We are planning to do some F2 mapping project and I'm unsure on how should I perform replicates for the parentals.
The parental strains we use are inbred model strains, and, hence, supposedly genetically uniform. I have two choices on replication:
Which one would make most statistical sense in downstream analysis?
(BTW: Does that also mean it would be appropriate for me to do technical replicates for each of the F2? They are most certainly considered a different treatment individually... This is going to cost us one extra flow cell...?)
The parental strains we use are inbred model strains, and, hence, supposedly genetically uniform. I have two choices on replication:
- Extract from 10 animals of each strain, pool 1ug of their RNA together, and sequence this pooled RNA twice as technical replicates;
- Extract RNA from 2 animals from a parental strain, and perform one sequencing each;
- Extract from 1 animal, and do a technical replicate.
Which one would make most statistical sense in downstream analysis?
(BTW: Does that also mean it would be appropriate for me to do technical replicates for each of the F2? They are most certainly considered a different treatment individually... This is going to cost us one extra flow cell...?)
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