Document Type
Article
Publication Date
9-4-2025
Original Citation
Pitino E,
Pascual-Reguant A,
Segato-Dezem F,
Wise K,
Salvador-Martinez I,
Crowell H,
Marção M,
Ruiz M,
Courtois E,
Flynn W,
Sivajothi S,
Soja E,
Caratù G,
Mora-Roldan G,
Dredge B,
Liu Y,
Chasteen H,
Mohenska M,
Nieto J,
Yip R,
Mishi R,
Polo J,
Abdalfttah M,
Sullivan A,
Plummer J,
Heyn H,
Martelotto L.
STAMP: Single-cell transcriptomics analysis and multimodal profiling through imaging. Cell. 2025;188(18):5100–17 e26.
Keywords
JGM, Single-Cell Analysis, Humans, Gene Expression Profiling, Transcriptome, Proteomics, Leukocytes, Mononuclear, Sequence Analysis, RNA, Cell Line
JAX Source
Cell. 2025;188(18):5100–17 e26.
ISSN
1097-4172
PMID
40532697
DOI
https://doi.org/10.1016/j.cell.2025.05.027
Abstract
Single-cell RNA sequencing has revolutionized our understanding of cellular diversity but remains constrained by scalability, high costs, and the destruction of cells during analysis. To overcome these challenges, we developed STAMP (single-cell transcriptomics analysis and multimodal profiling), a highly scalable approach for the profiling of single cells. By leveraging transcriptomics and proteomics imaging platforms, STAMP eliminates sequencing costs, enabling cost-efficient single-cell genomics of millions of cells. Immobilizing (stamping) cells in suspension onto imaging slides, STAMP supports multimodal (RNA, protein, and H&E) profiling, while retaining cellular structure and morphology. We demonstrate STAMP's versatility by profiling peripheral blood mononuclear cells, cell lines, and stem cells. We highlight the capability of STAMP to identify ultra-rare cell populations, simulate clinical applications, and show its utility for large-scale perturbation studies. In total, we present data for 10,962,092 high-quality cells/nuclei and 6,030,429,954 transcripts. STAMP makes high-resolution cellular profiling more accessible, scalable, and affordable.
Creative Commons License
This work is licensed under a Creative Commons Attribution 4.0 International License.