Multi-objective computational optimization of human 5′ UTR sequences

The computational design of messenger RNA (mRNA) sequences is a critical technology for both scientific research and industrial applications. Recent advances in prediction and optimization models have enabled the automatic scoring and optimization of $5^\prime $ UTR sequences, key upstream elements of mRNA. However, fully automated design of $5^\prime $ UTR sequences with more than two objective scores has not yet been explored. In this study, we present a computational pipeline that optimizes human $5^\prime $ UTR sequences in a multi-objective framework, addressing up to four distinct and conflicting objectives. Our work represents an important advancement in the multi-objective computational design of mRNA sequences, paving the way for more sophisticated mRNA engineering.

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Publication Details

Journal
Briefings in Bioinformatics
Published
2025-05-01
DOI
https://doi.org/10.1093/bib/bbaf225
Citations
2
Primary Topic
RNA and protein synthesis mechanisms
Type
article
Field-Weighted Citation Impact
1.61

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Multi-objective computational optimization of human 5′ UTR sequences

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2 citations
Briefings in Bioinformatics
RNA and protein synthesis mechanisms
1.61
article

Multi-objective computational optimization of human 5′ UTR sequences

Koji Hashimoto, Naoko Abe, Hiroshi Abe, Michiaki Hamada, Kanta Suga, Fumitaka Hashiya, Keisuke Yamada, Seiji Tsutsumi, Masahito Inagaki
article en
2 citations

Abstract

The computational design of messenger RNA (mRNA) sequences is a critical technology for both scientific research and industrial applications. Recent advances in prediction and optimization models have enabled the automatic scoring and optimization of $5^\prime $ UTR sequences, key upstream elements of mRNA. However, fully automated design of $5^\prime $ UTR sequences with more than two objective scores has not yet been explored. In this study, we present a computational pipeline that optimizes human $5^\prime $ UTR sequences in a multi-objective framework, addressing up to four distinct and conflicting objectives. Our work represents an important advancement in the multi-objective computational design of mRNA sequences, paving the way for more sophisticated mRNA engineering.

Briefings in BioinformaticsVol. 26(3)
Waseda University (JP), Nagoya University (JP), National Institute of Advanced Industrial Science and Technology (JP), The University of Tokyo (JP), University of Pennsylvania (US), Nippon Medical School (JP)
Japan Agency for Medical Research and Development, Collaborative Research in Engineering, Science and Technology Centre, Japan Society for the Promotion of Science, Core Research for Evolutional Science and Technology
Industry, innovation and infrastructure
Openalex Percentile: Top 17%
RNA and protein synthesis mechanisms
1.61
DOIOpen Access PDFOpenAlex
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