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Fig. 6 | Genome Biology

Fig. 6

From: MATCHER: manifold alignment reveals correspondence between single cell transcriptome and epigenome dynamics

Fig. 6

Analysis of gene expression and DNA methylation in human fibroblast cells undergoing reprogramming. a, b Density plots showing distribution of pseudotime inferred from a gene expression and b DNA methylation. The pseudotime values for individual cells are shown as a rug plot below the density plot; color indicates the time point. c Relationship between master time inferred from gene expression and master time inferred from DNA methylation. d Heatmap of ground truth correlation between expression of all genes measured in the sc-GEM experiment and DNA methylation level of all promoters measured. e Heatmap of correlation inferred by MATCHER from sc-GEM data. Note that MATCHER inferred these correlations without using the known correspondence among cells in any way. f Violin plot of the DNA methylation master time values for cells at each time point. Note that the distributions for untreated fibroblasts (BJ) and fibroblasts eight days after treatment (d8) are virtually identical. g Violin plot of the gene expression master time values for cells at each time point

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Genome Biology

ISSN: 1474-760X

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