Fig 1.
RAT-ChIP enables genome wide histone modification profiling from 100 cells.
A Overview of RAT-ChIP method. B Agarose gel electrophoresis of DNA after chromatin treatment with a combination of restriction enzymes (middle lane) and after tagmentation (left lane). C UCSC genome browser custom histone H3K4me3 and H3K27me3 tracks of RAT-ChIP-seq with 100 and 1,000 K562 cells in comparison with ENCODE data in a genomic region centred around IL17C gene. D Clustered global Pearson correlation heatmap (enrichments in 5kb windows) of RAT-ChIP-seq and different published histone H3K4me3 and H3K27me3 datasets in K562 cells.
Fig 2.
RAT-ChIP can identify differences in histone modifications between cell-lines.
A UCSC genome browser custom histone H3K4me3 and H3K27me3 tracks of RAT-ChIP-seq with 100 and 1,000 cells in K562 and H1299 cells. B Clustered global Pearson correlation heatmap of histone H3K4me3 and H3K27me3 datasets of K562 and H1299 cells. C Heatmap of histone H3K4me3 signal in K562 and H1299 cells in 4kb region centered around the TSS of 300 genes with either cell type specific or common signal. D Enriched terms of GREAT GO analysis of top 500 peaks differentially enriched between K562 and H1299 cells.
Fig 3.
Histone H3K4me3 and H3K27me3 modification profiles of ICM and TE of blastocyst stage bovine embryos.
A Average histone H3K4me3 (upper panels) and H3K27me3 (lower panels) profiles around TSS of genes that are upregulated in ICM (red line) or TE (black line) in ICM (panels on the left) and TE (panels on the right). B UCSC genome browser custom histone H3K4me3 and H3K27me3 tracks of bovine blastocyst ICM and TE in NANOG (upper) and CDX2 (lower) gene regions.