Fig. 8

Single-cell gene associating domain analysis links single-cell 3D genome organization with single-cell transcriptome. a Single-cell 3D genome Dip-C data of postnatal mouse forebrain cell types from Tan2021 data set [11]. UMAP visualization is generated after BandNorm normalization of single-cell contact matrices. b UMAP visualization of single-cell transcriptomics MALBAC-DT data of postnatal mouse forebrain cell types from Tan2021 data set. c Comparison of single-cell gene associating domain (scGAD) scores between cell type-specific marker genes detected by the MALBAC-DT data and non-marker genes. d Overlap between cell-type-specific marker genes detected using scGAD scores and single-cell transcriptomics (MALBAC-DT) gene expression. P values are obtained by Fisher’s exact test. e-f scGAD scores and gene expression values of marker genes that are specifically detected by the scGAD scores for Microglia (e) and Mature Oligodendrocyte (f) cells, highlighted by the pointing arrows