{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2023,4,1]],"date-time":"2023-04-01T10:15:24Z","timestamp":1680344124432},"reference-count":33,"publisher":"World Scientific Pub Co Pte Lt","issue":"01","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["J. Bioinform. Comput. Biol."],"published-print":{"date-parts":[[2018,2]]},"abstract":"<jats:p> MicroRNAs (miRNAs) play a key role in gene expression and regulation in various organisms. They control a wide range of biological processes and are involved in several types of cancers by causing mRNA degradation or translational inhibition. However, the functions of most miRNAs and their precise regulatory mechanisms remain elusive. With the accumulation of the expression data of miRNAs and mRNAs, many computational methods have been proposed to predict miRNA\u2013mRNA regulatory relationship. However, most existing methods require the number of modules predefined that may be difficult to determine beforehand. Here, we propose a novel computational method to discover miRNA\u2013mRNA regulatory modules by combining Phase-only correlation and improved rough-Fuzzy Clustering (MIMPFC). The proposed method is evaluated on three heterogeneous datasets, and the obtained results are further validated through relevant literatures, biological significance and functional enrichment analysis. The analysis results show that the identified modules are highly correlated with the biological conditions. A large part of the regulatory relationships found by MIMPFC has been confirmed in the experimentally verified databases. It demonstrates that the modules found by MIMPFC are biologically significant. <\/jats:p>","DOI":"10.1142\/s0219720017500287","type":"journal-article","created":{"date-parts":[[2017,12,28]],"date-time":"2017-12-28T09:09:53Z","timestamp":1514452193000},"page":"1750028","source":"Crossref","is-referenced-by-count":1,"title":["MIMPFC: Identifying miRNA\u2013mRNA regulatory modules by combining phase-only correlation and improved rough-fuzzy clustering"],"prefix":"10.1142","volume":"16","author":[{"given":"Dan","family":"Luo","sequence":"first","affiliation":[{"name":"College of Computer Science and Electronics Engineering, Hunan University, Changsha 410082, Hunan, P. R. China"}]},{"given":"Shu-Lin","family":"Wang","sequence":"additional","affiliation":[{"name":"College of Computer Science and Electronics Engineering, Hunan University, Changsha 410082, Hunan, P. R. China"}]},{"given":"Jianwen","family":"Fang","sequence":"additional","affiliation":[{"name":"Biometric Research Program, Division of Cancer Treatment and Diagnosis, National Cancer Institute, Rockville, MD 20850, USA"}]},{"given":"Wei","family":"Zhang","sequence":"additional","affiliation":[{"name":"College of Computer Science and Electronics Engineering, Hunan University, Changsha 410082, Hunan, P. R. China"}]}],"member":"219","published-online":{"date-parts":[[2018,3,22]]},"reference":[{"key":"S0219720017500287BIB001","doi-asserted-by":"publisher","DOI":"10.1038\/nrg1379"},{"key":"S0219720017500287BIB002","doi-asserted-by":"publisher","DOI":"10.1093\/bib\/bbu023"},{"key":"S0219720017500287BIB003","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btr206"},{"key":"S0219720017500287BIB004","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btq576"},{"key":"S0219720017500287BIB005","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btt341"},{"key":"S0219720017500287BIB006","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btu373"},{"key":"S0219720017500287BIB007","doi-asserted-by":"publisher","DOI":"10.1186\/s12864-015-2300-z"},{"key":"S0219720017500287BIB008","doi-asserted-by":"publisher","DOI":"10.1364\/AO.23.000812"},{"key":"S0219720017500287BIB009","doi-asserted-by":"crossref","unstructured":"Masud Karim LLSM,  Jiuyong Li,  Discovering Collective Group Relationships,  Springer International,  Switzerland, pp. 110\u2013121,  2014.","DOI":"10.1007\/978-3-319-08608-8_10"},{"key":"S0219720017500287BIB010","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0091856"},{"key":"S0219720017500287BIB011","first-page":"312","volume":"28","author":"Hotelling H","year":"1935","journal-title":"Biometrika"},{"key":"S0219720017500287BIB012","doi-asserted-by":"publisher","DOI":"10.1016\/j.mrgentox.2010.05.006"},{"key":"S0219720017500287BIB013","doi-asserted-by":"publisher","DOI":"10.1093\/bioinformatics\/btu155"},{"key":"S0219720017500287BIB014","doi-asserted-by":"publisher","DOI":"10.1371\/journal.pone.0131627"},{"key":"S0219720017500287BIB015","doi-asserted-by":"publisher","DOI":"10.1158\/1535-7163.MCT-10-0605"},{"key":"S0219720017500287BIB016","doi-asserted-by":"publisher","DOI":"10.1101\/gad.1640608"},{"key":"S0219720017500287BIB017","doi-asserted-by":"publisher","DOI":"10.1038\/nature03702"},{"key":"S0219720017500287BIB018","doi-asserted-by":"publisher","DOI":"10.1073\/pnas.211566398"},{"key":"S0219720017500287BIB019","doi-asserted-by":"publisher","DOI":"10.1186\/bcr3415"},{"key":"S0219720017500287BIB020","doi-asserted-by":"publisher","DOI":"10.1186\/1471-2105-14-S4-S1"},{"key":"S0219720017500287BIB021","first-page":"209","volume":"26","author":"Lee CT","year":"2007","journal-title":"DNACell Biol"},{"key":"S0219720017500287BIB022","doi-asserted-by":"publisher","DOI":"10.1186\/s12864-015-2300-z"},{"key":"S0219720017500287BIB023","doi-asserted-by":"publisher","DOI":"10.1038\/ncb1722"},{"key":"S0219720017500287BIB024","doi-asserted-by":"publisher","DOI":"10.1248\/bpb.29.903"},{"key":"S0219720017500287BIB025","doi-asserted-by":"publisher","DOI":"10.1186\/gb-2007-8-1-r3"},{"key":"S0219720017500287BIB026","doi-asserted-by":"publisher","DOI":"10.1158\/0008-5472.CAN-04-0637"},{"key":"S0219720017500287BIB027","doi-asserted-by":"publisher","DOI":"10.1093\/nar\/gks402"},{"key":"S0219720017500287BIB029","author":"Gakhar G","year":"2010","journal-title":"Kansas State University"},{"issue":"7","key":"S0219720017500287BIB030","doi-asserted-by":"crossref","first-page":"619","DOI":"10.1158\/0008-5472.CAN-03-3443","volume":"64","author":"Zhang JS","year":"2004","journal-title":"Cancer Res"},{"key":"S0219720017500287BIB031","first-page":"LB-60","volume":"67","author":"Lee C","year":"2007","journal-title":"Cancer Res"},{"key":"S0219720017500287BIB032","doi-asserted-by":"publisher","DOI":"10.1038\/onc.2010.362"},{"key":"S0219720017500287BIB033","doi-asserted-by":"publisher","DOI":"10.1016\/j.canlet.2016.07.017"},{"key":"S0219720017500287BIB034","first-page":"271","volume":"22","author":"Katoh Y","year":"2008","journal-title":"Int J Mol Med"}],"container-title":["Journal of Bioinformatics and Computational Biology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/www.worldscientific.com\/doi\/pdf\/10.1142\/S0219720017500287","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2019,8,7]],"date-time":"2019-08-07T04:50:11Z","timestamp":1565153411000},"score":1,"resource":{"primary":{"URL":"https:\/\/www.worldscientific.com\/doi\/abs\/10.1142\/S0219720017500287"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2018,2]]},"references-count":33,"journal-issue":{"issue":"01","published-online":{"date-parts":[[2018,3,22]]},"published-print":{"date-parts":[[2018,2]]}},"alternative-id":["10.1142\/S0219720017500287"],"URL":"https:\/\/doi.org\/10.1142\/s0219720017500287","relation":{},"ISSN":["0219-7200","1757-6334"],"issn-type":[{"value":"0219-7200","type":"print"},{"value":"1757-6334","type":"electronic"}],"subject":[],"published":{"date-parts":[[2018,2]]}}}