Statistcal Effectnof Using Pooled Samples For Rna Seq
We have RNA seq data with three biological replicates for both control and treatment. Due to the nature of the experiment, each biological replicate is actually a pool of material from 30 different individuals. Does this alter which algorithms are best to detect differential gene expression between the samples since I would expect that our design greatly reduced stochastic variation (there is very little variation in expression Among biological replicates for genes expressed highernthan 1 RPMK)
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@mkd: Out of curiosity, does this mean that your three replicates span a pool of 90 different people? Or are you constructing three different libraries from the same pool of 30 people?