A Comprehensive Review on RNA Subcellular Localization Prediction

• URL: http://arxiv.org/abs/2504.17162v1
• Date: Thu, 24 Apr 2025 00:47:31 GMT
• Title: A Comprehensive Review on RNA Subcellular Localization Prediction
• Authors: Cece Zhang, Xuehuan Zhu, Nick Peterson, Jieqiong Wang, Shibiao Wan,
• Abstract summary: Long non-coding RNAs (lncRNAs), messenger RNAs (mRNAs), microRNAs (miRNAs) and other RNAs play a critical role in determining their biological functions.<n>Traditional wet lab methods for determining RNA localization, such as in situ hybridization, are often time-consuming, resource-demanding, and costly.<n> Computational methods leveraging artificial intelligence (AI) and machine learning (ML) have emerged as powerful alternatives.
• Score: 0.125828876338076
• License: http://creativecommons.org/licenses/by/4.0/
• Abstract: The subcellular localization of RNAs, including long non-coding RNAs (lncRNAs), messenger RNAs (mRNAs), microRNAs (miRNAs) and other smaller RNAs, plays a critical role in determining their biological functions. For instance, lncRNAs are predominantly associated with chromatin and act as regulators of gene transcription and chromatin structure, while mRNAs are distributed across the nucleus and cytoplasm, facilitating the transport of genetic information for protein synthesis. Understanding RNA localization sheds light on processes like gene expression regulation with spatial and temporal precision. However, traditional wet lab methods for determining RNA localization, such as in situ hybridization, are often time-consuming, resource-demanding, and costly. To overcome these challenges, computational methods leveraging artificial intelligence (AI) and machine learning (ML) have emerged as powerful alternatives, enabling large-scale prediction of RNA subcellular localization. This paper provides a comprehensive review of the latest advancements in AI-based approaches for RNA subcellular localization prediction, covering various RNA types and focusing on sequence-based, image-based, and hybrid methodologies that combine both data types. We highlight the potential of these methods to accelerate RNA research, uncover molecular pathways, and guide targeted disease treatments. Furthermore, we critically discuss the challenges in AI/ML approaches for RNA subcellular localization, such as data scarcity and lack of benchmarks, and opportunities to address them. This review aims to serve as a valuable resource for researchers seeking to develop innovative solutions in the field of RNA subcellular localization and beyond.

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