Figure 7.

An example of ChIA-PET mapping display in G-browser. A screenshot of the ChIA-PET G-browser is shown in human chromosome 12 at the keratin gene family region. The tracks are (from top to bottom): UCSC known genes track, which shows the KRT8 and KRT18 genes in blue and green; density histogram of IHH015M self-ligation PETs, which consists of AA and BB PET sequences, wherein peaks indicate enriched ERα-binding sites; intra-chromosomal inter-ligation PETs of IHH015M, wherein multiple overlapping inter-ligation PETs indicate interactions and singleton inter-ligation PETs indicate noise; density histogram of IHH015C self-ligation PETs that consists of only chimeric (AB) PET sequences; intra-chromosomal inter-ligation PET tracks of IHH015C. From the graph, we know that IHH015M contains binding sites and interactions, and IHH015C does not, although both libraries have similar sequencing depth.