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Fig. 2 | Genome Biology

Fig. 2

From: Single-cell epigenomic variability reveals functional cancer heterogeneity

Fig. 2

Molecular characteristics of identified subpopulations. a Flow cytometric analysis of K562 cells for CD24, GATA1, and GATA2. Right panels: CD24 correlates with GATA1 (R2 = 0.68) and GATA2 (R2 = 0.44). b Representative histogram FACS plots of the re-analysis of K562 cells for GATA1 (left) and GATA2 (right) after sorting for CD24. CD24hi sorted population is labeled red, CD24lo sorted population is labeled blue, isotype control gray. Mean fluorescent intensity (MFI) 2565 for GATA1 high, 2098 for GATA1 low, 2930 for GATA2 high, and 2457 for GATA2 low. c ATAC-seq of CD24hi and CD24lo sorted K562 cells (replicates); 2757 peaks are differentially regulated with a fold change of 1.5 and p value <0.001. Blue represents genomic locations less accessible, red locations with higher accessibility compared to the mean of all samples. d Representative UCSC genome browser tracks of open chromatin regions in K562 CD24hi sorted cells (upper track, red) and K562 CD24lo sorted cells (lower track, blue). Example regions shown are the GATA2 and CD24 locus. e Gene Ontology term analysis of chromosomal regions, which are more accessible in the CD24hi population. f Enrichment of ATAC-seq peaks more open in CD24hi (top) or CD24lo (bottom) in K562 and hematopoietic stem cell ChIP-seq datasets. Shown are odds ratios calculated using Fisher’s exact test. Values below zero demonstrate de-enrichment (blue) and above zero enrichment (orange). g Overlap of ATAC-seq peaks more accessible in CD24hi (red) or CD24lo (blue) with DNAse peaks across 72 different cell types. Left: Number of cell types with overlap is quantified. Right: The different cell types are shown; K562 and CMK leukemia cell lines are highlighted in green

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