qPCR data analysis

Question

[mshubham]

Hi All, We are currently using the Applied biosciences StepOne qPCR system. The software does not give us the SD, SEM, P-value for the expression profile. Is there any package in R, which can do data analysis with all the statistics involved? Please do let me know. Regards, Shubham

Answer 1

[Kevin Blighe]

Hi, I processed a lot of data from this instrument many years ago. You, technically, just need Ct values, from which you can calculate delta delta Ct (ddCt) ad fold-change. If you employ a non-parametric test, that can get p-values for you.

Please see: How to report and plot qPCR data - delta delta Ct

Kevin

[mshubham]

Hi Kevin, I also want to calculate the SD and p-values for the fold change, assuming I have triplicate samples for control and treated with Gapdh and target gene. Please let me know if there is any prewritten code or template available. I would be really grateful to you.