Is there any location encoding available for the unwrapped DNA?
1
0
Entering edit mode
6.1 years ago

I'm new to this field so I'm not sure if my question makes sense at all. I'd like to cluster SNPs based on their location but the problem is the 3d structure of DNA and the current location encoding which is : chromosome number and position on the chromosome, which makes defining a distance impossible. Is there any unique location encoding available for the whole unwrapped DNA? Thanks.

SNP • 992 views
ADD COMMENT
0
Entering edit mode

The term "unwrapped" usually refers to non-nucleosome-bound DNA, but that doesn't seem to be what you are referring to -- what are you referring to?

ADD REPLY
4
Entering edit mode
6.1 years ago

To start with, I don't think you should see this 3D structure as something static. It's likely dynamic and changing interactions depending on "cellular environment".

You could have a look at TAD databases/browsers, to get an idea of which DNA segments are within an interacting domain. But this is not really a physical distance, more a functional group.

If that's not what you are looking for I'm afraid I misunderstood your question.

ADD COMMENT

Login before adding your answer.

Traffic: 1106 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