Circular RNAs(circRNAs) play important roles in various biological processes, as essential non-coding RNAs that have effects on transcriptional and posttranscriptional gene expression regulation. Recently, many studie...Circular RNAs(circRNAs) play important roles in various biological processes, as essential non-coding RNAs that have effects on transcriptional and posttranscriptional gene expression regulation. Recently, many studies have shown that circRNAs can be regarded as micro RNA(miRNA) sponges, which are known to be associated with certain diseases. Therefore efficient computation methods are needed to explore miRNAcircRNA interactions, but only very few computational methods for predicting the associations between miRNAs and circRNAs exist. In this study, we adopt an improved random walk computational method, named KRWRMC, to express complicated associations between miRNAs and circRNAs. Our major contributions can be summed up in two points. First, in the conventional Random Walk Restart Heterogeneous(RWRH) algorithm, the computational method simply converts the circRNA/miRNA similarity network into the transition probability matrix;in contrast,we take the influence of the neighbor of the node in the network into account, which can suggest or stress some potential associations. Second, our proposed KRWRMC is the first computational model to calculate large numbers of miRNA-circRNA associations, which can be regarded as biomarkers to diagnose certain diseases and can thus help us to better understand complicated diseases. The reliability of KRWRMC has been verified by Leave One Out Cross Validation(LOOCV) and 10-fold cross validation, the results of which indicate that this method achieves excellent performance in predicting potential miRNA-circRNA associations.展开更多
背景:目前非编码RNA已被证实在多种骨科疾病中发挥重要作用,因此,非编码RNA可能为了解该疾病的病因、发病机制、治疗方法带来新的思路。目的:探索早期诊断、治疗股骨头坏死的方法和思路,综述非编码RNA在股骨头坏死中的研究进展,并提出...背景:目前非编码RNA已被证实在多种骨科疾病中发挥重要作用,因此,非编码RNA可能为了解该疾病的病因、发病机制、治疗方法带来新的思路。目的:探索早期诊断、治疗股骨头坏死的方法和思路,综述非编码RNA在股骨头坏死中的研究进展,并提出目前所存在的问题及解决方法。方法:以“股骨头坏死,非编码RNA,miRNA,lncRNA,circRNA”为检索词检索中国知网、万方、维普等数据库,以“osteonecrosis of the femoral head,non-coding RNAs,miRNA,lncRNA,circRNA”为检索词检索PubMed、Medline等数据库,检索时限均为2000年1月至2021年11月。最终纳入67篇文献。结果与结论:(1)非编码RNA的种类非常丰富,大约占所有转录产物的98%,同时占所有RNA的90%左右,根据其功能可分为管家非编码RNA(如tRNA、rRNA、snoRNA)以及调节非编码RNA(如miRNA、lncRNA、circRNA、siRNA);(2)目前miRNAs与激素型股骨头坏死的研究逐渐成为热点,而外泌体lncRNAs、circRNAs与股骨头坏死的相关研究尚未见到报道;(3)多数非编码RNA在发生激素型股骨头坏死时表达下调,大部分非编码RNA通过负向调控其相关靶基因,以促进骨髓间充质干细胞增殖、成骨分化,促进成骨标记物的表达,也可以促进血管内皮细胞生成,从而抑制股骨头缺血性坏死的发生及进展;(4)外泌体携带的非编码RNA也可以在股骨头坏死中发生作用,但目前文献量较少,非编码RNA是否通过外泌体携带所产生的作用目前暂不清楚,在未来的研究中可逐渐完善;(5)利用非编码RNA类似物和抑制剂可以有效抑制非创伤性股骨头坏死的发生发展,可以为非创伤性股骨头坏死的早期诊断和治疗提供新的策略。展开更多
基金supported by the National Natural Science Foundation of China (No. 61672334)the Fundamental Research Funds for the Central Universities (No. GK201901010)
文摘Circular RNAs(circRNAs) play important roles in various biological processes, as essential non-coding RNAs that have effects on transcriptional and posttranscriptional gene expression regulation. Recently, many studies have shown that circRNAs can be regarded as micro RNA(miRNA) sponges, which are known to be associated with certain diseases. Therefore efficient computation methods are needed to explore miRNAcircRNA interactions, but only very few computational methods for predicting the associations between miRNAs and circRNAs exist. In this study, we adopt an improved random walk computational method, named KRWRMC, to express complicated associations between miRNAs and circRNAs. Our major contributions can be summed up in two points. First, in the conventional Random Walk Restart Heterogeneous(RWRH) algorithm, the computational method simply converts the circRNA/miRNA similarity network into the transition probability matrix;in contrast,we take the influence of the neighbor of the node in the network into account, which can suggest or stress some potential associations. Second, our proposed KRWRMC is the first computational model to calculate large numbers of miRNA-circRNA associations, which can be regarded as biomarkers to diagnose certain diseases and can thus help us to better understand complicated diseases. The reliability of KRWRMC has been verified by Leave One Out Cross Validation(LOOCV) and 10-fold cross validation, the results of which indicate that this method achieves excellent performance in predicting potential miRNA-circRNA associations.
文摘背景:目前非编码RNA已被证实在多种骨科疾病中发挥重要作用,因此,非编码RNA可能为了解该疾病的病因、发病机制、治疗方法带来新的思路。目的:探索早期诊断、治疗股骨头坏死的方法和思路,综述非编码RNA在股骨头坏死中的研究进展,并提出目前所存在的问题及解决方法。方法:以“股骨头坏死,非编码RNA,miRNA,lncRNA,circRNA”为检索词检索中国知网、万方、维普等数据库,以“osteonecrosis of the femoral head,non-coding RNAs,miRNA,lncRNA,circRNA”为检索词检索PubMed、Medline等数据库,检索时限均为2000年1月至2021年11月。最终纳入67篇文献。结果与结论:(1)非编码RNA的种类非常丰富,大约占所有转录产物的98%,同时占所有RNA的90%左右,根据其功能可分为管家非编码RNA(如tRNA、rRNA、snoRNA)以及调节非编码RNA(如miRNA、lncRNA、circRNA、siRNA);(2)目前miRNAs与激素型股骨头坏死的研究逐渐成为热点,而外泌体lncRNAs、circRNAs与股骨头坏死的相关研究尚未见到报道;(3)多数非编码RNA在发生激素型股骨头坏死时表达下调,大部分非编码RNA通过负向调控其相关靶基因,以促进骨髓间充质干细胞增殖、成骨分化,促进成骨标记物的表达,也可以促进血管内皮细胞生成,从而抑制股骨头缺血性坏死的发生及进展;(4)外泌体携带的非编码RNA也可以在股骨头坏死中发生作用,但目前文献量较少,非编码RNA是否通过外泌体携带所产生的作用目前暂不清楚,在未来的研究中可逐渐完善;(5)利用非编码RNA类似物和抑制剂可以有效抑制非创伤性股骨头坏死的发生发展,可以为非创伤性股骨头坏死的早期诊断和治疗提供新的策略。
