Fig. 3
From: Global chromatin conformation differences in the Drosophila dosage compensated chromosome X
ChrX specific TAD borders differences between sexes. a The differences in TAD borders between sexes are reported for each chromosome (x-axis) as fraction (y-axis) of non-matching, i.e. not concordant, TAD borders when comparing male and female samples. TADs were called on 10 kb Hi-C matrices normalized with chromosome-wise ICE for male and female sex-sorted embryos using three alternative published algorithms: Armatus, DomainCaller and TADbit (as indicated). b Schematic overview of the Local Score Differentiator (LSD) algorithm for calling TAD borders. Starting from a normalized Hi-C contact matrix, we compute the directionality index (DI) over a window of size n. Next, the first derivative of DI (delta DI) is computed. Then a sliding window approach (local window of size m) is used to scan the delta DI vector to identify outliers within the local distribution as TAD boundaries. c Fraction of non-matching domain borders in male vs female samples based on LSD analysis of 10 kb bins Hi-C data normalized with chromosome-wise ICE. The proportion of non-matching boundaries is reported across variations of analysis parameters, including the size n of the directionality index window (upper axis) and the size m of the local window to scan for outliers (x-axis) across each chromosome (y-axis).
