sciMET-cap: high-throughput single-cell methylation analysis with a reduced sequencing burden.
Sonia N AcharyaRuth V NicholsLauren E RylaarsdamBrendan L O'ConnellTheodore P BraunAndrew C AdeyPublished in: Genome biology (2024)
DNA methylation is a key component of the mammalian epigenome, playing a regulatory role in development, disease, and other processes. Robust, high-throughput single-cell DNA methylation assays are now possible (sciMET); however, the genome-wide nature of DNA methylation results in a high sequencing burden per cell. Here, we leverage target enrichment with sciMET to capture sufficient information per cell for cell type assignment using substantially fewer sequence reads (sciMET-cap). Accumulated off-target coverage enables genome-wide differentially methylated region (DMR) calling for clusters with as few as 115 cells. We characterize sciMET-cap on human PBMCs and brain (middle frontal gyrus).
Keyphrases
- single cell
- dna methylation
- high throughput
- genome wide
- rna seq
- gene expression
- copy number
- endothelial cells
- induced apoptosis
- risk factors
- functional connectivity
- resting state
- transcription factor
- cell proliferation
- brain injury
- endoplasmic reticulum stress
- bone marrow
- blood brain barrier
- induced pluripotent stem cells