Fig. 2. SnapATAC facilitates integration of single-cell ATAC-seq and RNA-seq data to link enhancers to putative target genes.

a Joint t-SNE visualization of scATAC-seq and scRNA-seq datasets from peripheral blood mononuclear cells (PBMC). Cells are colored by modality (left) and predicted cell types (right). b Cell-type-specific chromatin landscapes are shown together with the association score between gene expression of C3AR1 and accessibility at its putative enhancers (logistic regression coefficient p-value; Methods section). Dash lines highlight the significant enhancer–promoter pairs. Yellow line represents the SNP (rs2072449) that is previously identified to be associated with C3AR1 expression.