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Epigenetic Markers Puzzle

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Enhancer-Gene Rules:

  • If the Gene is inactive NO RNA is produced
  • If the Gene is active, it transcribes RNA at LOW levels
  • If the Enhancer is active it increases LOW RNA levels to HIGH levels (it does not activate inactive genes)

It seems that any repressive epigenetic marks turn the region INACTIVE

Enhancer Rules:

  • If the Enhancer has H3K4me1, the enhancer is ACTIVE
  • If the Enhancer has DNA Methylation it is INACTIVE (despite all other rules)
  • If the Enhancer has H3K27ac, the enhancer is ACTIVE
  • If the Enhancer DNA Accessibility is low, it is INACTIVE (despite all other rules)
  • If the Enhancer has H3K27me3 , the enhancer is INACTIVE (despite all other rules)
  • If the Enhancer has H3K4me3, it is not an enhancer

Gene Rules:

  • If the Gene has H3K4me3, the gene is ACTIVE
  • If the Gene has H3K27ac, the gene is ACTIVE
  • If the Gene has DNA Methylation, it is INACTIVE (despite all other rules)
  • If the Gene does not have DNA Accessibility it is INACTIVE (despite all other rules)
  • If the Gene has H3K27me3, it is INACTIVE (despite all other rules)
  • If the Gene has H3K4me1, it is INACTIVE (despite all other rules)

A recent paper suggests that H3K64ac and H3K122ac is also found at ACTIVE enhancers. Could there be more marks we don’t know about?

Gene/Enhancer pair 1:

Gene/Enhancer pair 2:

Gene/Enhancer pair 3:

Gene/enhancer ____ would give the highest level of genetic expression

Which Gene/Enhancer pair(s) would give the highest expression levels?