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 has provided critical insights into the functional mechanisms of genetic variants identified by genome-wide association studies (GWAS). However, most existing analyses rely on bulk data or cultured cell lines, which may fail to identify cell-type-specific enhancers and target genes. Recently, single-cell multimodal data measuring both gene expression and chromatin accessibility within the same cells have enabled the inference of enhancer-gene pairs in a cell-type-specific and context-specific manner. However, this task is challenged by the data's high sparsity, sequencing depth variation, and the computational burden of analyzing a large number of enhancer-gene pairs. To address these challenges, we propose scMultiMap, a stat

SUBMITTER: Su C 

PROVIDER: S-EPMC11463474 | biostudies-literature | 2024 Sep

REPOSITORIES: biostudies-literature