Pan-cancer analysis of cancer-specific transcript isoforms reveals the regulatory impact of isoform switching on the alteration of the interplay between RBPs and miRNAs in cancers.

IF 2.1 4区 生物学 Q2 BIOLOGY
Journal of Biosciences Pub Date : 2025-01-01
Sukhen DAS Mandal, Sumit Mukherjee
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引用次数: 0

Abstract

The switch in the predominantly expressed transcript isoform of the same gene has been identified as a significant factor in the progression of various types of cancer. These switches can impact the gain or loss of different 3'UTRs, which are hotspots for the binding of microRNAs (miRNAs) and RNA-binding proteins (RBPs). In this study, we found that in cancer-specific dominant expressing transcripts, the binding of miRNA and RBP is disrupted, suggesting that transcript switching could play a part in modulating post-transcriptional gene expression during the progression and development of cancer. Our spatial correlation analysis demonstrated that changes in miRNA and RBP binding, triggered by transcript switching, could interrupt their interplay. Additionally, statistical analysis revealed that local folding energy (LFE) is a key factor in changing miRNA and RBP interactions due to isoform switching. Overall, this study revealed that changes in cancerspecific transcripts could influence miRNA-RBP interactions due to alternations in the local RNA structure of the transcript caused by isoform switching, thereby leading to the dysregulation of crucial genes involved in the evolution and progression of cancer.

癌症特异性转录异构体的泛癌症分析揭示了异构体开关对癌症中rbp和mirna之间相互作用改变的调节作用。
同一基因主要表达的转录异构体中的开关已被确定为各种类型癌症进展的重要因素。这些开关可以影响不同3' utr的增益或损失,这是microRNAs (miRNAs)和rna结合蛋白(rbp)结合的热点。在本研究中,我们发现在癌症特异性显性表达转录本中,miRNA和RBP的结合被破坏,这表明转录本转换可能在癌症的进展和发展过程中调节转录后基因的表达。我们的空间相关性分析表明,miRNA和RBP结合的变化,由转录开关触发,可能会中断它们的相互作用。此外,统计分析显示,局部折叠能量(LFE)是改变miRNA和RBP相互作用的关键因素。总的来说,本研究揭示了癌症特异性转录物的变化可能会影响miRNA-RBP相互作用,这是由于同工异构体转换引起转录物局部RNA结构的改变,从而导致参与癌症进化和进展的关键基因的失调。
本文章由计算机程序翻译,如有差异,请以英文原文为准。
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来源期刊
Journal of Biosciences
Journal of Biosciences 生物-生物学
CiteScore
5.80
自引率
0.00%
发文量
83
审稿时长
3 months
期刊介绍: The Journal of Biosciences is a quarterly journal published by the Indian Academy of Sciences, Bangalore. It covers all areas of Biology and is the premier journal in the country within its scope. It is indexed in Current Contents and other standard Biological and Medical databases. The Journal of Biosciences began in 1934 as the Proceedings of the Indian Academy of Sciences (Section B). This continued until 1978 when it was split into three parts : Proceedings-Animal Sciences, Proceedings-Plant Sciences and Proceedings-Experimental Biology. Proceedings-Experimental Biology was renamed Journal of Biosciences in 1979; and in 1991, Proceedings-Animal Sciences and Proceedings-Plant Sciences merged with it.
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