GEO series
Spatial biology reveals macrophage dysfunction in immunosuppressed non-melanoma skin cancer [spatial_ATAC]
Summary
The rising incidence of non-melanoma skin cancer (NMSC), including basal cell carcinoma (BCC) and cutaneous squamous cell carcinoma (cSCC), particularly among immunosuppressed individuals, underscores the need for a deeper understanding of the tumor microenvironment (TME) to develop effective and safe immunotherapies. This study employed single-cell multi-omic analyses to investigate the spatial distribution and transcriptional profiles of immune cells in NMSC from both immunocompetent and immunosuppressed patients. Our results challenge the prevailing notion that immunosuppression is primarily driven by reduced immune cell abundance or lymphocytic dysfunction. Instead, we identified a critical deficiency in antigen presentation by macrophages, leading to impaired T-cell diversity and clonal expansion. Additionally, a spatial epigenomic atlas of the NMSC TME revealed distinct spatial niches and epigenetic programs associated with immunosuppression. These findings highlight the central role of innate immunity in shaping anti-tumor responses and offer potential therapeutic targets to enhance immunotherapy in this vulnerable patient population.
Published in
Naara S, Kochat V, Rao X et al.
· Cell 2026
· PMID 42556334
· doi:10.1016/j.cell.2026.07.031
This dataset
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Direct links to NCBI, no account and no request form: the whole study as GSE306129_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 28 samples.
Also filed as BioProject PRJNA1309491. Searching any of these in the dataset finder brings you back here.
Study design
28 conditions, each sampled once — no replicated groups
Read from 28 sample titles: 28 distinct titles with little repetition. Check it against the sample list below before relying on it.
Samples in this study
0 selected
- GSM9193766 D01127_BCC_IS_Cohort 1
- GSM9193767 D01128_BCC_IC_Cohort 1
- GSM9193768 D01130_SCC_IC_Cohort 1
- GSM9193769 D01131_SCC_IS_Cohort 1
- GSM9193770 D01132_SCC_IC_Cohort 1
- GSM9193771 D01133_BCC_IS_Cohort 1
- GSM9193772 D01134_BCC_IS_Cohort 1
- GSM9193773 D01136_BCC_IC_Cohort 1
- GSM9193774 D01143_BCC_IS_Cohort 1
- GSM9193775 D01145_BCC_IC_Cohort 1
- GSM9193776 D01146_BCC_IS_Cohort 1
- GSM9193777 D01147_BCC_IC_Cohort 1
- GSM9193778 D01152_BCC_IC_Cohort 1
- GSM9193779 D01154_SCC_IS_Cohort 1
- GSM9193780 D01138_BCC_IC_Cohort 1
- GSM9193781 D01139_BCC_IC_Cohort 1
- GSM9193782 D01954_SCC_IS_Cohort 2
- GSM9193783 D01955_SCC_IS_Cohort 2
- GSM9193784 D01956_SCC_IS_Cohort 2
- GSM9193785 D01957_BCC_IS_Cohort 2
- GSM9193786 D01958_BCC_IS_Cohort 2
- GSM9193787 D02035_SCC_IS_Cohort 2
- GSM9193788 D02036_SCC_IS_Cohort 2
- GSM9193789 D02037_BCC_IS_Cohort 2
- GSM9193790 D02044_SCC_IC_Cohort 2
- GSM9193791 D02045_BCC_IC_Cohort 2
- GSM9193792 D02064_SCC_IC_Cohort 2
- GSM9193793 D02066_SCC_IS_Cohort 2
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