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Fig. 3 | BMC Genomics

Fig. 3

From: Purification of nanogram-range immunoprecipitated DNA in ChIP-seq application

Fig. 3

Highly correlated ChIP-seq data are generated from the DNAs purified by different purification reagents. a Schematic diagram of the experimental design. b Snapshot image of ChIP-seq results generated with different purification reagents as identified in Fig. 1. ChIP-seq results were visualized in a 542 kb genomic region using the Integrative Genomics Viewer [8, 9]. ENB and ENW indicate the ENCODE dataset from Broad Institute and University of Washington, respectively. St, data generated by our standard ChIP-seq protocol. c Scatter plots showing the correlation between the internal reference ChIP-seq data obtained with standard protocol for the lab (St) and the corresponding datasets generated with different purification reagents. The genome was divided into bins of 5 kb for H3K4me3 and 100 kb for H3K27me3, and the number of mapped reads in the individual bins was calculated. r, Pearson correlation coefficient. Top and bottom panels show H3K4me3 and H3K27me3 ChIP-seq data, respectively

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