Liu Zhe, Li Wan, Lv Junjie, Xie Ruiqiang, Huang Hao, Li Yiran, He Yuehan, Jiang Jing, Chen Binbin, Guo Shanshan, Chen Lina
College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, Heilongjiang Province, China.
Mol Biosyst. 2016 Jan;12(1):191-204. doi: 10.1039/c5mb00577a. Epub 2015 Nov 17.
Chronic obstructive pulmonary disease (COPD) is a complex disease, which involves dysfunctions in multi-omics. The changes in biological processes, such as adhesion junction, signaling transduction, transcriptional regulation, and cell proliferation, will lead to the occurrence of COPD. A novel systematic approach MMMG (Methylation-MicroRNA-MRNA-GO) was proposed to identify potential COPD genes by integrating function information with a methylation profile, a microRNA expression profile and an mRNA expression profile. 8 co-functional classes and 102 potential COPD genes were identified. These genes displayed a high performance in classifying COPD patients and normal samples, revealed COPD-related pathways, and have been confirmed to be associated with COPD by Matthews correlation coefficient (MCC)-values, literature, an independent data set, and pathways. The MMMG method that analyzed multi-omics data at the functional level could effectively identify potential COPD genes. These potential COPD genes would provide in-depth insights into understanding the complexity of COPD genome landscapes, improve the early diagnostics, and guide new efforts to develop therapeutics in the future.
慢性阻塞性肺疾病（COPD）是一种复杂的疾病，涉及多组学功能障碍。生物过程的变化，如黏附连接、信号转导、转录调控和细胞增殖，会导致COPD的发生。提出了一种新的系统方法MMMG（甲基化-微小RNA-信使核糖核酸-基因本体），通过整合功能信息与甲基化谱、微小RNA表达谱和信使核糖核酸表达谱来鉴定潜在的COPD基因。鉴定出了8个共功能类别和102个潜在的COPD基因。这些基因在区分COPD患者和正常样本方面表现出高性能，揭示了与COPD相关的途径，并通过马修斯相关系数（MCC）值、文献、独立数据集和途径证实与COPD相关。在功能水平上分析多组学数据的MMMG方法能够有效地鉴定潜在的COPD基因。这些潜在的COPD基因将为深入理解COPD基因组景观的复杂性、改善早期诊断以及指导未来开发治疗方法的新努力提供深刻见解。
