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<p>Detecting senescent cells from single-cell RNA-seq data remains challenging due to the weak and non-specific expression of canonical markers. Here, we demonstrate that simple expansion of these low-signal marker sets does not improve detection accuracy. To address this limitation, we develop ICE (Imputation-based Cell Enrichment), a computational framework that integrates expression imputation with marker refinement. ICE improves the detection of senescent cells in pancreatic β cells and microglia from Alzheimer’s disease samples. This tool enables reliable identification of senescence-associated cell populations, facilitating more detailed analyses of their heterogeneity and temporal dynamics across human tissues and disease contexts.</p>

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ICE: robust detection of cellular senescence from weak single-cell signatures using imputation-based marker refinement

  • 期刊论文

  • 出版模式：

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  • 发表日期：

    2026年2月10日

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  • Peng Xu,
  • Hantao Zhang,
  • Siyao Zhu,
  • Yimeng Kong

摘要

Detecting senescent cells from single-cell RNA-seq data remains challenging due to the weak and non-specific expression of canonical markers. Here, we demonstrate that simple expansion of these low-signal marker sets does not improve detection accuracy. To address this limitation, we develop ICE (Imputation-based Cell Enrichment), a computational framework that integrates expression imputation with marker refinement. ICE improves the detection of senescent cells in pancreatic β cells and microglia from Alzheimer’s disease samples. This tool enables reliable identification of senescence-associated cell populations, facilitating more detailed analyses of their heterogeneity and temporal dynamics across human tissues and disease contexts.