Question: Differentiall analysis of chip-deq data
0
gravatar for atsalaki
3.0 years ago by
atsalaki10
atsalaki10 wrote:

I am new to genetics study , i dont completely understand what differentialy analysis of chip-seq data means .Whats the meaning of differentially binding sites in simple words, whats the meaning of word differentiall in biology?Can someone help?Thanks in advance!

chip-seq differentiall • 966 views
ADD COMMENTlink modified 3.0 years ago by Satyajeet Khare1.4k • written 3.0 years ago by atsalaki10
6
gravatar for Satyajeet Khare
3.0 years ago by
Satyajeet Khare1.4k
Pune, India
Satyajeet Khare1.4k wrote:

Different in two conditions.

  1. Protein A binds to promoter A but not promoter B
  2. Protein A binds to promoter A in condition 1 but not in condition 2
  3. Protein A binds but Protein B doesn't to promoter A

These are examples of differential binding.

ADD COMMENTlink modified 3.0 years ago • written 3.0 years ago by Satyajeet Khare1.4k
3

To add to this, the differential part is important; it's not as simple as a binary 'bound/not bound' state, since you are normally assessing DNA isolated from a population of cells which can be in various states depending on the experimental design. So, in effect you are assessing whether there is a significant switch from one state or the other based on the experimental conditions, and what you are measuring is an averaging of the states in that condition. This also underscores the need for experimental replicates.

ADD REPLYlink modified 3.0 years ago • written 3.0 years ago by Chris Fields2.1k
2

And also, its not only in "promoters", it could be anywhere in the genome, especially enhancers.

ADD REPLYlink modified 2.9 years ago • written 3.0 years ago by geek_y9.8k
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