How is distal enhancer defined?
1
1
Entering edit mode
2.7 years ago
p4alindromic ▴ 10

How distant to a gene does an enhancer have to be to be called as distal enhancer? Is there an agreed upon distance for this? Quick search on the web did not give me a clear answer.

Thanks!

enhancer • 2.0k views
ADD COMMENT
2
Entering edit mode
2.7 years ago
Viz ▴ 40

Typically a lot of papers set their own boundaries for what they want to define as a distal enhancer, especially when the distance is negligibly large, in the case of this paper:

https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3654767/

they defined distal enhancers with a range of 80kb - 114kb up or downstream since that is what they observed.

While this article:

https://www.nature.com/articles/ng.3884

defines distal as >1kb and proximal <1kb. It depends on the context of what you're doing but typically it's up to the discretion of the researcher once you've reached a large enough distance of around 1 - 2kb upstream.

ADD COMMENT
0
Entering edit mode

I think in the second paper, proximal means promoter and distal means enhancer. I am more interested in classifying an enhancer based on it being relatively close to a gene or quite distant from a gene. What would be an approximate distance threshold then?

ADD REPLY

Login before adding your answer.

Traffic: 2230 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6