7/10 3D genome structures were analyzed in a few dozens of bulk tissues. Here we identified >600k differential loop pixels across major types and subtypes, representing the cell type specific 3D genome architecture at the highest cellular resolution so far.

6/10 non-CG methylation (mCH) was primarily detected in brian and stem cells. Here we reported mCH across almost all major cell types and show cell type specific signatures at genes and regulatory elements.

5/10 Partially methylated domains (PMD) were identified in cancer cell lines and placenta. Here we reported PMD-like structures in almost all cell types and generalized it to methylation compartment, which correlated with 3D genome compartment but at a higher genome resolution.

4/10 The cell identities could be driven by only one modality, or the two modalities can show different cellular identity signatures in the same cell at the same gene. Links between chromatin state and cell fate may not be determined by a single set of parameters.

3/10 Different Epigenome modalities are considered highly correlated with each other. Here we found that extensive discrepancies can exist between methylation and 3D genome organization in cell type classification.

2/10 snm3C-seq on 16 organs generate 86,689 chromatin conformation and DNA methylome joint profiles. Integration with 24 published scRNA datasets annotate 206 cell subtypes. These produced the whole genome methylation and 3D structure at unprecedented cell-type resolution.

1/10 Excited to share our latest - the first whole-body map of both DNA methylation and 3D genome at single-cell resolution.