Question: (Closed) Meta-Analysis chip-seq data
1
gravatar for Brice222
3.4 years ago by
Brice22230
Brice22230 wrote:

Hello all.

Can I do Meta-Analysis by CHIP-seq data with different antibodies??????

Thanks a lot

ADD COMMENTlink modified 3.4 years ago by Rory Stark790 • written 3.4 years ago by Brice22230
1

What do you define as a "meta-analysis"?

ADD REPLYlink written 3.4 years ago by John12k
1

i want to (meta-analysis) find Important peak in samples

ADD REPLYlink written 3.4 years ago by Brice22230
2

No one is gonna answer your question correctly if you use a vague term. Meta literally means anything.

ADD REPLYlink written 3.4 years ago by datascientist28470

i want getting, the important common peaks in different experiments chip-seq

ADD REPLYlink written 3.4 years ago by Brice22230

You need to add more information. Describe your experiment. What does "important" mean?

ADD REPLYlink written 3.4 years ago by WouterDeCoster44k
1

Hello Brice222!

Questions similar to yours can already be found at:

We have closed your question to allow us to keep similar content in the same thread.

If you disagree with this please tell us why in a reply below. We'll be happy to talk about it.

Cheers!

ADD REPLYlink written 3.4 years ago by WouterDeCoster44k
1
gravatar for Rory Stark
3.4 years ago by
Rory Stark790
University of Cambridge, Cancer Research UK - Cambridge Institute
Rory Stark790 wrote:

What's "important" depends on the biological quesiton.

If your experiment is properly designed with replicates, you can do a differential analysis to find the peaks that are significantly differentially bound between conditions (eg different antibodies). The DiffBind package in R/Bioconductor does this and has a step-by-step tutorial. You can also do simple overlaps (venn diagrams) to find peaks in common or peaks unique to a condition, but you can't get confidence statistics for this.

-R

ADD COMMENTlink written 3.4 years ago by Rory Stark790
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