Simultaneous profiling of transcriptome and chromatin accessibility in single nucleus

Here we describe SNARE-seq, a droplet-based method to simultaneously profile gene expression and chromatin accessibility in each of thousands of single nuclei. Employing this method, we profiled 1047 nuclei from human cell line mixture, 5081 and 10309 nuclei from neonatal and adult mouse brain. Single nuclei RNA-seq and ATAC-seq co-assay for BJ, H1, K562 and GM12878 cell mixture, and wild type neonatal and adult mouse brain cerebral cortex.