Question: Human 450K methylation data: Tumor vs Normal vs Control
1
gravatar for arpit.singh1203
4.1 years ago by
India
arpit.singh120360 wrote:

Hello

I intend to use Infinium/Illumina 450K human methylation array data in cancer studies. I need to understand if data for normal sample is required? I am planning to download data from tcga (where normal data isn't available).

Also another basic doubt is "if the normal and tumor sample is mixed when loading onto the slide"?

cancer tcga dna methylation • 2.1k views
ADD COMMENTlink modified 2.7 years ago by Biostar ♦♦ 20 • written 4.1 years ago by arpit.singh120360
2
gravatar for Sean Davis
4.1 years ago by
Sean Davis25k
National Institutes of Health, Bethesda, MD
Sean Davis25k wrote:

Tumor and normal are not hybridized on the same slide.  Whether or not you need normal is not a question of bioinformatics, but of biology.  In other words, you need to define what questions you are going to address.  If those questions include comparison to normals, you will need normals.

ADD COMMENTlink written 4.1 years ago by Sean Davis25k

For studying methylation changes in a disease, comparison to "normal" is required. Is that right?

Also to find the differentially methylated regions, "normal" or "control" must be required. Please correct me if I am thinking in a wrong direction.

ADD REPLYlink written 4.1 years ago by arpit.singh120360
1

What is the biological question?  

ADD REPLYlink written 4.1 years ago by Sean Davis25k

I get your point. Thank you.

ADD REPLYlink written 4.1 years ago by arpit.singh120360
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 2.3.0
Traffic: 1426 users visited in the last hour