Chen Bolin, Wang Teng, Zhang Jinlei, Zhang Shengli, Shang Xuequn
School of Computer Science, Northwestern Polytechnical University, Xi'an 710072, China.
School of Information Technology, Minzu Normal University of Xingyi, Xingyi 562400, China.
Biology (Basel). 2022 Jul 2;11(7):1003. doi: 10.3390/biology11071003.
Colon cancer is considered as a complex disease that consists of metastatic seeding in early stages. Such disease is not simply caused by the action of a single RNA, but is associated with disorders of many kinds of RNAs and their regulation relationships. Hence, it is of great significance to study the complex regulatory roles among mRNAs, miRNAs and lncRNAs for further understanding the pathogenic mechanism of colon cancer. In this study, we constructed a heterogeneous network consisting of differentially expressed mRNAs, miRNAs and lncRNAs. This contains three kinds of vertices and six types of edges. All RNAs were re-divided into three categories, which were "related", "irrelevant" and "unlabeled". They were processed by dynamic excitation restart random walk (RW-DIR) for identifying colon cancer-related RNAs. Ten RNAs were finally obtained related to colon cancer, which were hsa-miR-2682-5p, hsa-miR-1277-3p, ANGPTL1, SLC22A18AS, FENDRR, PHLPP2, hsa-miR-302a-5p, APCDD1, MEX3A and hsa-miR-509-3-5p. Numerical experiments have indicated that the proposed network construction framework and the following RW-DIR algorithm are effective for identifying colon cancer-related RNAs, and this kind of analysis framework can also be easily extended to other diseases, effectively narrowing the scope of biological experimental research.
结肠癌被认为是一种复杂的疾病，在早期阶段就存在转移播种现象。这种疾病并非简单地由单一RNA的作用引起，而是与多种RNA及其调控关系的紊乱有关。因此，研究mRNA、miRNA和lncRNA之间复杂的调控作用对于进一步了解结肠癌的致病机制具有重要意义。在本研究中，我们构建了一个由差异表达的mRNA、miRNA和lncRNA组成的异质网络。该网络包含三种类型的顶点和六种类型的边。所有RNA被重新划分为三类，即“相关”、“不相关”和“未标记”。通过动态激发重启随机游走（RW-DIR）对它们进行处理，以识别与结肠癌相关的RNA。最终获得了十种与结肠癌相关的RNA，分别是hsa-miR-2682-5p、hsa-miR-1277-3p、ANGPTL1、SLC22A18AS、FENDRR、PHLPP2、hsa-miR-302a-5p、APCDD1、MEX3A和hsa-miR-509-3-5p。数值实验表明，所提出的网络构建框架和后续的RW-DIR算法对于识别与结肠癌相关的RNA是有效的，并且这种分析框架也可以很容易地扩展到其他疾病，有效缩小生物学实验研究的范围。
