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      The role of ncRNA regulatory mechanisms in diseases—case on gestational diabetes

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          Abstract

          Non-coding RNAs (ncRNAs) are a class of RNA molecules that do not have the potential to encode proteins. Meanwhile, they can occupy a significant portion of the human genome and participate in gene expression regulation through various mechanisms. Gestational diabetes mellitus (GDM) is a pathologic condition of carbohydrate intolerance that begins or is first detected during pregnancy, making it one of the most common pregnancy complications. Although the exact pathogenesis of GDM remains unclear, several recent studies have shown that ncRNAs play a crucial regulatory role in GDM. Herein, we present a comprehensive review on the multiple mechanisms of ncRNAs in GDM along with their potential role as biomarkers. In addition, we investigate the contribution of deep learning-based models in discovering disease-specific ncRNA biomarkers and elucidate the underlying mechanisms of ncRNA. This might assist community-wide efforts to obtain insights into the regulatory mechanisms of ncRNAs in disease and guide a novel approach for early diagnosis and treatment of disease.

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          Most cited references105

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          Circular RNAs are a large class of animal RNAs with regulatory potency.

          Circular RNAs (circRNAs) in animals are an enigmatic class of RNA with unknown function. To explore circRNAs systematically, we sequenced and computationally analysed human, mouse and nematode RNA. We detected thousands of well-expressed, stable circRNAs, often showing tissue/developmental-stage-specific expression. Sequence analysis indicated important regulatory functions for circRNAs. We found that a human circRNA, antisense to the cerebellar degeneration-related protein 1 transcript (CDR1as), is densely bound by microRNA (miRNA) effector complexes and harbours 63 conserved binding sites for the ancient miRNA miR-7. Further analyses indicated that CDR1as functions to bind miR-7 in neuronal tissues. Human CDR1as expression in zebrafish impaired midbrain development, similar to knocking down miR-7, suggesting that CDR1as is a miRNA antagonist with a miRNA-binding capacity ten times higher than any other known transcript. Together, our data provide evidence that circRNAs form a large class of post-transcriptional regulators. Numerous circRNAs form by head-to-tail splicing of exons, suggesting previously unrecognized regulatory potential of coding sequences.
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            MicroRNAs

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              Regulation of microRNA biogenesis.

              Minju Ha, V Kim (2014)
              MicroRNAs (miRNAs) are small non-coding RNAs that function as guide molecules in RNA silencing. Targeting most protein-coding transcripts, miRNAs are involved in nearly all developmental and pathological processes in animals. The biogenesis of miRNAs is under tight temporal and spatial control, and their dysregulation is associated with many human diseases, particularly cancer. In animals, miRNAs are ∼22 nucleotides in length, and they are produced by two RNase III proteins--Drosha and Dicer. miRNA biogenesis is regulated at multiple levels, including at the level of miRNA transcription; its processing by Drosha and Dicer in the nucleus and cytoplasm, respectively; its modification by RNA editing, RNA methylation, uridylation and adenylation; Argonaute loading; and RNA decay. Non-canonical pathways for miRNA biogenesis, including those that are independent of Drosha or Dicer, are also emerging.
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                Author and article information

                Contributors
                Journal
                Brief Bioinform
                Brief Bioinform
                bib
                Briefings in Bioinformatics
                Oxford University Press
                1467-5463
                1477-4054
                January 2024
                06 January 2024
                06 January 2024
                : 25
                : 1
                : bbad489
                Affiliations
                School of Life Science and Technology , Center for Informational Biology, University of Electronic Science and Technology of China , Chengdu 610054, China
                School of Healthcare Technology, Chengdu Neusoft University , Chengdu 611844, China
                School of Life Science and Technology , Center for Informational Biology, University of Electronic Science and Technology of China , Chengdu 610054, China
                Center for Research Innovation and Biomedical Informatics , Faculty of Medical Technology, Mahidol University , Bangkok 10700, Thailand
                School of Life Science and Technology , Center for Informational Biology, University of Electronic Science and Technology of China , Chengdu 610054, China
                School of Life Science and Technology , Center for Informational Biology, University of Electronic Science and Technology of China , Chengdu 610054, China
                School of Life Science and Technology , Center for Informational Biology, University of Electronic Science and Technology of China , Chengdu 610054, China
                Department of Cardiovascular Medicine , Beijing Hospital, National Center of Gerontology, Institute of Geriatric Medicine, Chinese Academy of Medical Sciences , Beijing 100730, China
                Center for Research Innovation and Biomedical Informatics , Faculty of Medical Technology, Mahidol University , Bangkok 10700, Thailand
                School of Life Science and Technology , Center for Informational Biology, University of Electronic Science and Technology of China , Chengdu 610054, China
                Author notes
                Corresponding authors. Yan Wang, Department of Cardiovascular Medicine, Beijing Hospital, National Center of Gerontology, Institute of Geriatric Medicine, Chinese Academy of Medical Sciences, Beijing 100730, China. Tel.: +86-13681115519; E-mail: wangyan4127@ 123456bjhmoh.cn ; Watshara Shoombuatong, Center for Research Innovation and Biomedical Informatics, Faculty of Medical Technology, Mahidol University, Bangkok 10700, Thailand. Tel.: +66-939384256; E-mail: watshara.sho@ 123456mahidol.ac.th ; Hui Ding, School of Life Science and Technology, Center for Informational Biology, University of Electronic Science and Technology of China, Chengdu 610054, China. Tel.: +86-15884524181; E-mail: hlin@ 123456uestc.edu.cn

                Dong Gao and Liping Ren contributed equally to this work.

                Author information
                https://orcid.org/0000-0003-3068-8849
                https://orcid.org/0000-0002-3394-8709
                https://orcid.org/0000-0002-9607-9571
                Article
                bbad489
                10.1093/bib/bbad489
                10772982
                38189542
                da22f7b3-e22e-45c2-a35a-b4941c57071a
                © The Author(s) 2024. Published by Oxford University Press.

                This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

                History
                : 7 October 2023
                : 16 November 2023
                : 1 December 2023
                Page count
                Pages: 16
                Funding
                Funded by: Fundamental Research Funds for the Central-level Scientific Research Institute;
                Award ID: 2019XK320078
                Award ID: BJ-2019-092
                Funded by: National High Level Hospital Clinical Research Funding;
                Award ID: BJ-2022-155
                Funded by: National Research Council of Thailand and Mahidol University;
                Award ID: N42A660380
                Categories
                Review
                AcademicSubjects/SCI01060

                Bioinformatics & Computational biology
                non-coding rna,gestational diabetes,regulatory mechanism,biomarkers,attention mechanism

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