Question: How to treat data with three biological replicates

1

mengmpp •

**10**wrote:Hi all,

for each point (control and treatment), I have two more biological replicates, like ,control: A0,A3,A6, treatment:A1,A4,A7. After normalized with RPKM, I got a set of data with log2(A10/A0), P-value, FDR; log2(A4/A3), P-value, FDR; and log2(A7/A6), P-value, FDR. After that, I found common genes which consistently expressed in three replicates. That is main aim I want to extract. OK, the problem is for these common gene, they have three set of data, how can I assemble to one set?

Thanks a million.

10Whch method/tool did you use to get the P-value or FC ? I think you have treated them as individual samples rather than replicates.

10kYes, I got these data from company, I think they treated them as individual samples.

For Quantification of gene expression, use RPKM algorithm,

for Screening of differentially expressed genes,use Poisson distribution model

for Screening of group differentially expressed genes, use NOIseq method

10Just try it urself with DESeq/edgeR. They are well documented.

10k@mengmpp did you find a solution for this ? I am facing the same problem

200