Fig. 1
From: DNA replication and repair kinetics of Alu, LINE-1 and satellite III genomic repetitive elements
Genomic features of repetitive DNA elements. Spearman’s rho correlation matrix. The number of each repetitive DNA element copies, or the amount of a given genomic feature is counted in each 10 kb genomic interval. The correlation coefficient is calculated for comparison of repetitive DNA elements with GC content (a), histone modifications (from HeLa, ENCODE tier 2) or genic regions (b) and replication timing from Repli-Seq data (HeLa, ENCODE tier 2) [31] (c). Data are from > 290,000 genomic intervals. For each correlation, P < 2.2 × 10−16. In a, Topo(…): from left to right, topoisomerase I consensus sequences at decreasing GC content. Highlighted Alu and L1 repetitive elements are arbitrarily chosen to define chromatin compartments with opposing chromatin features, and are further investigated in FISH experiments. d Correlation matrix of histone modifications and replication timing in HeLa cells, for L1-rich (> 10 counts per genomic interval) L1-poor (> 1 count per genomic element) genomic regions