Gradient-based optimization for mRNA sequence design

doi:10.1093/bioinformatics/btag667

2026-09-10

DOI：10.1093/bioinformatics/btag667

原文链接

原文求助

摘要

En 中文

设计同时优化翻译起始区RNA可及性和密码子适应性的mRNA编码序列，并在保留编码蛋白质的同时，需要在巨大的离散组合空间中进行导航。密码子选择的固有离散性阻碍了基于梯度的优化方法的应用，尽管存在如DeepRaccess等精确的深度学习预测器用于RNA可及性预测。

期刊

Bioinformatics

IF:

5.4

论文数:

1.3K

被引数:

17.9W

机构

University of Tokyo

学者数:

659

论文数: 285

被引数: 0

引用论文

Synonymous but not the same: the causes and consequences of codon bias 同义但不相同: 密码子偏倚的原因和后果

NATURE REVIEWS GENETICS

IF52

2010-11-23

1.3K

OAAI

Plotkin, Joshua B.; Kudla, Grzegorz

IF0

OAAI

Initiation of translation in prokaryotes and eukaryotes

Gene

IF0

1999-07-01

PREAI

Marilyn Kozak

mRNA-based therapeutics - developing a new class of drugs

NATURE REVIEWS DRUG DISCOVERY

IF101.8

2014-09-19

1.8K

OAAI

Sahin, Ugur; Kariko, Katalin; Tuereci, Oezlem

Deep learning models for predicting RNA degradation via dual crowdsourcing

NATURE MACHINE INTELLIGENCE

IF23.9

2022-12-14

OAAI

Wayment-Steele, Hannah K.; Kladwang, Wipapat; Watkins, Andrew M.; Kim, Do Soon; Tunguz, Bojan; Reade, Walter; Demkin, Maggie; Romano, Jonathan; Wellington-Oguri, Roger; Nicol, John J.; Gao, Jiayang; Onodera, Kazuki; Fujikawa, Kazuki; Mao, Hanfei; Vandewiele, Gilles; Tinti, Michele; Steenwinckel, Bram; Ito, Takuya; Noumi, Taiga; He, Shujun; Ishi, Keiichiro; Lee, Youhan; Ozturk, Fatih; Chiu, King Yuen; Ozturk, Emin; Amer, Karim; Fares, Mohamed; Participants, Eterna; Das, Rhiju

mRNA vaccines - a new era in vaccinology mRNA疫苗-疫苗学的新时代

NATURE REVIEWS DRUG DISCOVERY

IF101.8

2018-01-12

2.9K

OAAI

Pardi, Norbert; Hogan, Michael J.; Porter, Frederick W.; Weissman, Drew

JAX-RNAfold: scalable differentiable folding JAX-RNAfold：可扩展的微分折叠

BIOINFORMATICS

IF5.4

2025-04-25

OAAI