Anomaly detection in spatial transcriptomics via spatially localized density comparison.

ABSTRACT:

Motivation

Perturbations in biological tissues-e.g. due to inflammation, disease, or drug treatment-alter the composition of cell types and cell states in the tissue. These alterations are often spatially localized in different regions of a tissue, and can be measured using spatial transcriptomics technologies. However, current methods to analyze differential abundance in cell types or cell states, either do not incorporate spatial information-and thus cannot identify spatially localized alterations-or use heuristic and inaccurate approaches.

Results

We introduce Spatial Anomaly Region Detection in Expression Manifolds (Sardine), a method to estimate spatially localized changes in spatial transcriptomics data obtained from tissue slices from two or more conditions. Sardine e

SUBMITTER: Hu G 

PROVIDER: S-EPMC12261494 | biostudies-literature | 2025 Jul

REPOSITORIES: biostudies-literature