Extended Data Fig. 7: Identification of loops/interactions using sn-m3C-seq data generated from human prefrontal cortex by different methods.
From: SnapHiC: a computational pipeline to identify chromatin loops from single-cell Hi-C data
a, t-SNE visualization of 14 major cell types identified in human prefrontal cortex in Lee et al. study3 based on cell-type-specific CG and non-CG methylation patterns. ODC: oligodendrocyte. Astro: astrocyte. MG: microglia. OPC: oligodendrocyte progenitor cell. Endo: endothelial cell. L2/3, L4, L5 and L6: excitatory neuron subtypes located in different cortical layers. Pvalb and Sst: medial ganglionic eminence-derived inhibitory subtypes. Ndnf and Vip: CGE-derived inhibitory subtypes. NN1: non-neuronal cell type 1. b, The number of loops/interactions identified from each of the 14 cell types by SnapHiC, HiCCUPS, FitHiC2, FastHiC and HiC-ACT.