Unveiling fine-scale spatial structures and amplifying gene expression signals in ultra-large ST slices with HERGAST.

ABSTRACT: We propose HERGAST, a system for spatial structure identification and signal amplification in ultra-large-scale and ultra-high-resolution spatial transcriptomics data. To handle ultra-large spatial transcriptomics (ST) data, we consider the divide and conquer strategy and devise a Divide-Iterate-Conquer framework especially for spatial transcriptomics data analysis, which can also be adopted by other computational methods for extending to ultra-large-scale ST data analysis. To tackle the potential over-smoothing problem arising from data splitting, we construct a heterogeneous graph network to incorporate both local and global spatial relationships. In simulations, HERGAST consistently outperforms other methods across all settings with more than a 10% increase in average adjusted rand inde

SUBMITTER: Gong Y 

PROVIDER: S-EPMC12037780 | biostudies-literature | 2025 Apr

REPOSITORIES: biostudies-literature