input value for NormFinder analysis

[bsimon]

Hello,
I am going to use normfinder to evaluate the best reference genes (total number of genes=6) in my sample set. I using lightcycler480 to do real time PCR. My question: what is the input for doing normfinder analysis (can we use directly the Cp value?
Also, after reading I understand that the normfinder finds the best stable gene or a combination of gene based on the least variation, and also reports this variation within and in betweeen groups. What other analysis could be performed using Normfinder?

Thank you

[Mikael Kubista]

input values are CP's. I don't recommend trusting the combination of genes based on correlations, since it is very sensitive to experimental error. Better is to calculate the accumulated SD and select optimum number of reference genes based on that. See the tutorial (available on: www.tataa.com):

Tutorial: Choosing a Normalization Strategy for RT-PCR GenEx System Aids in the Selection of Reference Genes for Standardizing mRNA
Measurements. Genetic Engineering & Biotechnology News 28 (2008)

GL