![]() ![]() Here we introduce Juicebox, a tool for exploring Hi-C data and contact maps in general ( Figure 1). Also, most of these systems are designed to show specific, previously published datasets, and they do not allow users to visualize their own experiments. Users cannot zoom in and out in real time. Like a paper atlas, these browsers show the map at a single resolution (typically either 1-Mb or 100-Kb), either in its entirety ( Servant et al., 2012 Paulsen et al., 2014 Lieberman-Aiden et al., 2009) or very close to the diagonal ( Zhou et al., 2013). Several Hi-C visualization systems exist. At coarser resolutions, more of the map can be shown, but the fine structure can no longer be resolved. At the highest meaningful resolutions, published Hi-C heatmaps contain trillions of entries, and only a tiny portion can be displayed at any given time. Typically, the pairwise interactions produced by Hi-C experiments are visualized as a heatmap: the linear genome is partitioned into loci of a fixed size, or resolution (e.g., 1-Mb or 1-Kb) and each entry in the two-dimensional (2D) heatmap corresponds to the number of contacts observed between a pair of loci during the experiment.ĭeveloping adequate visualizations for Hi-C heatmaps is a challenge, because the size of the meaningful biological features they contain ranges over at least seven orders of magnitude: from loops anchored at 20-bp CTCF sites to territories that extend across 200-Mb chromosomes. This results in a Hi-C contact map: a list of pairs of genomic positions that were adjacent to each other in three-dimensional (3D) space. In Hi-C, DNA loci that are spatially proximate in a system of interest (such as a cell nucleus or an in vitro DNA preparation) are ligated to one another and sequenced. person information "derived so.Hi-C is a widely employed method for studying how genomes are folded in three dimensions ( Rao et al., 2014). Sex Differences In The Adult Human Brain: UK Bioba. ![]()
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