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. 2022 Jan 28;13:786501. doi: 10.3389/fgene.2022.786501

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Copyright © 2022 Aljogol, Thompson, Osborne and Mifsud.

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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Biologically relevant interactions. Bubble heat maps represent the proportion of interactions that overlap (A). DHS or (B). H3K4me1 peaks. The size of the circle represents the log10 number of promoter-other interactions identified by the different methods. (C). A comparison between BCL2 promoter interactions in GM12878 cells within ± 1 Mb as reported by each method. Dashed lines represent examples of interactions that are identified in all tools (magenta), all tools except CHiCANE (blue), only in GOTHiC (yellow). ENCODE ChIP-seq profiles for DHS, H3K4me1 and H3K27ac in GM12878 cell lines are shown in the bottom tracks. DHS: DNase I Hypersensitivity sites.