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Compare different genes??

Compare different genes?? - Real-Time PCR and Quantitative PCR Forum

Compare different genes?? - Real-Time PCR and Quantitative PCR Forum


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Old 04-24-2009, 01:07 AM
Pipette Filler
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Default Compare different genes??



I have run qpcr on two different genes from the same family and I want to compare their levels to each other. I have normalized their expression values using GAPDH and eEF1e1 based on geNorm.

The problem I am having is whether or not I can arbitrarily set one time point from one gene to be 1 and then use the same factor to adjust the other gene? Does that make any sense?

Ex: The normalized 2CT value for gene A is 2.71x10^-11 and for the same time point gene B's normalized 2CT value is 1.35x10^-8. Can I divide them both by 2.71x10^-11 and say that gene B is expressed ~500x more than gene A? (Note: Gene B is well documented as being highly expressed and gene A is well documented as being very lowly expressed, so 500x more is expected)

Do I need to calculate in the efficiency of the PCRs to account for the fact that different products are being amplified? If so, how do I do that? Is there a paper I can read to help me out?

Thank you SO MUCH!!
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Old 01-18-2012, 08:08 PM
Pipette Filler
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Default Re: Compare different genes??

PCR efficiency has negligible effect. But try also Normfinder, both are available in eg. GenEx
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