Interpreting the CTCF-mediated sequence grammar of genome folding with AkitaV2
Fig 6
CTCF grammar depends on number and spacing.
A) Insertion score versus number of inserted CTCF sites. Averages over five groups of n = 1,500 CTCF sites plotted as in Fig 3C. Shaded areas indicate 25-75th percentile for each group. Variability among sites is highlighted using 10 randomly chosen sites from the strongest group (dark navy lines). All sites inserted in a rightward orientation with 30bp flanks and 180bp spacing between cores. Note that with this spacing, 10 inserted sites constitute about 2kb or one bin. B) Insertion score as a function of spacing for four possible orientations for 300 CTCF sites (the strongest 20% from A), also with 30bp flanks. Average across sites shown for each orientation, with variability indicated by 25–75 percentile bands. C) Predicted log-transformed observed/expected contact frequency maps by CTCF pair orientation and spacing for insertion of a representative CTCF site (sequence from chr2:93,199,043–93,199,062). D) As in B), zooming into the 0-5kb region.