From: HebbPlot: an intelligent tool for learning and visualizing chromatin mark signatures
Mark | Function | Literature support |
---|---|---|
H2A.Z | Directional around promoters stretching upstream. | Associated with trascription start sites [39] and promoters [36]. |
H2AK5ac | Directional around promoters stretching downstream and weakly associated with coding regions of inactive genes. | – |
H2BK5ac | Directional around promoters stretching downstream. | |
H2BK12ac | Directional around promoters stretching downstream. | – |
H2BK120ac | Associated with high-CpG promoters. | Associated with promoters and CpG islands [36]. |
H3K4ac | Directional around promoters stretching downstream. | Associated with promoters [36]. |
H3K4me1 | Directional around promoters stretching downstream, absent around transcription start sites, and associated with enhancers. | |
H3K4me2 | Directional around promoters stretching downstream and associated with enhancers. | |
H3K4me3 | Directional around promoters stretching downstream, associated with high-CpG promoters, and associated with enhancers — usually weaker than H3K4me1. | Associated with trascription start sites [39], promoters [36, 37, 74, 75], CpG islands [36], and enhancers [36, 39]. |
H3K8ac | Weakly associated with coding regions of active genes. | – |
H3K9ac | Directional around promoters stretching downstream, associated with high-CpG promoters, and associated with enhancers. | |
H3K9me3 | Weakly associated with coding regions of inactive genes, and very weak/absent from enhancers, and very weak/absent from promoters. | |
H3K14ac | Directional around promoters stretching downstream and weakly associated with coding regions of inactive genes. | – |
H3K18ac | Directional around promoters stretching downstream. | – |
H3K23ac | Directional around promoters stretching downstream. | – |
H3K27ac | Associated with high-CpG promoters and enhancers. | Associated with trascription start sites [39], promoters [36, 74], high-CpG promoters [47], CpG islands [36], and enhancers [36, 39]. |
H3K27me3 | Weakly associated with coding regions of inactive genes, very weak/absent from enhancers, and very weak/absent from promoters. | |
H3K36me3 | Associated with coding regions and very weak/absent from enhancers. | Associated with and directional around “transcriped gene bodies" [75]; associated with “transcribed regions” [37] and highly expressed genes [72]. |
H3K79me1 | Directional around promoters stretching downstream and associated with coding regions of active genes. | Associated with promoters active in CD4+ [47] and “transcribed regions” [37]. |
H3K79me2 | Directional around promoters stretching downstream and associated with coding regions of active genes. | Associated with “transcribed regions” [37]. |
H4K12ac | Associated with coding regions of inactive genes — this mark is known in one tissue only. | – |
H4K91ac | Associated with high-CpG promoters. |