Reference-based cell type matching of in situ image-based spatial transcriptomics data on primary visual cortex of mouse brain.

ABSTRACT: With the advent of multiplex fluorescence in situ hybridization (FISH) and in situ RNA sequencing technologies, spatial transcriptomics analysis is advancing rapidly, providing spatial location and gene expression information about cells in tissue sections at single cell resolution. Cell type classification of these spatially-resolved cells can be inferred by matching the spatial transcriptomics data to reference atlases derived from single cell RNA-sequencing (scRNA-seq) in which cell types are defined by differences in their gene expression profiles. However, robust cell type matching of the spatially-resolved cells to reference scRNA-seq atlases is challenging due to the intrinsic differences in resolution between the spatial and scRNA-seq data. In this study, we systematically evaluate

SUBMITTER: Zhang Y 

PROVIDER: S-EPMC10264402 | biostudies-literature | 2023 Jun

REPOSITORIES: biostudies-literature