Hi all, I am planning the time-course RNAseq study. Obviously, I am interested in max number of time-points, but I am limited by number of samples I can afford
So, options are
A. 3 biol reps X 2 time-points
B. 2 biol reps X 3 time-points
C. 1 biol reps X 6 time-points
Some extra info:
- I am not planning "Nature" article... thx for applause it is a kind of in-house experiment
- I am interested, first of all, in a few dozens of genes, so I can test some of them by qPCR to be sure that my biol reps are identical (for each time-point) before NGS. I've studied the same kind of model before and biol reps were 99.999% identical in terms of expression
Option A is traditional, but I think (and I am biased towards) that with option C I will be able to use something like genome-scale correlation analysis to group genes into co-expressed cohorts much more effectively than in var.A
Any strong cons against option C?
PS there were couple of similar questions before... with no answers
So, options are
A. 3 biol reps X 2 time-points
B. 2 biol reps X 3 time-points
C. 1 biol reps X 6 time-points
Some extra info:
- I am not planning "Nature" article... thx for applause it is a kind of in-house experiment
- I am interested, first of all, in a few dozens of genes, so I can test some of them by qPCR to be sure that my biol reps are identical (for each time-point) before NGS. I've studied the same kind of model before and biol reps were 99.999% identical in terms of expression
Option A is traditional, but I think (and I am biased towards) that with option C I will be able to use something like genome-scale correlation analysis to group genes into co-expressed cohorts much more effectively than in var.A
Any strong cons against option C?
PS there were couple of similar questions before... with no answers
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