Scupa: Single-cell unified polarization assessment of immune cells using the single-cell foundation model.

ABSTRACT: Immune cells undergo cytokine-driven polarization in respond to diverse stimuli. This process significantly modulates their transcriptional profiles and functional states. Although single-cell RNA sequencing (scRNA-seq) has advanced our understanding of immune responses across various diseases or conditions, currently there lacks a method to systematically examine cytokine effects and immune cell polarization. To address this gap, we developed Single-cell unified polarization assessment (Scupa), the first computational method for comprehensive immune cell polarization analysis. Scupa is trained on data from the Immune Dictionary, which characterizes 66 cytokine-driven polarization states across 14 immune cell types. By leveraging the cell embeddings from

SUBMITTER: Liu W 

PROVIDER: S-EPMC11370394 | biostudies-literature | 2024 Aug

REPOSITORIES: biostudies-literature