Fig. 3: CAP-C association between local chromatin contacts and Pol II activities.

a Correlation between gene chromatin contacts with transcriptional activities. The gene chromatin contact was measured by normalized chromatin contact density per gene. The transcription activity was measured by GRO-seq²² signal enrichment. The correlation between gene chromatin contacts and Pol II activities was 0.39, p value = 8.150194e⁻²²⁴, two-sided Spearman’s rank correlation. b Based on Spearman’s rank correlation, coefficient correlations with significant p values between CAP-C gene chromatin contacts and different histone modifications are shown, two-sided Spearman’s rank correlation. c Meta-profile shows CAP-C interaction signal profiles of highly (pink) and weakly (light blue) transcribed genes, as shown by 10% of the highest (n = 2739) and lowest (n = 2769) transcribed genes, which are calculated using GRO-seq²². mRNAs were aligned by the transcription start site (TSS) and the transcription termination site (TTS). d Correlation between gene chromatin contact and Pol II elongation activity. The gene chromatin contact was measured by normalized chromatin contact density per gene. The Pol II elongation activity was measured by Ser 5p Pol II pNET-seq²². The correlation between gene chromatin contacts and Ser 5p Pol II activities was 0.27, p value < 1.7e⁻³⁰⁸, two-sided Spearman’s rank correlation. Meta-profiles show the CAP-C chromatin contacts signal profile of 10% of the highly (red, n = 10,663) and weakly (blue, n = 10,511) Ser 5p Pol II activities across the (e) 5’SS or (f) the 1st 5’SS, as shown by 10% of the highest (n = 1933) and lowest (n = 1944) Ser 5p Pol II activities.