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Hao-Tian Zhuang

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Open access Sep 2026

Halo: a pretrained model for whole-cell segmentation from nuclei images in spatial transcriptomics

Abstract Spatial transcriptomics (ST) enables measurement of gene expression while preserving spatial organization within tissues. Accurate reconstruction of single-cell transcriptomes requires precise whole-cell segmentation, yet many ST experiments provide only nuclear staining images, making reliable inference of ce...

Xing-Yuan Zhang, Hao-Tian Zhuang, Zhicheng Ji · 0 citations

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