TrimNN: Characterizing cellular community motifs for studying multicellular topological organization in complex tissues.

ABSTRACT: The spatial arrangement of cells plays a pivotal role in shaping tissue functions in various biological systems and diseased microenvironments. However, it is still under-investigated of the topological coordinating rules among different cell types as tissue spatial patterns. Here, we introduce the Triangulation cellular community motif Neural Network (TrimNN), a bottom-up approach to estimate the prevalence of sizeable conservative cell organization patterns as Cellular Community (CC) motifs in spatial transcriptomics and proteomics. Different from clustering cell type composition from classical top-down analysis, TrimNN differentiates cellular niches as countable topological blocks in recurring interconnections of various types, representing mult

SUBMITTER: Yu Y 

PROVIDER: S-EPMC11774463 | biostudies-literature | 2025 Jan

REPOSITORIES: biostudies-literature