Evidence map›Paper›PMID 40413870›Full record

ArticleBriefings in bioinformatics2025

Multi-objective computational optimization of human 5' UTR sequences.

Keisuke Yamada, Kanta Suga, Naoko Abe, Koji Hashimoto, Susumu Tsutsumi, Masahito Inagaki, Fumitaka Hashiya, Hiroshi Abe, Michiaki Hamada

Abstract read
PubMed Full text at PMC Publisher
In one paragraph

Article in Briefings in bioinformatics, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Not yet cited in PubMed.

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0cells of the map it votes in
0citing papers in PubMed
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1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

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Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

0 citing papers in PubMed.

No citing paper in PubMed yet.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

9 authors.

Keisuke YamadaDepartment of Electrical Engineering and Bioscience, Graduate School of Advanced Science and Engineering, Waseda University, 3-4-1, Okubo Shinjuku-ku, Tokyo 169-8555, Japan.
Kanta SugaDepartment of Electrical Engineering and Bioscience, Graduate School of Advanced Science and Engineering, Waseda University, 3-4-1, Okubo Shinjuku-ku, Tokyo 169-8555, Japan.
Naoko AbeDepartment of Chemistry, Graduate School of Science, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8602, Aichi, Japan.
Koji HashimotoDepartment of Chemistry, Graduate School of Science, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8602, Aichi, Japan.
Susumu TsutsumiDepartment of Chemistry, Graduate School of Science, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8602, Aichi, Japan.
Masahito InagakiDepartment of Chemistry, Graduate School of Science, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8602, Aichi, Japan.
Fumitaka HashiyaResearch Center for Materials Science, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8602, Aichi, Japan.
Hiroshi AbeDepartment of Chemistry, Graduate School of Science, Nagoya University, Furo-cho, Chikusa-ku, Nagoya 464-8602, Aichi, Japan.ORCID 0000-0003-0048-3789
Michiaki HamadaDepartment of Electrical Engineering and Bioscience, Graduate School of Advanced Science and Engineering, Waseda University, 3-4-1, Okubo Shinjuku-ku, Tokyo 169-8555, Japan.ORCID 0000-0001-9466-1034

Funding

AMED 24gm0010008AMED JP21ae0121049AMED JP22ama121055CREST JPMJCR21F1CREST JPMJCR23B3JSPS KAKENHI 20H00624JSPS KAKENHI 22H04925JSPS KAKENHI 23H00509JSPS KAKENHI 24K21326
6 · The paper itself

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.

Indexed as

5' Untranslated RegionsComputational BiologySequence Analysis, RNAAlgorithmsBase SequenceHumansRNA, Messenger5' Untranslated RegionsRNA, Messenger5′ UTRBayesian optimizationmRNA designmulti-objective optimizationribosome load

Identifiers

PMID40413870
PMCPMC12103902

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.