR+ cells, compared to control HDFs. These findings strongly argue that ER71/ETV2 directly reprograms human fibroblasts to functional endothelial-like cells, which could be useful for disease investigation as well as autologous cell therapy. Samples 7-12: HDFs transduced with ER71/ETV2 were sorted on KDR expression at day 7. The isolated KDR+ cells were further cultured up to day 93. The further cultured cells together with human umbilical venous endothelial cells (HUVECs) and untransduced HDFs were subjected to genomic gene expression profiling. A significant number of genes related with vessel development and angiogenesis was significantly upregulated in the further cultured cells, compared to control HDFs. These findings strongly argue that ER71/ETV2 directly reprograms human fibroblasts to functional endothelial-like cells, which could be useful for disease investigation as well as autologous cell therapy. Samples 1-6: HDFs transduced with ER71/ETV2 were sorted on KDR expression at day 7. The isolated KDR+ cells together with human umbilical venous endothelial cells (HUVECs) and untransduced HDFs were subjected to genomic gene expression profiling. Samples 7-12: HDFs transduced with ER71/ETV2 were sorted on KDR expression at day 7. The isolated KDR+ cells were further cultured up to day 93. The further cultured cells together with human umbilical venous endothelial cells (HUVECs) and untransduced HDFs were subjected to genomic gene expression profiling.

2013-09-12 | E-GEOD-50801 | biostudies-arrayexpress

scRNAseq of aging dermal fibroblasts

Project description:scRNAseq of aging dermal fibroblasts

| PRJNA435994 | ENA

Matrisome of neonatal mouse dermal fibroblasts

Project description:The goal of this project is to compare the protein composition of the extracellular matrices (ECMs) deposited in vitro by wild type, heterozygous, or SPAG17 KO neonatal mouse dermal fibroblasts.

2022-09-22 | PXD019869 | Pride

IL11 is elevated in systemic sclerosis and IL11-dependent ERK signaling is needed for the profibrotic activity of TGFβ in dermal fibroblasts

Project description:Objectives: Interleukin 11 (IL11) is highly upregulated in skin and lung fibroblasts from patients with systemic sclerosis (SSc). Here we tested whether IL11 is mechanistically linked with human dermal fibroblast (HDF) activation. Methods: We measured serum IL11 levels in healthy volunteers and patients with early diffuse SSc and manipulated IL11 signalling in HDFs using gain- and loss-of-function approaches. Results: In patients with SSc, serum IL11 levels are elevated as compared to healthy controls. Transforming growth factor beta (TGFβ) isoforms 1, 2 or 3 induced IL11 secretion from HDFs, which highly express IL11RA and the gp130 co-receptor, suggestive of an autocrine loop of IL11 activity in HDFs. IL11 consistently and robustly stimulated ERK activation in HDFs and resulted in HDF-to-myofibroblast transformation. IL11 induced STAT phosphorylation to a lesser extent than ERK and only at high IL11 concentrations. IL11-stimulated ERK activation and fibrosis phenotypes were absent in skin fibroblasts from patients with homozygous loss-of-function mutation in IL11RA. Inhibition of IL11 signaling using either a neutralizing antibody against IL11 or siRNA against IL11RA reduced TGFβ-induced HDF proliferation, matrix production and cell migration, which was phenocopied by pharmacologic inhibition of ERK activity. Conclusions: These data reveal an important contribution of IL11-related ERK activity for TGFβ-stimulated fibrosis phenotypes in HDFs and suggest IL11 as a potential therapeutic target in SSc.

2021-02-22 | GSE162966 | GEO

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