Fig. 1: Analysis of TAD-like domains in pds5a/b/c/e.
From: Mutations of PDS5 genes enhance TAD-like domain formation in Arabidopsis thaliana
a Prominent TAD-like structures in pds5a/b/c/e, showcased by a representative 1 Mb genomic region. b Comparison of insulation score profile of a 1 Mb region at chromosome 3 with the corresponding Hi-C map shown on top. The regions showing local insulation score minima indicate strong chromatin insulation. c Genome-wide correlation of insulation scores between different plants. r, Pearson correlation coefficients. d Metagene plots of chromatin interaction patterns in different plants around the loci displaying strong chromatin insulation in pds5a/b/c/e. e Insulation scores in wild-type plants. The category “Insulated” refers to those loci showing strong chromatin insulation in pds5a/b/c/e. *, significant (p = 4.2 × 10−114) according to a two-sided Mann–Whitney U-test. The boxplots depict the data quartiles (first and third), the dashed lines represent individual data points, and the median is indicated by black lines within the boxes. f Size distribution of TAD-like domains in pds5a/b/c/e. The boxplot follows the same format as in (e). g Metagene plot illustrates relative chromatin contact strengths in TAD-like domains identified in pds5a/b/c/e. The flanking regions (100 kb) are also included. The top side shows WT and the bottom side shows mutant. Besides the strong insulation region, the extended signal on the top of the triangle promotes the detection of strong boundaries in pds5a/b/c/e. h Distribution of TSS around pds5a/b/c/e TAD borders (labeled with 0). The right gray side represents the 25 kb within the TAD-like domains, the left side from 0 represents 25 kb of flanking area. Both transcription directions are included. i Chromatin accessibility associated with TAD-like domain borders in pds5a/b/c/e. j Comparison of gene expression in pds5a/b/c/e between genes located at TAD-like domain borders and elsewhere. *, significant (p = 6.2 × 10−13) according to a two-sided Mann–Whitney U-test. The boxplots follow the same format as in (e). Source data are provided as a Source Data file.
