Li Zhuoyang, Mei Haibo, Liu Kun, Yang Ge
Department of Orthopedics, The First Affiliated Hospital, College of Medicine, Zhejiang University, Hangzhou, China.
Department of Orthopedics, Hunan Children's Hospital, Changsha, Hunan, China.
Front Genet. 2023 Feb 6;14:1094298. doi: 10.3389/fgene.2023.1094298. eCollection 2023.
To analyze the lncRNA-mRNA differential expression and co-expression network of periosteal stem cells (PSCs) from congenital pseudarthrosis of the tibia (CPT) and normal patients, and to explore the role of key lncRNAs. Differentially expressed lncRNAs and mRNAs in PSCs were obtained by sequencing, and biological functions of differentially expressed mRNAs were detected by gene ontology (GO), Kyoto encyclopedia of genes and genomes (KEGG) pathway and protein -protein interaction (PPI) analysis. The co-expression network of lncRNA-mRNA was constructed by correlation analysis of differentially expressed lncRNAs and mRNAs, and the key lncRNAs were screened according to the connectivity degree. After that, the cis-regulated target genes of differential expressed lncRNAs and mRNAs were predicted. A total of 194 differentially expressed lncRNAs were identified, including 73 upregulated and 121 downregulated genes. A total of 822 differentially expressed mRNAs were identified, including 311 upregulated and 511 downregulated genes. GO, KEGG and PPI enrichment analysis showed that the regulatory function of differentially expressed mRNAs were mainly gathered in skeletal system development and tissue morphogenesis. The co-expression network with 226 nodes and 3,390 edges was constructed based on correlation analysis. A total of 10 key lncRNAs, including FAM227B, POM121L9P, AF165147 and AC103702, were screened according to connectivity degree. Prediction of target genes indicated that FAM227B-FGF7 and AC103702-HOXB4/5/6 may play an important role in the pathogenesis of CPT. A total of 10 key lncRNAs, including FAM227B, POM121L9P, AF165147, and AC103702, occupy the core position in the co-expression network, suggesting that these lncRNAs and their target genes may play an important role in the pathogenesis of CPT.
分析先天性胫骨假关节（CPT）患者和正常患者骨膜干细胞（PSC）的lncRNA-mRNA差异表达及共表达网络，探讨关键lncRNA的作用。通过测序获得PSC中差异表达的lncRNA和mRNA，并通过基因本体论（GO）、京都基因与基因组百科全书（KEGG）通路以及蛋白质-蛋白质相互作用（PPI）分析检测差异表达mRNA的生物学功能。通过对差异表达的lncRNA和mRNA进行相关性分析构建lncRNA-mRNA共表达网络，并根据连接度筛选关键lncRNA。之后，预测差异表达的lncRNA和mRNA的顺式调控靶基因。共鉴定出194个差异表达的lncRNA，其中73个上调基因和121个下调基因。共鉴定出822个差异表达的mRNA，其中311个上调基因和511个下调基因。GO、KEGG和PPI富集分析表明，差异表达mRNA的调控功能主要集中在骨骼系统发育和组织形态发生。基于相关性分析构建了一个具有226个节点和3390条边的共表达网络。根据连接度筛选出10个关键lncRNA，包括FAM227B、POM121L9P、AF165147和AC103702。靶基因预测表明，FAM227B-FGF7和AC103702-HOXB4/5/6可能在CPT发病机制中起重要作用。包括FAM227B、POM121L9P、AF165147和AC103702在内的10个关键lncRNA在共表达网络中占据核心位置，表明这些lncRNA及其靶基因可能在CPT发病机制中起重要作用。
