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Review

Computational Methods for Predicting Functions at the mRNA Isoform Level

Bioinformatics and Computational Biology Program, Iowa State University, Ames, IA 50011, USA
*
Author to whom correspondence should be addressed.
These authors contributed equally.
Int. J. Mol. Sci. 2020, 21(16), 5686; https://doi.org/10.3390/ijms21165686
Received: 13 July 2020 / Revised: 5 August 2020 / Accepted: 6 August 2020 / Published: 8 August 2020
Multiple mRNA isoforms of the same gene are produced via alternative splicing, a biological mechanism that regulates protein diversity while maintaining genome size. Alternatively spliced mRNA isoforms of the same gene may sometimes have very similar sequence, but they can have significantly diverse effects on cellular function and regulation. The products of alternative splicing have important and diverse functional roles, such as response to environmental stress, regulation of gene expression, human heritable, and plant diseases. The mRNA isoforms of the same gene can have dramatically different functions. Despite the functional importance of mRNA isoforms, very little has been done to annotate their functions. The recent years have however seen the development of several computational methods aimed at predicting mRNA isoform level biological functions. These methods use a wide array of proteo-genomic data to develop machine learning-based mRNA isoform function prediction tools. In this review, we discuss the computational methods developed for predicting the biological function at the individual mRNA isoform level. View Full-Text
Keywords: alternative splicing; RNA-seq; machine learning; deep learning; recommender systems; multiple instance learning; mRNA isoforms; gene ontology alternative splicing; RNA-seq; machine learning; deep learning; recommender systems; multiple instance learning; mRNA isoforms; gene ontology
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MDPI and ACS Style

Mishra, S.K.; Muthye, V.; Kandoi, G. Computational Methods for Predicting Functions at the mRNA Isoform Level. Int. J. Mol. Sci. 2020, 21, 5686. https://doi.org/10.3390/ijms21165686

AMA Style

Mishra SK, Muthye V, Kandoi G. Computational Methods for Predicting Functions at the mRNA Isoform Level. International Journal of Molecular Sciences. 2020; 21(16):5686. https://doi.org/10.3390/ijms21165686

Chicago/Turabian Style

Mishra, Sambit K., Viraj Muthye, and Gaurav Kandoi. 2020. "Computational Methods for Predicting Functions at the mRNA Isoform Level" International Journal of Molecular Sciences 21, no. 16: 5686. https://doi.org/10.3390/ijms21165686

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