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Human Peripheral blood mononuclear cells (PBMCs): Control vs. Kashin-Beck Disease

ABSTRACT: Objective:To identify an accurate blood-based gene signature for early detection of Kashin-Beck disease (KBD). Methods: Gene expression analysis was conducted of peripheral blood samples from 100 patients with KBD and 100 controls randomly chosen from two KBD-endemic areas Two-condition experiment, Control vs. KBD PBM cells. Biological replicates: 100 control replicates, 100 KBD replicates.

ORGANISM(S): Homo sapiens

SUBMITTER: Xi Wang

PROVIDER: E-GEOD-59446 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Peripheral blood mononuclear cells, control vs. Kashin-Beck Disease

Project description:Objective: To investigate the differences between the gene expression profiles in peripheral blood mononuclear cells (PBMC) from normal controls and patients with Kashin-Beck disease (KBD). Methods: Twenty KBD patients and 12 normal subjects were selected from a KBD-endemic area and divided into four pairs of KBD vs. control (KBD, n=5 per pair; control, n=3 per pair). RNAs were respectively isolated from KBD PBMCs and normal PBMCs. Gene expression profiles were analyzed by oligonucleotide microarray. Two-condition experiment, control vs. KBD PBM cells. Biological replicates: 4 control replicates, 4 KBD replicates.

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Peripheral blood mononuclear cells, control vs. Kashin-Beck Disease

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circulating microRNA expression profiles of Kashin-Beck disease, osteoarthritis and rheumatoid arthritis

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Genome-Wide Differentially Methylated Region Analysis to Reveal Epigenetic Differences of Articular Cartilage in Kashin-Beck Disease and Osteoarthritis

Project description:Kashin-Beck disease (KBD) is a degenerative osteoarticular disorder, and displays the significant differences with osteoarthritis (OA) regarding the etiology and molecular changes in articular cartilage. However, the underlying dysfunctions of molecular mechanisms in KBD and OA remain unclear. Here, we performed the various genome-wide differentially methylated region analyses to reveal the distinct differentially methylated regions (DMRs) and corresponding differentially methylated genes (DMGs), and enriched functional pathways/GO terms for KBD and OA.

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Integration of miRNA in exosomes and single-cell RNA-seq profiles in endemic osteoarthritis, Kashin-Beck disease

Project description:Kashin-Beck disease (KBD) is an endemic, chronic degenerative joint disease in China. Exosomes miRNAs, as signaling molecules in intercellular communication, can transfer specific biological martials into target cell to regulate the their function and might participate in the pathogenesis of KBD. We isolated serum and chondrocytes-derived exosomes, miRNA sequencing revealed exosomes miRNA profiles and differentially expressed miRNAs (DE-miRNAs) were identified. The target genes were predicted of known and novel DE-miRNAs with TargetScan 5.0 and miRanda 3.3a database. Single-cell RNA sequencing (scRNA-seq) was performed to identify chondrocyte clusters and their gene signatures in KBD. And we performed comparative analysis between the serum and chondrocytes-derived exosomes DE-miRNA target genes and differentially expressed genes of each cell clusters.A total of 20 DE-miRNAs were identified in serum-derived exosomes. In the miRNA expression of chondrocytes-derived exosomes, 53 DE-miRNAs were identified. 16063 predicted targets were identified as the target genes in the serum-derived exosomes, 57316 predicted targets were identified as the target genes in the chondrocytes-derived exosomes. Seven clusters were labelled by cell type according to the expression of previously described markers. 315 common genes were found among serum/chondrocytes-derived exosomes DE-miRNA target genes and DEGs identified by scRNA-seq analysis. We firstly integratly analyzed the serum and chondrocytes exosomes miRNA with single-cell RNA sequencing (scRNA-seq) data of KBD chondrocyte, the results showed that DE-miRNAs in exosomes might play a potential role in regulating genes expression in different KBD chondrocytes clusters by exosomes mediating cell-cell communications functions, which could improve the new diagnosis and treatment methods for KBD.

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Genome-wide Gene Expression profiles of Kashin-Beck Disease

Project description:We compared genome-wide gene expression profiles of articular cartilage derived from 4 KBD patients and 4 normal controls. Total RNA was isolated from cartilage samples following by being amplified, labeled and hybridized to Agilent human 1A 22k microarray chip(G4110B).

2011-10-01 | E-MEXP-3196 | biostudies-arrayexpress

Comprehensive expression profiles of mRNAs, lncRNAs and miRNAs in Kashin-Beck Disease identified by RNA-sequencing

Project description:RNA‐seq technology to detect the differentially expressed mRNAs, lncRNAs and miRNAs in KBD patients. The database of Gene Ontology (GO) and the Kyoto Encyclopedia of Genes and Genomes (KEEG) were employed to conduct functional annotation and pathway enriched analysis for differential expression.

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Serum proteomics of patients with Kashin-beck disease

Project description:Kashin-Beck disease (KBD), a chronic and endemic degenerative chronic joint disease, which etiolo. In order to discover biomarkers for KBD, the serum DIA proteomics analysis was conducted to detect the differentially expressed proteins between KBD patients and healthy controls.

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Prevalence of hand osteoarthritis and knee osteoarthritis in Kashin-Beck disease endemic areas and non Kashin-Beck disease endemic areas: A status survey.

Project description:Osteoarthritis (OA) is a considerable health problem worldwide, and the prevalence of OA varies in different regions. In this study, the prevalence of OA in Kashin-Beck disease (KBD) and non-KBD endemic areas was examined, respectively. According to monitoring data, 4 types of regions (including none, mild, moderate and high KBD endemic areas) in Heilongjiang and Jilin provinces were selected. All local residents were eligible for inclusion criteria have undergone X-ray images of hands and anteroposterior image of knees. A total of 1673 cases were collected, 1446 cases were analyzed after removing the KBD patients (227). The overall hand OA and knee OA detection rates were 33.3% (481/1446) and 56.6% (818/1446), respectively. After being standardized by age, the detection rate of hand OA in the KBD endemic areas was significantly higher than that in the non-endemic endemic areas. Differently, there was no significant difference in the detection rates of knee OA between the KBD endemic areas and the non-endemic area. The correlation coefficient between the severity of OA and the severity of knee OA was 0.358 and 0.197 in the KBD and non-KBD endemic areas, respectively. Where the KBD historical prevalence level was higher, the severity of the residents' hand OA was more serious. The detection rates of hand OA and knee OA increased with age. The detection rate of knee OA increased with the increase in body mass index. The prevalence of hand OA was closely related to the pathogenic factors of Kashin-Beck disease, and the prevalence of knee OA had no significant correlation with KBD pathogenic factors.

| S-EPMC5761882 | biostudies-literature

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