<p>A. The genome browser view displays the genomic region around the human GATA3 locus. MBD3 ChIP-seq data is depicted at the upper portion of the panel along with a scale bar. ChIA-PET read pairs derived from GSM970209 are depicted in the lower portion of the panel. B. The genome browser view displays the same genomic region of the GATA3 locus depicted in panel A. The location of the anchor primer is depicted in the upper panel of tracks. The region indicated is expanded in the lower set of tracks to display primer sets around GATA3. The location of EcoRI sites within the region is indicated below the tracks. The gel displays PCR products using the anchor primer in PCR with the indicated primers tiling across GATA3. C. MBD3 read depth was plotted for all genes where Pol II ChIA-PET pairs exist with one end anchored at TSS (see <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1004028#s4" target="_blank">Methods</a>). ChIA-PET pairs were rank ordered by MBD3 density at the TSS end (end 1) and divided into 10 groups. The upper panel depicts MBD3 density for the end 1. The lower panel depicts MBD3 density at the distal end (end 2) of the ChIA-PET pair. D. Metagene plots (see <a href="http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1004028#s4" target="_blank">Methods</a>) of nucleosome occupancy from cells with and without depletion of MBD3.</p
