Spatially defined multicellular functional units in colorectal cancer revealed from single cell and spatial transcriptomics.

ABSTRACT: While advances in single-cell genomics have helped to chart the cellular components of tumor ecosystems, it has been more challenging to characterize their specific spatial organization and functional interactions. Here, we combine single-cell RNA-seq, spatial transcriptomics by Slide-seq, and in situ multiplex RNA analysis to create a detailed spatial map of healthy and dysplastic colon cellular ecosystems and their association with disease progression. We profiled inducible genetic CRC mouse models that recapitulate key features of human CRC, assigned cell types and epithelial expression programs to spatial tissue locations in tumors, and computationally used them to identify the regional features spanning different cells in the same spatial niche. We find that tumors were organized in c

SUBMITTER: Avraham-Davidi I 

PROVIDER: S-EPMC12700527 | biostudies-literature | 2025 Dec

REPOSITORIES: biostudies-literature