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Fig. 2 | Epigenetics & Chromatin

Fig. 2

From: One-pot universal NicE-seq: all enzymatic downstream processing of 4% formaldehyde crosslinked cells for chromatin accessibility genomics

Fig. 2

Optimization of sonication free enzymatic condition for UniNicE-seq. A Effect of SDS concentrations in Nt.CviPII activity on plasmid DNA. Lane number 10 shows complete digestion of the plasmid DNA in the absence of SDS. B Effect of Triton X-100 in quenching of SDS mediated inhibitory activity of Nt.CviPII. Lane number 13 is the positive control. Triton X-100 concentrations were 1, 0.5, 0.125 and 0.1%, respectively. C Schematic representation of one-pot universal NicE-seq. D Comparison of FRiP scores of one-pot UniNicE-seq 500 cells and UniNicE-seq 25,000 cells. E Genome-wide comparison of accessible chromatin between one-pot UniNicE-seq 500 cells and UniNicE-seq 25,000 cells using sequence read density. F Peak annotation of one-pot UniNicE-seq 500 cells and UniNicE-seq 25,000 cells. G Genome-wide metagene plot of transcription start site (TSS) with ± 2 Kb of flanking region of one-pot UniNicE-seq 500 cells and UniNicE-seq 25,000 cells. H Genome-wide metagene plot of enhancer elements with ± 2 Kb of flanking region following enhancer start (ES) and enhancer end (EE) site of one-pot UniNicE-seq 500 cells and UniNicE-seq 25,000 cells. I Representative IGV genomic tracks of accessible chromatin of one-pot UniNicE-seq 500 cells compared with UniNicE-seq 25,000 cells. Gene names are indicated at the bottom

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