Hi,

I am planning to do RNA-seq on bacterial samples collected at different
time points after treatment. I am just wondering, what should be the
control of this series of samples, should it be untreated sample at time 0
right before the treatment, or should it be untreated samples at
corresponding time points? As the RNA-seq cost a good amount of money, I
think "untreated samples at different corresponding time points" would cost
a lot, but which way would make more sense both biologically and
statistically? I will do triplicates for each time point and condition.

I am new to this field so get really confused some time. Thank you very
much in advance!!!

Best,
Nancy

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