Question: Two-Color Array with Sample in One Color and Reference in Another
0
gravatar for Nifaste
5.6 years ago by
Nifaste20
France
Nifaste20 wrote:

Dear all,

I'm analyzing microarray in which each experimental sample (labeled with Cy5) is hybridized against a common reference sample (labeled with Cy3). Samples were obtained from wild-type and differents mutants. For each sample, i have 6 biological repicates. So finally i've 36 experiments.

In a first time, i've to determine the mRNA expression level in wild-type condition (in order to have a liste of mRNA that are expressed).

I'm little confused, i don't know how to proceed.

The data are stored in a RGList where RGList$R are raw data value for wild-type and RGList$G are raw data for the reference.

In a first step I did :

normalizeVSN(RGList).

And i wanted to start with the A-value .... What do you think about that ?

 

 

microarray bioconductor R • 2.1k views
ADD COMMENTlink modified 5.5 years ago by Biostar ♦♦ 20 • written 5.6 years ago by Nifaste20

If you mention what package you use and show the structure of the data, things might be a lot clearer for people wanting to give an answer.

ADD REPLYlink written 5.4 years ago by olle.nordesjo0
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: 1769 users visited in the last hour