Question: Enhancer distance cutoff
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gravatar for sysbiocoder
2.2 years ago by
sysbiocoder180
sysbiocoder180 wrote:

How far can be the enhancer peaks (H3K27ac) associated with TSS of the protein coding gene. As enhancer can act at long distance, I want to concentrate on Cis-acting enhancers and use it for Geneset enrichment analysis

chip-seq enhancer • 812 views
ADD COMMENTlink modified 2.2 years ago by kristoffer.vittingseerup2.9k • written 2.2 years ago by sysbiocoder180
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gravatar for kristoffer.vittingseerup
2.2 years ago by
European Union
kristoffer.vittingseerup2.9k wrote:

That is a question we cannot answer as there is no max distance. We even know of enhancers that act on different chromosomes - but those are naturally rare events.

From a more practical orientation a possible cold be features within the same TAD (topological associated domain) or features within +/-2e5 nucleotides. Generally I would not suggest going larger than that.

Hope this helps.

Kristoffer

ADD COMMENTlink written 2.2 years ago by kristoffer.vittingseerup2.9k
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