Hello all,
I have an experiment in which I have 3 time-points, (T=0, T=1, and T=2) and two strains of a moth species. The two species differ in a physiological response to a stimulus that is applied right before T=1, T=0 is before the stimulus, and T=2 is a few days after. One strain reacts right away and the other does not. My question is, what genes are different between the two strains at each time-point?
Here is the design:
condition strain
D E
D E
D E
D E
D E
D1 E
D1 E
D1 E
D1 E
D1 E
D7 E
D7 E
D7 E
D7 E
D7 E
D Z
D Z
D Z
D Z
D Z
D1 Z
D1 Z
D1 Z
D1 Z
D1 Z
D7 Z
D7 Z
D7 Z
D7 Z
D7 Z
My initial thought was to do pairwise comparisons of each of the 3 time-points between each strain but then a lab-mate brought up the problem of multiple-testing. My question is, will this be an issue? Or should I try and use a model? I will probably wind up subtracting the DE genes at T=0 from all DE gene lists because we are suggesting that these are due to population divergence. Any thoughts??
Thanks in advance for any help!
I have an experiment in which I have 3 time-points, (T=0, T=1, and T=2) and two strains of a moth species. The two species differ in a physiological response to a stimulus that is applied right before T=1, T=0 is before the stimulus, and T=2 is a few days after. One strain reacts right away and the other does not. My question is, what genes are different between the two strains at each time-point?
Here is the design:
condition strain
D E
D E
D E
D E
D E
D1 E
D1 E
D1 E
D1 E
D1 E
D7 E
D7 E
D7 E
D7 E
D7 E
D Z
D Z
D Z
D Z
D Z
D1 Z
D1 Z
D1 Z
D1 Z
D1 Z
D7 Z
D7 Z
D7 Z
D7 Z
D7 Z
My initial thought was to do pairwise comparisons of each of the 3 time-points between each strain but then a lab-mate brought up the problem of multiple-testing. My question is, will this be an issue? Or should I try and use a model? I will probably wind up subtracting the DE genes at T=0 from all DE gene lists because we are suggesting that these are due to population divergence. Any thoughts??
Thanks in advance for any help!
Comment