Long non-coding RNAs(lncRNAs)play an important role in many life activities such as epigenetic material regulation,cell cycle regulation,dosage compensation and cell differentiation regulation,and are associated with ...Long non-coding RNAs(lncRNAs)play an important role in many life activities such as epigenetic material regulation,cell cycle regulation,dosage compensation and cell differentiation regulation,and are associated with many human diseases.There are many limitations in identifying and annotating lncRNAs using traditional biological experimental methods.With the development of high-throughput sequencing technology,it is of great practical significance to identify the lncRNAs from massive RNA sequence data using machine learning method.Based on the Bagging method and Decision Tree algorithm in ensemble learning,this paper proposes a method of lncRNAs gene sequence identification called BDLR.The identification results of this classification method are compared with the identification results of several models including Byes,Support Vector Machine,Logical Regression,Decision Tree and Random Forest.The experimental results show that the lncRNAs identification method named BDLR proposed in this paper has an accuracy of 86.61%in the human test set and 90.34%in the mouse for lncRNAs,which is more than the identification results of the other methods.Moreover,the proposed method offers a reference for researchers to identify lncRNAs using the ensemble learning.展开更多
Research has shown that long-chain noncoding RNAs(lncRNAs) are involved in the regulation of a variety of biological processes, including peripheral nerve regeneration, in part by acting as competing endogenous RNAs. ...Research has shown that long-chain noncoding RNAs(lncRNAs) are involved in the regulation of a variety of biological processes, including peripheral nerve regeneration, in part by acting as competing endogenous RNAs. c-Jun plays a key role in the repair of peripheral nerve injury. However, the precise underlying mechanism of c-Jun remains unclear. In this study, we performed microarray and bioinformatics analysis of mouse crush-injured sciatic nerves and found that the lncRNA Pvt1 was overexpressed in Schwann cells after peripheral nerve injury. Mechanistic studies revealed that Pvt1 increased c-Jun expression through sponging miRNA-214. We overexpressed Pvt1 in Schwann cells cultured in vitro and found that the proliferation and migration of Schwann cells were enhanced, and overexpression of miRNA-214 counteracted the effects of Pvt1 overexpression on Schwann cell proliferation and migration. We conducted in vivo analyses and injected Schwann cells overexpressing Pvt1 into injured sciatic nerves of mice. Schwann cells overexpressing Pvt1 enhanced the regeneration of injured sciatic nerves following peripheral nerve injury and the locomotor function of mice was improved. Our findings reveal the role of lncRNAs in the repair of peripheral nerve injury and highlight lncRNA Pvt1 as a novel potential treatment target for peripheral nerve injury.展开更多
基金supported by the National Natural Science Foundation of China(61502243,61502247,61572263)China Postdoctoral Science Foundation(2018M632349)+1 种基金Zhejiang Engineering Research Center of Intelligent Medicine under 2016E10011,Foundation of Smart Health Big Data Analysis and Location Services Engineering Lab of Jiangsu Province(SHEL221-001)Natural Science Foundation of the Higher Education Institutions of Jiangsu Province in China(No.16KJD520003).
文摘Long non-coding RNAs(lncRNAs)play an important role in many life activities such as epigenetic material regulation,cell cycle regulation,dosage compensation and cell differentiation regulation,and are associated with many human diseases.There are many limitations in identifying and annotating lncRNAs using traditional biological experimental methods.With the development of high-throughput sequencing technology,it is of great practical significance to identify the lncRNAs from massive RNA sequence data using machine learning method.Based on the Bagging method and Decision Tree algorithm in ensemble learning,this paper proposes a method of lncRNAs gene sequence identification called BDLR.The identification results of this classification method are compared with the identification results of several models including Byes,Support Vector Machine,Logical Regression,Decision Tree and Random Forest.The experimental results show that the lncRNAs identification method named BDLR proposed in this paper has an accuracy of 86.61%in the human test set and 90.34%in the mouse for lncRNAs,which is more than the identification results of the other methods.Moreover,the proposed method offers a reference for researchers to identify lncRNAs using the ensemble learning.
基金supported by the National Natural Science Foundation of China,No. 81801213 (to BP)Xuzhou Special Fund for Promoting Scientific and Technological Innovation,Nos. KC21177 (to BP),KC21195 (to HF)Science and Technology Project of Yili Kazak Autonomous Prefecture,No. YZ2019D006 (to HF)。
文摘Research has shown that long-chain noncoding RNAs(lncRNAs) are involved in the regulation of a variety of biological processes, including peripheral nerve regeneration, in part by acting as competing endogenous RNAs. c-Jun plays a key role in the repair of peripheral nerve injury. However, the precise underlying mechanism of c-Jun remains unclear. In this study, we performed microarray and bioinformatics analysis of mouse crush-injured sciatic nerves and found that the lncRNA Pvt1 was overexpressed in Schwann cells after peripheral nerve injury. Mechanistic studies revealed that Pvt1 increased c-Jun expression through sponging miRNA-214. We overexpressed Pvt1 in Schwann cells cultured in vitro and found that the proliferation and migration of Schwann cells were enhanced, and overexpression of miRNA-214 counteracted the effects of Pvt1 overexpression on Schwann cell proliferation and migration. We conducted in vivo analyses and injected Schwann cells overexpressing Pvt1 into injured sciatic nerves of mice. Schwann cells overexpressing Pvt1 enhanced the regeneration of injured sciatic nerves following peripheral nerve injury and the locomotor function of mice was improved. Our findings reveal the role of lncRNAs in the repair of peripheral nerve injury and highlight lncRNA Pvt1 as a novel potential treatment target for peripheral nerve injury.
