Fig. 5

Basal and IFNγ-induced looping at SOCS1. a A schematic view of the SOCS1 locus. Circles indicate the SOCS1 promoter (purple), putative remote enhancers (red), and negative control sites (blue), with distances from the TSS (red arrow) indicated above in kb, while fragments used in 3C assays with primers (black arrowheads) are shown below. b Cross linking frequencies between the promoter and remote sites across the SOCS1 locus. Quantitative 3C was performed with chromatin from HeLa cells left untreated or exposed to IFNγ for 6 h. Bar graphs show the crosslinking frequency of a selected number of interactions. Underlined interactions were published previously [8]. Marked interactions (*^{, †, ‡}) are significantly different at the indicated comparisons (p < 0.05, ANOVA followed by Fisher test, mean ± SD, n = 3). c Summary of looping events. Interacting sites and DNA strands are colored as in a. STAT1/IRF1 (green/red dots) and Hac/H3K4me2 (green/gray diamonds; data from Fig. 6c) are also depicted