ScMultiMap: Cell-type-specific mapping of enhancers and target genes from single-cell multimodal data.

ABSTRACT: Mapping enhancers and target genes in disease-related cell types provides critical insights into the functional mechanisms of genome-wide association studies (GWAS) variants. Single-cell multimodal data, which measure gene expression and chromatin accessibility in the same cells, enable the cell-type-specific inference of enhancer-gene pairs. However, this task is challenged by high data sparsity, sequencing depth variation, and the computational burden of analyzing a large number of pairs. We introduce scMultiMap, a statistical method that infers enhancer-gene association from sparse multimodal counts using a joint latent-variable model. It adjusts for technical confounding, permits fast moment-based estimation and provides analytically derived p-values. In blood and brain data, scMultiMa

SUBMITTER: Su C 

PROVIDER: S-EPMC12033308 | biostudies-literature | 2025 Apr

REPOSITORIES: biostudies-literature