title: Identification of potential COPD genes based on multi-omics data at the functional level.
abstract: 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.
authors.affiliation: College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, Heilongjiang Province, China. chenlina@ems.hrbmu.edu.cn.
authors.forename: Zhe
authors.initials: Z
authors.lastname: Liu
authors.forename: Wan
authors.initials: W
authors.lastname: Li
authors.forename: Junjie
authors.initials: J
authors.lastname: Lv
authors.forename: Ruiqiang
authors.initials: R
authors.lastname: Xie
authors.forename: Hao
authors.initials: H
authors.lastname: Huang
authors.forename: Yiran
authors.initials: Y
authors.lastname: Li
authors.forename: Yuehan
authors.initials: Y
authors.lastname: He
authors.forename: Jing
authors.initials: J
authors.lastname: Jiang
authors.forename: Binbin
authors.initials: B
authors.lastname: Chen
authors.forename: Shanshan
authors.initials: S
authors.lastname: Guo
authors.forename: Lina
authors.initials: L
authors.lastname: Chen
mesh_terms: D016000:Cluster Analysis; D019295:Computational Biology / Q000379:methods; D019175:DNA Methylation; D044127:Epigenesis, Genetic; D057890:Epigenomics / Q000379:methods; D020869:Gene Expression Profiling / Q000379:methods; D023281:Genomics / Q000379:methods; D006801:Humans; D035683:MicroRNAs / Q000235:genetics; D029424:Pulmonary Disease, Chronic Obstructive / Q000235:genetics*; D012372:ROC Curve; D015203:Reproducibility of Results; D059467:Transcriptome
chemical_list: D035683:MicroRNAs