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Accelerating antibody discovery and optimization with high-throughput experimentation and machine learning.

作者信息

Matsunaga Ryo, Tsumoto Kouhei

机构信息

Department of Bioengineering, School of Engineering, The University of Tokyo, Tokyo, 113-8656, Japan.

Department of Chemistry and Biotechnology, School of Engineering, The University of Tokyo, Tokyo, 113-8656, Japan.

出版信息

J Biomed Sci. 2025 May 9;32(1):46. doi: 10.1186/s12929-025-01141-x.


DOI:10.1186/s12929-025-01141-x
PMID:40346589
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC12063268/
Abstract

The integration of high-throughput experimentation and machine learning is transforming data-driven antibody engineering, revolutionizing the discovery and optimization of antibody therapeutics. These approaches employ extensive datasets comprising antibody sequences, structures, and functional properties to train predictive models that enable rational design. This review highlights the significant advancements in data acquisition and feature extraction, emphasizing the necessity of capturing both sequence and structural information. We illustrate how machine learning models, including protein language models, are used not only to enhance affinity but also to optimize other crucial therapeutic properties, such as specificity, stability, viscosity, and manufacturability. Furthermore, we provide practical examples and case studies to demonstrate how the synergy between experimental and computational approaches accelerates antibody engineering. Finally, this review discusses the remaining challenges in fully realizing the potential of artificial intelligence (AI)-powered antibody discovery pipelines to expedite therapeutic development.

摘要
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6371/12063268/f9fd33f1dbe2/12929_2025_1141_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6371/12063268/f9fd33f1dbe2/12929_2025_1141_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6371/12063268/f9fd33f1dbe2/12929_2025_1141_Fig1_HTML.jpg

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Accelerating antibody discovery and optimization with high-throughput experimentation and machine learning.

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本文引用的文献

[1]
Genetic and functional analysis of unproductive splicing using LeafCutter2.

bioRxiv. 2025-4-8

[2]
RNA-mediated CRISPR-Cas13 inhibition through crRNA structural mimicry.

Science. 2025-4-25

[3]
FASTIA: A rapid and accessible platform for protein variant interaction analysis demonstrated with a single-domain antibody.

Protein Sci. 2025-3

[4]
Simulating 500 million years of evolution with a language model.

Science. 2025-2-21

[5]
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PLoS Comput Biol. 2024-12-6

[6]
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Science. 2025-1-24

[7]
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bioRxiv. 2024-10-14

[8]
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Sci Rep. 2024-8-17

[9]
Unsupervised evolution of protein and antibody complexes with a structure-informed language model.

Science. 2024-7-5

[10]
High-throughput system for the thermostability analysis of proteins.

Protein Sci. 2024-6

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