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Fig. 5 | Genome Biology

Fig. 5

From: Comprehensive enhancer-target gene assignments improve gene set level interpretation of genome-wide regulatory data

Fig. 5

GSE performance comparison between the top ranked EnTDefs and other datasets. A Violin plot of F1 scores of the top EnTDef, five computational-derived enhancer-gene pair datasets (FOCS, GeneHancer, JEME, PEGASU, and RIPPLE), two datasets (HACER and RB), and the combined EnTDef with each of the seven datasets (best EnTDef + dataset). Wilcoxon signed-rank test p-values were shown between the top EnTDef vs the comparative dataset, or the combined dataset (best EnTDef + dataset). B Violin plot of F1 scores of the best CT-EnTDef, cell-type-specific RIPPLE (CT-RIPPLE), CT-HACER, and the combined dataset (best CT-EnTDef + CT-RIPPLE, or best CT-EnTDef + CT-HACER) in cell type GM12878, H1hESC, and K562. Wilcoxon signed-rank test p-values are shown for the best CT-EnTDef vs the comparative dataset (CT-RIPPLE, or CT-HACER), or the combined dataset (best CT-EnTDef + CT-RIPPLE, or best CT-EnTDef + CT-HACER) of the same cell type

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Genome Biology

ISSN: 1474-760X

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