Abstract：Objective To predictive analyze the regulatory effects of key long noncoding RNA (lncRNA) in postmenopausal osteoporosis (PMOP) by random forest algorithm. Methods The chip data of patients with PMOP was obtained by searching gene expression omnibus database, and the retrieval time was from the inception to December 2020. Key lncRNAs were screened by random forest algorithm, lncRNA target genes were predicted by starBase V2.0 database, and the lncRNA-target gene regulatory network was constructed. STRING V11 was used for proteinprotein interaction analysis of target genes, and R language and KOBAS database were used for GO and KEGG enrichment analysis. Results A total of 127 lncRNA expression data were obtained, ten key lncRNAs were screened by random forest model, and 98 target genes were predicted by starBase V2.0. The target genes were mainly enriched in 13 GO processes such as RNA polymerase activity and 12 KEGG signaling pathways such as galactose metabolism. Conclusion In this study, through mining PMOP gene chip data, the key lncRNAs are screened based on random forest algorithm and the biological process and signal pathway involved in their target genes are predicted. It is concluded that lncRNAs may be involved in the regulation of proliferation and differentiation of osteoblasts and osteoclasts, transcription and translation of genetic materials, and glucose and lipid metabolism of the body.
陈敬恒 陈凯奇 何达东 石宇雄. 基于随机森林算法预测分析绝经妇女骨质疏松症关键lncRNA及其调控作用[J]. 中国医药导报, 2021, 18(30): 23-27.
CHEN Jingheng CHEN Kaiqi HE Dadong SHI Yuxiong. Predictive analysis of key lncRNA and its regulatory effects in postmenopausal osteoporosis based on random forest algorithm#br#. 中国医药导报, 2021, 18(30): 23-27.
[1] 李静，陈德才，王覃.2016年《美国内分泌医师协会与美国内分泌协会绝经后骨质疏松症诊疗指南》解读[J].中国全科医学，2017，20（8）：891-895.
[2] Li X，Wu Z，Fu X，et al. lncRNAs：insights into their function and mechanics in underlying disorders [J]. Mutat Res Rev Mutat Res，2014，762：1-21.
[3] 马智勇，郭成龙.lncRNA对骨质疏松骨代谢相关信号通路影响的研究进展[J].中国骨质疏松杂志，2018，24（4）：547-551.
[4] Huang S，Zhu X，Xiao D，et al. LncRNA SNHG1 was down-regulated after menopause and participates in postmenopausal osteoporosis [J]. Biosci Rep，2019，39：11.
[5] 洪宇桁，雪原.lncRNA NEAT1过表达促进破骨细胞分化并抑制成骨细胞分化诱发骨质疏松[J].天津医科大学学报，2019，25（1）：5-9，23.
[6] Ahuja K，Rather GM，Lin Z，et al. Toward point-of-care assessment of patient response：a portable tool for rapidly assessing cancer drug efficacy using multifrequency impedance cytometry and supervised machine learning [J]. Microsyst Nanoeng，2019，5：34.
[7] Fabris F，Magalh?觔es JP，Freitas AA. A review of supervised machine learning applied to ageing research [J]. Biogerontol，2017，18（2）：171-188.
[8] Rahman R，Matlock K，Ghosh S，et al. Heterogeneity Aware Random Forest for Drug Sensitivity Prediction [J]. Sci Rep，2017，7（1）：11347.
[9] Carvalho BS，Irizarry RA. A framework for oligonucleotide microarray preprocessing [J]. Bioinformatics，2010，26（19）：2363-2367.
[10] Alhamdoosh M，Law CW，Tian L，et al. Easy and efficient ensemble gene set testing with EGSEA [J]. F1000Res，2017，6：2010.
[11] Li JH，Liu S，Zhou H，et al. starBasev2.0：decoding miRNA-ceRNA，miRNA-ncRNA and protein-RNA interaction networks from large-scale CLIP-Seq data [J]. Nucleic Acids Res，2014，42：D92-D97.
[12] Szklarczyk D，Gable AL，Lyon D，et al. STRING v11：protein-protein association networks with increased coverage，supporting functional discovery in genome-wide experimental datasets [J]. Nucleic Acids Res，2019，47（D1）：D607-D613.
[13] Kanehisa M，Goto S. KEGG：kyoto encyclopedia of genes and genomes [J]. Nucleic Acids Res，2000，28（1）：27-30.
[14] The Gene Ontology Consortium. Expansion of the Gene Ontology knowledgebase and resources [J]. Nucleic Acids Res，2017，45（D1）：D331-D338.
[15] Yu G，Wang LG，Han Y，et al. clusterProfiler：an R package for comparing biological themes among gene clusters [J]. OMICS，2012，16（5）：284-287.
[16] Xie C，Mao X，Huang J，et al. KOBAS 2.0：a web server for annotation and identification of enriched pathways and diseases [J]. Nucleic Acids Res，2011，39：W316-W322.
[17] 李生强，许惠娟，陈娟，等.绝经后骨质疏松症肾阴虚证关联LincRNA uc431+的表达研究[J].中国骨质疏松杂志，2016，22（8）：966-971.
[18] 陈娟，谢丽华，李生强，等.lncRNA在绝经后骨质疏松症肾阴虚证中的表达特征及调控网络分析[J].中国骨质疏松杂志，2015，21（5）：553-559.
[19] Gelbard RB，Hensman H，Schobel S，et al. Random forest modeling can predict infectious complications following trauma laparotomy [J]. J Trauma Acute Care Surg，2019， 87（5）：1125-1132.
[20] Wang KC，Chang HY. Molecular mechanisms of long noncoding RNAs [J]. Molecular cell，2011，43（6）：904-914.
[21] He L，Zhao X，He L. LINC01140 Alleviates the Oxidized Low-Density Lipoprotein-Induced Inflammatory Response in Macrophages via Suppressing miR-23b [J]. Inflammation，2020，43（1）：66-73.
[22] Gu JX，Zhang X，Miao RC，et al. Six-long non-coding RNA signature predicts recurrence-free survival in hepatocellular carcinoma [J]. World J Gastroenterol，2019，25（2）：220-232.
[23] Li K，Han H，Gu W，et al. Long non-coding RNA LINC01963 inhibits progression of pancreatic carcinoma by targeting miR-641/TMEFF2 [J]. Biomed Pharmacother，2020，129：110346.
[24] Han H，Zhan Z，Xu J，et al. TMEFF2 inhibits pancreatic cancer cells proliferation，migration，and invasion by suppressing phosphorylation of the MAPK signaling pathway [J]. Onco Targets Ther，2019，12：11371-11382.
[25] Wang J，Xi C，Yang X，et al. LncRNA WT1-AS Inhibits Triple-Negative Breast Cancer Cell Migration and Invasion by Downregulating Transforming Growth Factor β1 [J]. Cancer Biother Radiopharm，2019，34（10）：671-675.
[26] Zhang Y，Na R，Wang X. LncRNA WT1-AS up-regulates p53 to inhibit the proliferation of cervical squamous carcinoma cells [J]. BMC Cancer，2019，19（1）：1052.
[27] Zhao H，Li X，Zhang D，et al. Integrative Bone Metabolomics-Lipidomics Strategy for Pathological Mechanism of Postmenopausal Osteoporosis Mouse Model [J]. Sci Rep，2018， 8（1）：16456.
[28] Hung YT，Tikhonova MA，Ding SJ，et al. Effects of chronic treatment with diosgenin on bone loss in a D-galactose-induced aging rat model [J]. Chin J Physiol，2014， 57（3）：121-127.
京公网安备 11010502046598号