If one needs to compare the expression levels of a particular gene experimentally (molecular method, not omics approach), can there be a reliable method to measure it? What kind of control can be used?
It sounds like RNA extraction, reverse transcription and qPCR will be the best approach for you.
The first two steps come in various kits, Qiagen is always good. The third will require some master mix of choice and custom primers for your genes of interest.
You will use no treatment controls, no template controls and housekeeping gene controls. You can also use dye controls to account for pipetting error if you want.
Any one of them, GAPDH, beta-actin, and beta-tubulin, you can use as mRNA endogenous/housekeeping gene control for normalization. Untreated control and NTC (No template control) could all be your controls to check the difference in the expression of any gene between the sample condition.
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