https://scholars.lib.ntu.edu.tw/handle/123456789/362991
標題: | Coregulation of transcription factors and microRNAs in human transcriptional regulatory network | 作者: | Juan, Hsueh-Fen Supplement 1 Fuh, Chiou-Shann Chen, Cho-Yi Chen, Shui-Tein Huang, Hsuan-Cheng |
公開日期: | 2011 | 出版社: | Springer Nature | 卷: | 12 | 起(迄)頁: | S41 | 來源出版物: | BMC Bioinformatics | 摘要: | Background: MicroRNAs (miRNAs) are small RNA molecules that regulate gene expression at the post-transcriptional level. Recent studies have suggested that miRNAs and transcription factors are primary metazoan gene regulators; however, the crosstalk between them still remains unclear.Methods: We proposed a novel model utilizing functional annotation information to identify significant coregulation between transcriptional and post-transcriptional layers. Based on this model, function-enriched coregulation relationships were discovered and combined into different kinds of functional coregulation networks.Results: We found that miRNAs may engage in a wider diversity of biological processes by coordinating with transcription factors, and this kind of cross-layer coregulation may have higher specificity than intra-layer coregulation. In addition, the coregulation networks reveal several types of network motifs, including feed-forward loops and massive upstream crosstalk. Finally, the expression patterns of these coregulation pairs in normal and tumour tissues were analyzed. Different coregulation types show unique expression correlation trends. More importantly, the disruption of coregulation may be associated with cancers.Conclusion: Our findings elucidate the combinatorial and cooperative properties of transcription factors and miRNAs regulation, and we proposes that the coordinated regulation may play an important role in many biological processes. ? 2011 Chen et al; licensee BioMed Central Ltd. Background: MicroRNAs (miRNAs) are small RNA molecules that regulate gene expression at the post-transcriptional level. Recent studies have suggested that miRNAs and transcription factors are primary metazoan gene regulators; however, the crosstalk between them still remains unclear.Methods: We proposed a novel model utilizing functional annotation information to identify significant coregulation between transcriptional and post-transcriptional layers. Based on this model, function-enriched coregulation relationships were discovered and combined into different kinds of functional coregulation networks.Results: We found that miRNAs may engage in a wider diversity of biological processes by coordinating with transcription factors, and this kind of cross-layer coregulation may have higher specificity than intra-layer coregulation. In addition, the coregulation networks reveal several types of network motifs, including feed-forward loops and massive upstream crosstalk. Finally, the expression patterns of these coregulation pairs in normal and tumour tissues were analyzed. Different coregulation types show unique expression correlation trends. More importantly, the disruption of coregulation may be associated with cancers.Conclusion: Our findings elucidate the combinatorial and cooperative properties of transcription factors and miRNAs regulation, and we proposes that the coordinated regulation may play an important role in many biological processes. © 2011 Chen et al; licensee BioMed Central Ltd. |
URI: | http://europepmc.org/abstract/med/21342573 http://scholars.lib.ntu.edu.tw/handle/123456789/362991 https://www.scopus.com/inward/record.uri?eid=2-s2.0-79951521140&doi=10.1186%2f1471-2105-12-S1-S41&partnerID=40&md5=25e9b19deca4d329fe8487eef68c7374 |
ISSN: | 14712105 | DOI: | 10.1186/1471-2105-12-S1-S41 | SDG/關鍵字: | Biological process; Expression patterns; Feedforward loops; Functional annotation; Gene regulators; Post-transcriptional; Transcriptional regulatory networks; Tumour tissue; Network motif; Crosstalk; Transcription; Transcription factors; Bioinformatics; RNA; Metazoa; Animalia; microRNA; transcription factor; article; biology; gene expression profiling; gene expression regulation; gene regulatory network; genetics; human; metabolism; methodology; molecular genetics; RNA processing; Computational Biology; Gene Expression Profiling; Gene Expression Regulation; Gene Regulatory Networks; Humans; MicroRNAs; Molecular Sequence Annotation; RNA Processing, Post-Transcriptional; Transcription Factors |
顯示於: | 生命科學系 |
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