Systematic comparison of sequencing-based spatial transcriptomic methods.

ABSTRACT: Recent developments of sequencing-based spatial transcriptomics (sST) have catalyzed important advancements by facilitating transcriptome-scale spatial gene expression measurement. Despite this progress, efforts to comprehensively benchmark different platforms are currently lacking. The extant variability across technologies and datasets poses challenges in formulating standardized evaluation metrics. In this study, we established a collection of reference tissues and regions characterized by well-defined histological architectures, and used them to generate data to compare 11 sST methods. We highlighted molecular diffusion as a variable parameter across different methods and tissues, significantly affecting the effective resolutions. Furthermore, we observed that spatial transcriptomic da

SUBMITTER: You Y 

PROVIDER: S-EPMC11399101 | biostudies-literature | 2024 Sep

REPOSITORIES: biostudies-literature