Supplementary Figure 2: Reproducibility assessment of CHi-C interactions using GOTHiC.
From: Mapping long-range promoter contacts in human cells with high-resolution capture Hi-C
(a–c) The sequencing reads pooled from three GM12878 CHi-C replicates were preprocessed by HiCUP and randomly downsampled to 10–90% of the total read counts. (a) The percentage of interactions identified using all reads also found in subsets of different sizes. (b) Box plots displaying the separation distances of the promoter interactions called in each subset of reads. (c) The percentage of interactions that are not present in the interaction list from all reads in each subset. (d) Overlap of the promoter interactions detected within three independently prepared GM12878 CHi-C libraries. (e) Overlap of the promoter interactions detected within two independently prepared CD34+ CHi-C libraries. (f) Overlap of the interaction lists using more stringent FDR thresholds.
