The Epigenetic Logic of Gene Activation

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Dense RNA-seq and ChIP-seq are collected across 12 time points during B‑cell to macrophage transdifferentiation and show that steady‑state correlations overestimate real temporal coupling. Most genes sit in a few stable chromatin states; changes in expression often occur without matching histone changes, and only H3K4 mono/dimethylation precedes expression reliably. Promoter marking generally precedes enhancer marking, so enhancer marks typically follow activation rather than drive it. Data are on ENCODE.

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" chapters (11)

1. 0:00Start
2. 1:15Histone modification levels are predictive of gene expression levels
3. 3:22Is A the cause of B?
4. 3:55RNA-maps: induced transdiferentation from B-cells to macrophages
5. 7:04Correlation between gene expression and histone modifications
6. 9:57A limited number of major chromatin states
7. 14:00Three main modes of association between gene expression and chromatin marking
8. 15:19Correlation between gene expression and chromatin narking is particularly strong at the time of gene activation с
9. 16:28Deciphering the order of chromatin mark deposition
10. 19:49positive correlation between expression and active chromatin marking at enhancers at the time of activation strong effect of a broad epigenetic environment
11. 23:48Conclusions