Accurate and efficient integrative reference-informed spatial domain detection for spatial transcriptomics.

ABSTRACT: Spatially resolved transcriptomics (SRT) studies are becoming increasingly common and large, offering unprecedented opportunities in mapping complex tissue structures and functions. Here we present integrative and reference-informed tissue segmentation (IRIS), a computational method designed to characterize tissue spatial organization in SRT studies through accurately and efficiently detecting spatial domains. IRIS uniquely leverages single-cell RNA sequencing data for reference-informed detection of biologically interpretable spatial domains, integrating multiple SRT slices while explicitly considering correlations both within and across slices. We demonstrate the advantages of IRIS through in-depth analysis of six SRT datasets encompassing diverse technologies, tissues, species and resol

SUBMITTER: Ma Y 

PROVIDER: S-EPMC11831598 | biostudies-literature | 2024 Jul

REPOSITORIES: biostudies-literature