Extended Data Fig. 6: Chromatin trajectories with speckle and lamina anchor points.
From: Evaluating the role of the nuclear microenvironment in gene function by population-based modeling
a. Structural feature profiles for a representative example of a long trajectory (chromosome 3 128.4–146.8 Mb). Calculated feature profiles include the experimental SON TSA-seq data, Lamin B1 TSA-seq data, predicted mean radial positions (RAD), and predicted structural variability (δRAD). b. The same structural feature profiles for a representative example of a short trajectory (chromosome 7 5.4–9.2 Mb). Anchor points (indicated by arrows in both a and b) are defined by extreme average radial positions (interior for speckle anchor and exterior position for lamina anchor points) as well as high SON TSA-seq and lamin B1 TSA seq values. c. Schematic illustration of short and long chromatin trajectories with speckle and lamina anchor points and two hypothetical chromatin conformations connecting the anchor points. Chromatin trajectories are defined as consecutive chromatin sequence regions between a speckle and nearest lamina anchor points. d. Box plots of radial structural variability (δRAD) distributions for chromatin regions in short and long trajectories (Mann-Whitney-Wilcoxon test, two-sided, p-value = 1.48 × 10–18). The box and the middle line in the box show the the interquartile range (IQR = Q3 – Q1) and the median. The vertical lines outside the box extend to a maximum of 1.5*IQR beyond the box. Q1 and Q3 are the lower and upper quartile of the distribution. Outliers are shown as dots. Numbers of regions used in each boxplot for short: 321, for long: 1,929.
