02 January 2024 2 9K Report

I am comparing two different cell lines (LN229 and HA), LN229 as target sample and HA as reference sample. If I do the 2^-(ΔΔCt) method as LN229 - HA some genes get a fold change value of 41 and 89. But when I use the 2^(ΔΔCt) I get 0.02 and 0.01 respectively. Which is the correct method here?

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