Extended Data Fig. 5: Correlation and overlap of CUT&RUN data in breast cancer cells.
From: Histone H3 proline 16 hydroxylation regulates mammalian gene expression
a, Scatter plot showing the correlation of CUT&RUN replication samples (Rabbit1/2/3). b, Immunoblots for lysates from MDA-MB-231 cells with EGLN2 depletion by different systems. c, Heatmap and averaged plots showing the H3P16oh CUT&RUN signals genome-wide (over ± 5 kb) in MDA-MB-231 cells with EGLN2 sgCtrl or sg13 and sg14 with inducible CRISPR system. d–f, Scatter plot showing the correlation of indicated CUT&RUN replication samples. g, Heatmap showing CUT&RUN peaks for EGLN2, KDM5A and H3K4me3 that overlapped with of H316Poh peaks on genome wide scale (over ± 5 kb). h, Hierarchical clustering of the indicated CUT&RUN datasets based on similarity, with the pairwise Pearson correlation coefficients labeled in the table and depicted by varying color intensities. i, Principal component analysis (PCA) of indicated CUT&RUN datasets. j, Venn diagram showing H3K4me3 solo peaks (n = 8392) and common peaks with H3P16oh (n = 6651). k, l, GREAT (Genomic Regions Enrichment of Annotations Tool) analysis of function of H3K4me3 solo peaks (k) and common peaks with H3P16oh (l). m, Venn diagram showing overlapping of H3P16oh, EGLN2, KDM5A and H3K4me3 peaks (n = 5053). n, Genomic distribution of 5053 common binding peaks from panel m. o, p, Heat map and averaged CUT&RUN signals showing CUT&RUN peaks of KDM5A (o) and H3K4me3 (p) on a genome-wide scale (over ± 5 kb) in MDA-MB-231 with EGLN2 depletion.
