Uncovering the spatial landscape of molecular interactions within the tumor microenvironment through latent spaces.

ABSTRACT: Recent advances in spatial transcriptomics (STs) enable gene expression measurements from a tissue sample while retaining its spatial context. This technology enables unprecedented in situ resolution of the regulatory pathways that underlie the heterogeneity in the tumor as well as the tumor microenvironment (TME). The direct characterization of cellular co-localization with spatial technologies facilities quantification of the molecular changes resulting from direct cell-cell interaction, as it occurs in tumor-immune interactions. We present SpaceMarkers, a bioinformatics algorithm to infer molecular changes from cell-cell interactions from latent space analysis of ST data. We apply this approach to infer the molecular changes from tumor-immune interactions in Visium spatial transcriptomi

SUBMITTER: Deshpande A 

PROVIDER: S-EPMC10236356 | biostudies-literature | 2023 Apr

REPOSITORIES: biostudies-literature