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Table 2 Summary of single-cell epigenome sequencing technologies

From: Single-cell sequencing in stem cell biology

Epigenetic marks Assays Strategies Coverage Reference
5mC scRRBS RRBS 0.5–2 M CpG sites [74]
5mC scBS PBAT 0.5–10 M CpG sites [75]
5mC scWGBS PBAT-like 0.5–10 M CpG sites [76]
Chromatin accessibility scATAC-seq ATAC-seq Average 73,000 unique fragments mapping to genome [84]
Chromatin accessibility scATAC-seq ATAC-seq 50–6000 DHS sites [85]
Chromatin accessibility scDNase-seq DNase-seq Average 317,000 unique fragments and 38,000 DHS [86]
Chromatin structure Single-cell Hi-C Hi-C Not available [87]
Chromatin structure Single-cell DamID DamID Not available [88]
Histone modification Drop-ChIP Droplet-based ChIP-seq 1000 H3K4me2 peaks [89]
  1. 5mC 5-methylcytosine, ATAC assay for transposase-accessible chromatin, BS bisulfite sequencing, ChIP chromatin immunoprecipitation, DamlD Dam identification, DHS DNase I hypersensitive sites, MALBAC multiple annealing and looping-based amplification cycles, PBAT post-bisulfite adaptor tagging, RRBS reduced representation bisulfite sequencing, sc single-cell, WGBS whole-genome bisulfite sequencing