Question: Enhancer distance cutoff
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gravatar for sysbiocoder
6 weeks ago by
sysbiocoder170
sysbiocoder170 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 • 154 views
ADD COMMENTlink modified 6 weeks ago by kristoffer.vittingseerup300 • written 6 weeks ago by sysbiocoder170
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gravatar for kristoffer.vittingseerup
6 weeks ago by
European Union
kristoffer.vittingseerup300 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 6 weeks ago by kristoffer.vittingseerup300
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