Fig. 1: Method overview and benchmark results. | npj Systems Biology and Applications

Fig. 1: Method overview and benchmark results.

From: Multiomics data integration unveils core transcriptional regulatory networks governing cell-type identity

Fig. 1

a Overview of the methods workflow. b Benchmark results against state-of-the-art methods. Gold-standard networks for GM12878, H1, and HepG2 were from cell-type-specific TF ChIP-seq data and mapped to promoter regions. Each methods ability to identify these interactions is expressed as the F1 score. c Benchmark results of enhancer–promoter assignments of the proposed method. A gold-standard dataset of cell-type-specific promoter-capture Hi-C data was assembled H1 embryonic stem cells, IMR90 fibroblasts, mesenchymal stem cells (MSC), neural stem cells (NSC), and trophoblasts. The percentage of validated enhancer–promoter assignments is reported as a box plot showing the median (solid center line). Whiskers extend to 1.5 times the interquartile range. Between 69% (MSC) and 95% (NSC) of interactions could be validated. d t-SNE plot of cell types and cell lines reconstructed with Moni. Seven clusters were identified that are specific to different cell types.

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