Yuheng C. Fu

This paper introduces scHolography, a deep learning method to reconstruct 3D tissue organization from single-cell transcriptome data, enabling analysis of cell-cell interactions and spatial heterogeneity.

Capybara measures cell identity and fate transitions using a continuum-based approach, showing improved performance in annotating cells and identifying transitions in hematopoiesis and reprogramming.

This study profiles transcriptional and morphogenetic features of human gastruloids, identifying seven cell types and conserved sorting behaviors during embryogenesis.