Extended Data Fig. 3: Cell cycle-specific gene expression and chromatin interactions. | Nature Methods

Extended Data Fig. 3: Cell cycle-specific gene expression and chromatin interactions.

From: Tri-omic single-cell mapping of the 3D epigenome and transcriptome in whole mouse brains throughout the lifespan

Extended Data Fig. 3: Cell cycle-specific gene expression and chromatin interactions.The alternative text for this image may have been generated using AI.

(a) Scatter plots showing gene expression of marker genes specific to S and G2/M phases from ChAIR-RNA data in K562 and Patski cells. (b) PCA plots showing the distribution of individual K562 cells based on their cell-cycle marker genes (left) and further grouped into metacells based on cell-cycle pseudotime (right). (c) 2D contact heatmaps of ChAIR-PET data in K562 and Patski cells at G1, S, and G2/M stages. (d) Aggregate compartment analysis of ChAIR-PET data in K562 (top) and Patski (bottom). (e) Aggregate TAD analysis of ChAIR-PET data in K562 (top) and Patski (bottom). (f) Aggregate plots of chromatin contacts between promoters (TSS) and putative distal enhancer elements (E) for phase-specific marker genes. The intensity values of phase-specific TSS-E interactions were given for comparison.

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