Integrated bioinformatics analysis identified leucine rich repeat containing 15 and secreted phosphoprotein 1 as hub genes for calcific aortic valve disease and osteoarthritis

IF 1.9 4区 生物学 Q4 CELL BIOLOGY IET Systems Biology Pub Date : 2024-04-02 DOI:10.1049/syb2.12091
Shuji Gong, Kun Xiang, Le Chen, Huanwei Zhuang, Yaning Song, Jinlan Chen
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Abstract

Calcific aortic valve disease (CAVD) and osteoarthritis (OA) are common diseases in the ageing population and share similar pathogenesis, especially in inflammation. This study aims to discover potential diagnostic and therapeutic targets in patients with CAVD and OA. Three CAVD datasets and one OA dataset were obtained from the Gene Expression Omnibus database. We used bioinformatics methods to search for key genes and immune infiltration, and established a ceRNA network. Immunohistochemical staining was performed to verify the expression of candidate genes in human and mice aortic valve tissues. Two key genes obtained, leucine rich repeat containing 15 (LRRC15) and secreted phosphoprotein 1 (SPP1), were further screened using machine learning and verified in human and mice aortic valve tissues. Compared to normal tissues, the infiltration of immune cells in CAVD tissues was significantly higher, and the expressions of LRRC15 and SPP1 were positively correlated with immune cells infiltration. Moreover, the ceRNA network showed extensive regulatory interactions based on LRRC15 and SPP1. The authors’ findings identified LRRC15 and SPP1 as hub genes in immunological mechanisms during CAVD and OA initiation and progression, as well as potential targets for drug development.

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综合生物信息学分析确定了富含亮氨酸重复序列 15 和分泌型磷蛋白 1 是钙化性主动脉瓣疾病和骨关节炎的枢纽基因。
钙化性主动脉瓣病(CAVD)和骨关节炎(OA)是老年人群中的常见疾病,其发病机制相似,尤其是在炎症方面。本研究旨在发现 CAVD 和 OA 患者的潜在诊断和治疗靶点。我们从基因表达总库(Gene Expression Omnibus)数据库中获得了三个CAVD数据集和一个OA数据集。我们使用生物信息学方法搜索关键基因和免疫浸润,并建立了ceRNA网络。免疫组化染色验证了候选基因在人和小鼠主动脉瓣组织中的表达。利用机器学习进一步筛选了两个关键基因,即富含亮氨酸重复序列15(LRRC15)和分泌型磷蛋白1(SPP1),并在人和小鼠主动脉瓣组织中进行了验证。与正常组织相比,CAVD组织中免疫细胞的浸润显著增加,而LRRC15和SPP1的表达与免疫细胞的浸润呈正相关。此外,ceRNA网络显示了基于LRRC15和SPP1的广泛调控相互作用。作者的研究发现,LRRC15和SPP1是CAVD和OA发生和发展过程中免疫机制的枢纽基因,也是药物开发的潜在靶点。
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来源期刊
IET Systems Biology
IET Systems Biology 生物-数学与计算生物学
CiteScore
4.20
自引率
4.30%
发文量
17
审稿时长
>12 weeks
期刊介绍: IET Systems Biology covers intra- and inter-cellular dynamics, using systems- and signal-oriented approaches. Papers that analyse genomic data in order to identify variables and basic relationships between them are considered if the results provide a basis for mathematical modelling and simulation of cellular dynamics. Manuscripts on molecular and cell biological studies are encouraged if the aim is a systems approach to dynamic interactions within and between cells. The scope includes the following topics: Genomics, transcriptomics, proteomics, metabolomics, cells, tissue and the physiome; molecular and cellular interaction, gene, cell and protein function; networks and pathways; metabolism and cell signalling; dynamics, regulation and control; systems, signals, and information; experimental data analysis; mathematical modelling, simulation and theoretical analysis; biological modelling, simulation, prediction and control; methodologies, databases, tools and algorithms for modelling and simulation; modelling, analysis and control of biological networks; synthetic biology and bioengineering based on systems biology.
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