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RNA trafficking and subcellular localization—a review of mechanisms, experimental and predictive methodologies

RNA localization is essential for regulating spatial translation, where RNAs are trafficked to their target locations via various biological mechanisms. In this review, we discuss RNA localization in the context of molecular mechanisms, experimental techniques and machine learning-based prediction t...

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Detalles Bibliográficos
Autores principales: Wang, Jun, Horlacher, Marc, Cheng, Lixin, Winther, Ole
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10516376/
https://www.ncbi.nlm.nih.gov/pubmed/37466130
http://dx.doi.org/10.1093/bib/bbad249
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author Wang, Jun
Horlacher, Marc
Cheng, Lixin
Winther, Ole
author_facet Wang, Jun
Horlacher, Marc
Cheng, Lixin
Winther, Ole
author_sort Wang, Jun
collection PubMed
description RNA localization is essential for regulating spatial translation, where RNAs are trafficked to their target locations via various biological mechanisms. In this review, we discuss RNA localization in the context of molecular mechanisms, experimental techniques and machine learning-based prediction tools. Three main types of molecular mechanisms that control the localization of RNA to distinct cellular compartments are reviewed, including directed transport, protection from mRNA degradation, as well as diffusion and local entrapment. Advances in experimental methods, both image and sequence based, provide substantial data resources, which allow for the design of powerful machine learning models to predict RNA localizations. We review the publicly available predictive tools to serve as a guide for users and inspire developers to build more effective prediction models. Finally, we provide an overview of multimodal learning, which may provide a new avenue for the prediction of RNA localization.
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spelling pubmed-105163762023-09-23 RNA trafficking and subcellular localization—a review of mechanisms, experimental and predictive methodologies Wang, Jun Horlacher, Marc Cheng, Lixin Winther, Ole Brief Bioinform Review RNA localization is essential for regulating spatial translation, where RNAs are trafficked to their target locations via various biological mechanisms. In this review, we discuss RNA localization in the context of molecular mechanisms, experimental techniques and machine learning-based prediction tools. Three main types of molecular mechanisms that control the localization of RNA to distinct cellular compartments are reviewed, including directed transport, protection from mRNA degradation, as well as diffusion and local entrapment. Advances in experimental methods, both image and sequence based, provide substantial data resources, which allow for the design of powerful machine learning models to predict RNA localizations. We review the publicly available predictive tools to serve as a guide for users and inspire developers to build more effective prediction models. Finally, we provide an overview of multimodal learning, which may provide a new avenue for the prediction of RNA localization. Oxford University Press 2023-07-18 /pmc/articles/PMC10516376/ /pubmed/37466130 http://dx.doi.org/10.1093/bib/bbad249 Text en © The Author(s) 2023. Published by Oxford University Press. https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (https://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com
spellingShingle Review
Wang, Jun
Horlacher, Marc
Cheng, Lixin
Winther, Ole
RNA trafficking and subcellular localization—a review of mechanisms, experimental and predictive methodologies
title RNA trafficking and subcellular localization—a review of mechanisms, experimental and predictive methodologies
title_full RNA trafficking and subcellular localization—a review of mechanisms, experimental and predictive methodologies
title_fullStr RNA trafficking and subcellular localization—a review of mechanisms, experimental and predictive methodologies
title_full_unstemmed RNA trafficking and subcellular localization—a review of mechanisms, experimental and predictive methodologies
title_short RNA trafficking and subcellular localization—a review of mechanisms, experimental and predictive methodologies
title_sort rna trafficking and subcellular localization—a review of mechanisms, experimental and predictive methodologies
topic Review
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10516376/
https://www.ncbi.nlm.nih.gov/pubmed/37466130
http://dx.doi.org/10.1093/bib/bbad249
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