Single-cell assay for transposase-accessible chromatin with sequencing (scATAC-seq) resolves the heterogeneity of epigenetic states across cells but does not typically capture exonic mutations, which limits our knowledge of how somatic mutations alter chromatin landscapes. Here, we present a plate-based approach coupling high-sensitivity genotyping of genomic loci with high-content scATAC-seq libraries from the same single cells. We first describe steps for optimization of genotyping primers, followed by detailed guidance on the preparation of both scATAC-seq and single-cell genotyping libraries, fully automated on high-throughput liquid handling platforms. For complete details on the use and execution of this protocol, please refer to Turkalj, Jakobsen et al.1.
Journal article
STAR Protoc
15/12/2023
4
Bioinformatics, Cancer, Genetics, Genomics, Molecular Biology, Sequence Analysis, Sequencing, Single Cell, Stem Cells, Chromatin, Genotype, Biological Assay, DNA Primers, Epigenomics