Fig. 5

HMGN1 and HMGN2 are not highly enriched at active gene promoters. ChIP-PCR assays in control and knockout cell lines. Enrichment of HMGN1 (a) or HMGN2 (b) at each primer set was normalised to the average H3 signal from all primer sets. The graphs present the mean and sd of technical qPCR triplicates from the same IP reaction. Data are representative of 2–3 independent biological replicates. c ChIP-seq for HMGN2 and H3 was performed in undifferentiated and day 3 neuronal induced P19 cells. Reads were aligned to the mm9 mouse genome and regions surrounding the Nanog and Neurog1 loci are shown. Peaks revealed by MACS peak calling software for HMGN2 and H3 are shown as red blocks below the relevant signal track. Positions of the primer sets used for ChIP are indicated. Data for H3K4me3 and H3K27me3 in mouse ES Bruce4 cells was obtained from the UCSC genome browser (http://genome.ucsc.edu; accessions wgEncodeEM001682 and wgEncodeEM002709) [50, 51]. Y-axis maxima are 0.62 for all H3 and HMGN2 tracks, 21 for H3K4me3 and 3.5 for H3K27me3. Similar data for the regions surrounding the Oct4 and Ascl1 loci are shown in Additional file 1: Figure S9