Fast and flexible profiling of chromatin accessibility and total RNA expression in single nuclei using Microwell-seq3.

ABSTRACT: Single cell chromatin accessibility profiling and transcriptome sequencing are the most widely used technologies for single-cell genomics. Here, we present Microwell-seq3, a high-throughput and facile platform for high-sensitivity single-nucleus chromatin accessibility or full-length transcriptome profiling. The method combines a preindexing strategy and a penetrable chip-in-a-tube for single nucleus loading and DNA amplification and therefore does not require specialized equipment. We used Microwell-seq3 to profile chromatin accessibility in more than 200,000 single nuclei and the full-length transcriptome in ~50,000 nuclei from multiple adult mouse tissues. Compared with the existing polyadenylated transcript capture methods, integrative analysis of cell type-specific regulatory elements

SUBMITTER: Ye F 

PROVIDER: S-EPMC10966074 | biostudies-literature | 2024 Mar

REPOSITORIES: biostudies-literature