ArticleBone & joint research2018
Use of integrative epigenetic and mRNA expression analyses to identify significantly changed genes and functional pathways in osteoarthritic cartilage.
Article in Bone & joint research, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- Identification of Genes Linked to Meniscal Degeneration in Osteoarthritis: An In Silico Analysis.International journal of molecular sciences · 2025Article
- Aging and cell expansion enhance microRNA diversity in small extracellular vesicles produced from human adipose-derived stem cells.Cytotechnology · 2025Article
- Article
- Whole-Transcriptome Sequencing of Knee Joint Cartilage from Kashin-Beck Disease and Osteoarthritis Patients.International journal of molecular sciences · 2024Article
- Cbfβ regulates Wnt/β-catenin, Hippo/Yap, and TGFβ signaling pathways in articular cartilage homeostasis and protects from ACLT surgery-induced osteoarthritis.bioRxiv : the preprint server for biology · 2024Article
- Identification of ZNF652 as a Diagnostic and Therapeutic Target in Osteoarthritis Using Machine Learning.Journal of inflammation research · 2024Article
- miR-3960 from Mesenchymal Stem Cell-Derived Extracellular Vesicles Inactivates SDC1/Wnt/Stem cells international · 2022Article
- Metabolic Profiling of Serum for Osteoarthritis Biomarkers.Disease markers · 2022Article
- Applications of transcriptomics in support of drug development for osteoarthritis.Osteoarthritis and cartilage open · 2021Article
- Identification of differentially expressed genes in synovial tissue of osteoarthritis based on a more robust integrative analysis method.Clinical rheumatology · 2021Article
- PARP-1 inhibition attenuates the inflammatory response in the cartilage of a rat model of osteoarthritis.Bone & joint research · 2021Article
- Article
- Intra-Articular Injection of (-)-Epigallocatechin 3-Gallate (EGCG) Ameliorates Cartilage Degeneration in Guinea Pigs with Spontaneous Osteoarthritis.Antioxidants (Basel, Switzerland) · 2021Article
- Knockout of miR-21-5p alleviates cartilage matrix degradation by targeting Gdf5 in temporomandibular joint osteoarthritis.Bone & joint research · 2020Article
- Integration of transcriptome-wide association study and messenger RNA expression profile to identify genes associated with osteoarthritis.Bone & joint research · 2020Article
- Analysis of methylation datasets identified significantly changed genes and functional pathways in osteoarthritis.Clinical rheumatology · 2019Article
- Whole-transcriptome sequencing of knee joint cartilage from osteoarthritis patients.Bone & joint research · 2019Article
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Authors and funding
17 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
aimOsteoarthritis (OA) is caused by complex interactions between genetic and environmental factors. Epigenetic mechanisms control the expression of genes and are likely to regulate the OA transcriptome. We performed integrative genomic analyses to define methylation-gene expression relationships in osteoarthritic cartilage. PATIENTS AND
methodsGenome-wide DNA methylation profiling of articular cartilage from five patients with OA of the knee and five healthy controls was conducted using the Illumina Infinium HumanMethylation450 BeadChip (Illumina, San Diego, California). Other independent genome-wide mRNA expression profiles of articular cartilage from three patients with OA and three healthy controls were obtained from the Gene Expression Omnibus (GEO) database. Integrative pathway enrichment analysis of DNA methylation and mRNA expression profiles was performed using integrated analysis of cross-platform microarray and pathway software. Gene ontology (GO) analysis was conducted using the Database for Annotation, Visualization and Integrated Discovery (DAVID).
resultsWe identified 1265 differentially methylated genes, of which 145 are associated with significant changes in gene expression, such as DLX5, NCOR2 and AXIN2 (all p-values of both DNA methylation and mRNA expression < 0.05). Pathway enrichment analysis identified 26 OA-associated pathways, such as mitogen-activated protein kinase (MAPK) signalling pathway (p = 6.25 × 10-4), phosphatidylinositol (PI) signalling system (p = 4.38 × 10-3), hypoxia-inducible factor 1 (HIF-1) signalling pathway (p = 8.63 × 10-3 pantothenate and coenzyme A (CoA) biosynthesis (p = 0.017), ErbB signalling pathway (p = 0.024), inositol phosphate (IP) metabolism (p = 0.025), and calcium signalling pathway (p = 0.032).
conclusionWe identified a group of genes and biological pathwayswhich were significantly different in both DNA methylation and mRNA expression profiles between patients with OA and controls. These results may provide new clues for clarifying the mechanisms involved in the development of OA.
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