Skip to main content

Advertisement

Table 1 Chromatin marks and histone modification enrichments within and between domains

From: Identification of alternative topological domains in chromatin

Signal Domains ([5]) Domains (Here) Boundaries ([5]) Boundaries (Here)
CTCF (IMR90) 2050 2234 0.92 3092 5365 0.58 423 2136 0.20 2126 4861 0.44
CTCF (mESC) 2057 2066 1.00 2500 3578 0.70 654 2006 0.33 2258 3122 0.72
H3K4me3 (mESC) 2019 2066 0.98 2362 3578 0.66 600 2006 0.30 1738 3122 0.60
H3K27AC (mESC) 1922 2066 0.93 2254 3578 0.63 458 2006 0.23 1342 3122 0.43
  1. Each table entry is of the form e t r where e is the number of elements containing ≥1 of CTCF and histone modifications, t is the total number of elements and r is the approximate ratio e/t. Our method produces more domains, and hence more boundaries, than that of Dixon et al. [5]. However, relative to Dixon et al., our domains are depleted for peaks of interest, while our boundaries are significantly enriched for such peaks.