Foundation Model: A New Era for Plant Single-cell Genomics
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Yang, Yuedong
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Gao, Ge
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Single-cell RNA sequencing (scRNA-seq), introduced in 2009, has rapidly become a cornerstone of biological research, particularly in uncovering cellular heterogeneity, developmental trajectories, and gene regulatory networks. By enabling high-resolution analysis of gene expression at the single-cell level, scRNA-seq overcomes the limitations of traditional bulk RNA sequencing that averages gene expression across cell populations. This transformative technology has provided unprecedented insights into the cellular composition of complex tissues and organs, revealing rare cell types, transient states, and dynamic regulatory interactions that were previously obscured. Its applications span diverse fields, including developmental biology, immunology, and cancer research, where it has become an indispensable tool for dissecting cellular diversity, mapping lineage relationships, and identifying key drivers of disease progression [1]. scRNA-seq has become a core research method, driving breakthroughs in our understanding of cellular behavior and tissue organization.
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Genomics, Proteomics & Bioinformatics
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23
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3
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© The Author(s) 2025. Published by Oxford University Press and Science Press on behalf of the Beijing Institute of Genomics, Chinese Academy of Sciences / China National Center for Bioinformation and Genetics Society of China. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
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Zeng, Y; Yang, Y, Foundation Model: A New Era for Plant Single-cell Genomics, Genomics, Proteomics & Bioinformatics, 2025, 23 (3)