Fig. 5: Biological validation of EmbedTAD using different ChIP-seq signal data. | Communications Biology

Fig. 5: Biological validation of EmbedTAD using different ChIP-seq signal data.

From: EmbedTAD Using Graph Embedding and Unsupervised Learning to Identify TADs from High-Resolution Hi-C Data

Fig. 5

Visualization of EmbedTAD identified TADs on A GM12878 chromosome 19 and B CH12LX chromosome 18 at 10Kb resolution with different ChIP-seq signals (CTCF, RAD21, SMC3, H3K27ac, H3K27me3, H3K4me1, H3K4me3, and H3K9me3) from 50Mb to 54Mb region. The observed TADs' enrichment with these proteins has been supported by the visualization of Hi-C interactions in conjunction with ChIP-seq results. We observed that repressive marks like H3K9me3 are not enriched around TADs, while active enhancers like H3K27ac and gene body markers like H3K4me3 are.

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