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However, the classical methods used to identify pathways fail to specifically consider ce<jats:styled-content style=\"fixed-case\">RNA<\/jats:styled-content>s within the pathways and key regions impacted by them. We proposed a powerful strategy named ce\u2010Subpathway for the identification of ce<jats:styled-content style=\"fixed-case\">RNA<\/jats:styled-content>\u2010mediated functional subpathways. It provided an effective level of pathway analysis via integrating ce<jats:styled-content style=\"fixed-case\">RNA<\/jats:styled-content>s, differentially expressed (<jats:styled-content style=\"fixed-case\">DE<\/jats:styled-content>) genes and their key regions within the given pathways. We respectively analysed one pulmonary arterial hypertension (<jats:styled-content style=\"fixed-case\">PAH<\/jats:styled-content>) and one myocardial infarction (<jats:styled-content style=\"fixed-case\">MI<\/jats:styled-content>) data sets and demonstrated that ce\u2010Subpathway could identify many subpathways whose corresponding entire pathways were ignored by those non\u2010ce<jats:styled-content style=\"fixed-case\">RNA<\/jats:styled-content>\u2010mediated pathway identification methods. And these pathways have been well reported to be associated with <jats:styled-content style=\"fixed-case\">PAH<\/jats:styled-content>\/<jats:styled-content style=\"fixed-case\">MI<\/jats:styled-content>\u2010related cardiovascular diseases. Further evidence showed reliability of ce<jats:styled-content style=\"fixed-case\">RNA<\/jats:styled-content> interactions and robustness\/reproducibility of the ce\u2010Subpathway strategy by several data sets of different cancers, including breast cancer, oesophageal cancer and colon cancer. Survival analysis was finally applied to illustrate the clinical application value of the ce<jats:styled-content style=\"fixed-case\">RNA<\/jats:styled-content>\u2010mediated functional subpathways using another data sets of pancreatic cancer. Comprehensive analyses have shown the power of a joint ce<jats:styled-content style=\"fixed-case\">RNA<\/jats:styled-content>s\/<jats:styled-content style=\"fixed-case\">DE<\/jats:styled-content> genes and subpathway strategy based on their topologies.<\/jats:p>","DOI":"10.1111\/jcmm.13997","type":"journal-article","created":{"date-parts":[[2018,11,13]],"date-time":"2018-11-13T07:56:34Z","timestamp":1542095794000},"page":"967-984","update-policy":"https:\/\/doi.org\/10.1002\/crossmark_policy","source":"Crossref","is-referenced-by-count":9,"title":["ce\u2010Subpathway: Identification of ce<scp>RNA<\/scp>\u2010mediated subpathways via joint power of ce<scp>RNA<\/scp>s and pathway topologies"],"prefix":"10.1111","volume":"23","author":[{"given":"Chenchen","family":"Feng","sequence":"first","affiliation":[{"name":"School of Medical Informatics Daqing Campus Harbin Medical University Daqing 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