Identification of potential target genes associated with the pathogenesis of osteoarthritis using microarray based analysis

Li, Meng; Zhi, Liqiang; Zhang, Zhi; Bian, Weiguo; Qiu, Yusheng

doi:10.3892/mmr.2017.6928

Cited by 9 publications

(6 citation statements)

References 31 publications

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“…On the other hand, the downregulation of COL1A1 and GJA1 and absence of COL2A1 in H-derived aggregates may indicate an early migration phase that is RGD-dependent in which cells resemble a more undifferentiated state [34,39,40]. Furthermore, differences found could be related to the expression of different patterns of membrane proteins present in either OA-or H-derived cells, although these have not been considered in this study [41][42][43]. Finally, both OA and aging effects have been shown to impact the chondrogenic potential of MSCs.…”

Section: Discussionmentioning

confidence: 84%

RGD-Dendrimer-Poly(L-lactic) Acid Nanopatterned Substrates for the Early Chondrogenesis of Human Mesenchymal Stromal Cells Derived from Osteoarthritic and Healthy Donors

et al. 2020

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Aiming to address a stable chondrogenesis derived from mesenchymal stromal cells (MSCs) to be applied in cartilage repair strategies at the onset of osteoarthritis (OA), we analyzed the effect of arginine–glycine–aspartate (RGD) density on cell condensation that occurs during the initial phase of chondrogenesis. For this, we seeded MSC-derived from OA and healthy (H) donors in RGD-dendrimer-poly(L-lactic) acid (PLLA) nanopatterned substrates (RGD concentrations of 4 × 10−9, 10−8, 2.5 × 10−8, and 10−2 w/w), during three days and compared to a cell pellet conventional three-dimensional culture system. Molecular gene expression (collagens type-I and II–COL1A1 and COL2A1, tenascin-TNC, sex determining region Y-box9-SOX9, and gap junction protein alpha 1–GJA1) was determined as well as the cell aggregates and pellet size, collagen type-II and connexin 43 proteins synthesis. This study showed that RGD-tailored first generation dendrimer (RGD-Cys-D1) PLLA nanopatterned substrates supported the formation of pre-chondrogenic condensates from OA- and H-derived human bone marrow-MSCs with enhanced chondrogenesis regarding the cell pellet conventional system (presence of collagen type-II and connexin 43, both at the gene and protein level). A RGD-density dependent trend was observed for aggregates size, in concordance with previous studies. Moreover, the nanopatterns’ had a higher effect on OA-derived MSC morphology, leading to the formation of bigger and more compact aggregates with improved expression of early chondrogenic markers.

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Section: Discussionmentioning

confidence: 84%

RGD-Dendrimer-Poly(L-lactic) Acid Nanopatterned Substrates for the Early Chondrogenesis of Human Mesenchymal Stromal Cells Derived from Osteoarthritic and Healthy Donors

et al. 2020

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“…In addition, another four bioinformatics analyses identified AGT , CXCL12 , KDM2B , VEGFA , JUN , JUNB , PISD , RARRES3 , EIF4G1 , EPHA3 , KIF2C , KIF11 , KIF20A , PTTG1 , MAP2K6 , PPP3CC , and CSNK1E as potentially essential genes associated with the pathogenesis of knee OA. 25 26 27 28 …”

Section: Discussionmentioning

confidence: 99%

Exploring the Key Genes and Pathways of Osteoarthritis in Knee Cartilage in a Rat Model Using Gene Expression Profiling

Ren¹,

Zhao

Yang³

et al. 2018

Yonsei Med J

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PurposeTo compare differentially expressed genes (DEGs) mediating osteoarthritis (OA) in knee cartilage and in normal knee cartilage in a rat model of OA and to identify their impact on molecular pathways associated with OA.Materials and MethodsA gene expression profile was downloaded from the Gene Expression Omnibus database. Analysis of DEGs was carried out using GEO2R. Enrichment analyses were performed on the Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes pathway using the Search Tool for the Retrieval of Interacting Genes database (http://www.string-db.org/). Subsequently, the regulatory interaction network of OA-associated genes was visualized using Cytoscape software (version 3.4.0; www.cytoscape.org).ResultsIn the gene expression profile GSE103416, a total of 99 DEGs were identified. Among them, 76 DEGs (76.77%) were overexpressed, and the remaining 23 DEGs (23.23%) were underexpressed. GO and pathway enrichment analyses of target genes were performed. Using gene-gene interaction network analysis, relevant core genes, including MET, UBB, GNAI3, and GNA13, were shown to hold a potential relationship with the development of OA in cartilage. Using quantitative real-time PCR, the Gna13/cGMP-PKG signaling pathway was identified as a potential research target for therapy and for further understanding the development of OA.ConclusionThe results of the present study provide a comprehensive understanding of the roles of DEGs in knee cartilage in relation to the development of OA.

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“…With the development of bioinformatics, a lot of researches have been conducted on the gene expression profile of OA [10][11][12]. Although previous studies have used microarrays to identify some differentially expressed genes (DEGs) [13,14], there may be some inconsistencies between the studies due to differences in sample size and quality. The meta-analysis method is a systematic method of researching and combining different public datasets, which can improve the accuracy and reliability of data analysis.…”

Section: Introductionmentioning

confidence: 99%

Meta-Analyses of Multiple Gene Expression Profiles to Screen Hub Genes Related to Osteoarthritis

Xianyang

Guo²

2021

Public Health Genomics

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Background: This study aimed to screen and validate the crucial genes involved in osteoarthritis (OA) and explore its potential molecular mechanisms. Methods: Four expression profile datasets related to OA were downloaded from the Gene Expression Omnibus (GEO). The differentially expressed genes (DEGs) from 4 microarray patterns were identified by the meta-analysis method. The weighted gene co-expression network analysis (WGCNA) method was used to investigate stable modules most related to OA. In addition, a protein-protein interaction (PPI) network was built to explore hub genes in OA. Moreover, OA-related genes and pathways were retrieved from Comparative Toxicogenomics Database (CTD). Results: A total of 1,136 DEGs were identified from 4 datasets. Based on these DEGs, WGCNA further explored 370 genes included in the 3 OA-related stable modules. A total of 10 hub genes were identified in the PPI network, including AKT1, CDC42, HLA-DQA2, TUBB, TWISTNB, GSK3B, FZD2, KLC1, GUSB, and RHOG. Besides, 5 pathways including “Lysosome,” “Pathways in cancer,” “Wnt signaling pathway,” “ECM-receptor interaction” and “Focal adhesion” in CTD and enrichment analysis and 5 OA-related hub genes (including GSK3B, CDC42, AKT1, FZD2, and GUSB) were identified. Conclusion: In this study, the meta-analysis was used to screen the central genes associated with OA in a variety of gene expression profiles. Three OA-related modules (green, turquoise, and yellow) containing 370 genes were identified through WGCNA. It was discovered through the gene-pathway network that GSK3B, CDC42, AKT1, FZD2, and GUSB may be key genes related to the progress of OA and may become promising therapeutic targets.

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Identification of potential target genes associated with the pathogenesis of osteoarthritis using microarray based analysis

Cited by 9 publications

References 31 publications

RGD-Dendrimer-Poly(L-lactic) Acid Nanopatterned Substrates for the Early Chondrogenesis of Human Mesenchymal Stromal Cells Derived from Osteoarthritic and Healthy Donors

RGD-Dendrimer-Poly(L-lactic) Acid Nanopatterned Substrates for the Early Chondrogenesis of Human Mesenchymal Stromal Cells Derived from Osteoarthritic and Healthy Donors

Exploring the Key Genes and Pathways of Osteoarthritis in Knee Cartilage in a Rat Model Using Gene Expression Profiling

Meta-Analyses of Multiple Gene Expression Profiles to Screen Hub Genes Related to Osteoarthritis

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