Biomechanics-Driven 3D Architecture Inference from Histology Using CellSqueeze3D.

ABSTRACT: Conventional 2D analysis of hematoxylin and eosin (H&E)-stained images is fundamentally limited by the tissue thickness, as cellular overlap and morphological changes in the compressed perspective obscure distinct cell boundaries. To address this, it develops CellSqueeze3D, a computational framework that reconstructs the 3D spatial distribution and size of individual cells from a single H&E-stained section. Founded on the principle that 2D cell compression preserves 3D geometry, the method employs a hybrid Particle Swarm Optimization (PSO) approach with biomechanical constraints to infer biologically plausible reconstructions. Validation shows that the nuclear-to-cytoplasmic (N/C) ratio distribution derived from the predicted cell radii differs significantly from random assignments (p = 1.

SUBMITTER: Kong Y 

PROVIDER: S-EPMC12915120 | biostudies-literature | 2026 Feb

REPOSITORIES: biostudies-literature