DeST-OT: Alignment of Spatiotemporal Transcriptomics Data.

ABSTRACT: Spatially resolved transcriptomics (SRT) measures mRNA transcripts at thousands of locations within a tissue slice, revealing spatial variations in gene expression and distribution of cell types. In recent studies, SRT has been applied to tissue slices from multiple timepoints during the development of an organism. Alignment of this spatiotemporal transcriptomics data can provide insights into the gene expression programs governing the growth and differentiation of cells over space and time. We introduce DeST-OT (Developmental SpatioTemporal Optimal Transport), a method to align SRT slices from pairs of developmental timepoints using the framework of optimal transport (OT). DeST-OT uses semi-relaxed optimal transport to precisely model cellu

SUBMITTER: Halmos P 

PROVIDER: S-EPMC10942402 | biostudies-literature | 2024 Mar

REPOSITORIES: biostudies-literature