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Gene expression profile as single cell level of chronic diabetic foot ulcers and chronic non-diabetic foot ulcer

ABSTRACT: We investigate the changes between diabetic and non-diabetic wound healing process in chronic foot ulcer.

ORGANISM(S): Homo sapiens

PROVIDER: GSE223964 | GEO | 2023/02/01

REPOSITORIES: GEO

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			Action	DRS
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	GSE223964_Integrated_all_cells.h5ad.gz	Other
	GSE223964_RAW.tar	Raw
	GSE223964_allcell.h5ad.gz	Other
	GSE223964_allcell.h5seurat	Other

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Single Cell Analysis of Gene expression profile as single cell level of chronic diabetic foot ulcers and chronic non-diabetic foot ulcer Foot Wounds

Project description:We investigate the changes between diabetic and non-diabetic wound healing process in chronic foot ulcer.

2023-10-24 | GSE245703 | GEO

Transcriptome analysis in the Treatment of Diabetic Foot Ulcer Healing by Tibial Cortex Transverse Distraction

Project description:To investigate mRNA Expression profile and associated signaling pathways in the treatment of diabetic foot ulcer healing by tibial cortex transverse distraction. Methods: Tissue samples were collected from the wound edge before and after the surgery. After reference genome transcriptome sequencing and subsequent bioinformatics analysis, the differentially expressed genes and related pathways were explored, and functional analysis of important genes and pathways was conducted.

2024-10-30 | GSE271701 | GEO

Spatial transcriptomics of healing and non-healing diabetic foot ulcers

Project description:Diabetic foot ulcers (DFUs) are a devastating complication of diabetes. To better understand the molecular mechanisms and cell types implicated in DFU healing, we used NanoString’s GeoMx Digital Spatial profiling platform on DFU tissue sections and compared gene expression of areas within the same ulcer as well as between patients who in 12 weeks following surgery healed their DFU (Healers, N=2) vs those who did not (Non-Healers, N=2).

2021-10-28 | GSE166120 | GEO

Overexpression of hsa-HLA-DRB1 may play a role in diabetic foot ulcers by regulating miRNA_12118 and FLT-1

Project description:Introduction: We investigated the role and mechanism of hsa-HLA-DRB1 in the development and progression of diabetic foot ulcers. Methods: High-throughput sequencing was performed on three normal foot trauma tissues and diabetic foot ulcer tissues. The circRNAs with significant differences were identified. The downstream miRNAs were predicted by miRanda and RNAhybrid databases, and the mRNAs were predicted by the TargetScan database. Validation was performed with CCK8, flow cytometry, trabecular scratch assay, tubule generation assay, Western blot, dual luciferase assay, and RT-qPCR. Results: High-throughput sequencing identified 461 significantly different circRNAs, of which 260 were up-regulated and 201 down-regulated. Compared to normal tissue, hsa-HLA-DRB1 was highly expressed in diabetic foot ulcers. The hsa-HLA-DRB1/miRNA_12118/FLT-1 axis was constructed. In vitro, we found that HLA-DRB1 overexpression inhibited cell viability, wound healing, and tubule formation, promoted apoptosis, and enhanced FLT-1 expression in HUVECs. Conclusion: The upregulation of hsa-HLA-DRB1 may promote diabetic foot development by targeting miRNA_12118 and acting on FLT-1. Therefore, our study highlights the key role of the hsa-HLA-DRB1/miRNA_12118/FLT-1 axis in diabetic foot trauma.

2025-06-04 | GSE286165 | GEO

Single Cell Transcriptomic Landscape of Diabetic Foot Ulcers

Project description:Diabetic foot ulcers (DFUs) are a devastating complication of diabetes. In order to identify systemic and local factors associated with DFU healing, we examined the cellular landscape of DFUs by single-cell RNA-seq analysis of foot and forearm skin specimens, as well as PBMC samples, from 10 non-diabetic subjects, and 17 diabetic patients, 11 with, and 6 without DFU. Our analysis shows enrichment of a unique inflammatory fibroblast population in DFU patients with healing wounds. The patients with healing DFUs also depicted enrichment of macrophages with M1 polarization, as opposed to more M2 macrophages in non-healing wounds. These findings were verified using Immunohistochemistry and Spatial Transcriptomics.

2021-11-01 | GSE165816 | GEO

Gene expression profile as single cell level of chronic diabetic foot ulcers and chronic non-diabetic foot ulcer

Project description:Gene expression profile as single cell level of chronic diabetic foot ulcers and chronic non-diabetic foot ulcer

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The Role of Fibroblasts in Diabetic Ulcer Healing and the Therapeutic Potential of Platelet-Rich Plasma (PRP): Insights from Single-Cell Sequencing and Animal Models

Project description:Objective: This study aims to investigate the diversity of fibroblasts present in diabetic ulcers and their impact on the wound healing process, as well as to evaluate the effectiveness of Platelet-Rich Plasma (PRP) therapy in the management of diabetic ulcers. Methodology: The single-cell dataset GSE165816 from the GEO database was utilized to analyze DFU-healer and DFU-nonhealer samples in order to evaluate variations in fibroblasts. Functional characteristics of fibroblasts were investigated through analyses of cell communication, transcription factors, and pseudotime analysis. Additionally, a diabetic ulcer rat model was established to compare the therapeutic effects of PRP, followed by histological and transcriptomic sequencing analyses. Result: Single-cell sequencing analysis identified a greater abundance of fibroblasts in the group of diabetic foot ulcer (DFU) patients who exhibited healing. The findings from biological informatics analysis emphasized the critical role of fibroblasts in the wound healing process. Treatment with PRP notably enhanced wound healing in diabetic ulcers in rats, and transcriptomic analysis indicated that gene expression levels post-PRP treatment resembled those of the non-diabetic ulcer group, with a strong association to fibroblasts. Conclusion: Fibroblasts are essential in the process of healing diabetic ulcers, as certain transcription factors have the potential to facilitate wound closure. PRP therapy has been shown to enhance the healing process in diabetic ulcer rat models, possibly through the modulation of gene expression and the promotion of extracellular matrix arrangement. This research offers novel insights and potential therapeutic approaches for managing diabetic ulcers.

2024-11-11 | GSE280992 | GEO

Diabetic foot ulcer mycobiome

Project description:Phylogeny of the diabetic foot ulcer mycobiome of an Afro-Caribbean population

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Diabetic foot ulcer microbiome

Project description:Phylogenetic profiling of the diabetic foot ulcer microbiome of an Afro-Caribbean population

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Diabetic foot ulcers debridement SCRNA-seq showed healing association with inflammatory fibroblasts in minorities

Project description:In this pilot study, we optimized diabetic foot ulcers (DFUs) single-cell profiling from debrided DFUs of underrepresented African American (AA) patients. The healing-DFUs were significantly enriched (P=0.03) with unique heterogenous Healing-associated Fibroblasts (HE-Fibro), expressing inflammation (CHI3L1), ECM-remodeling (MMP13, ASPN) and wound healing (NRG1, COL7A1) associated genes, validating our previous findings with surgically resected healer-DFUs. HE-Fibro/Fibro cells depicted significantly lower expression of key healing-associated CHIL3L1, and TIMP1 genes in AAs compared to Whites, signifying race-associated heterogeneity. Reparative M2 macrophages were enriched in Healing-DFUs (P=0.05), while inflammatory M1 macrophages displayed distinct transcriptome differences in Nonhealing-DFUs and Healing-DFUs. Cellular communication analysis revealed a pivotal role for HE-Fibro/Fibroblasts (signal-senders) and M1 (signal-receivers). HE-Fibro’s signaling significantly upregulated wound-resolving WNT, and ECM-remodeling CXCL pathways in Healing-DFUs, while M1 signaling upregulated healing-disruptive, and inflammation-associated, SPP1 pathways, in Nonhealing-DFUs. This study justifies using debrided tissues for single-cell assays and highlights the need for in-depth investigations into dysregulated wound healing microenvironments in AAs.

2025-07-10 | GSE231643 | GEO

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