Hi everyone,
I have performed RNA-seq from different stages of embryogenesis. Some stages have two, three or four replicates, while some have none. I want to identify a set of genes that I can say are associated with embryogenesis in general - of all stages.
What I have done so far is to use DESeq2 and performed pairwise DE-tests between all the different stages and extracted the significant genes from each test, pooled them and extracted the unique genes. But I am not sure if this is the best way (or even a correct way) to do it. And I guess I should perform some kind of statistical test on my procedure, like permutations or something.
Any advice on how to analyse this data is greatly appreciated.
Thanks,
Jon
I have performed RNA-seq from different stages of embryogenesis. Some stages have two, three or four replicates, while some have none. I want to identify a set of genes that I can say are associated with embryogenesis in general - of all stages.
What I have done so far is to use DESeq2 and performed pairwise DE-tests between all the different stages and extracted the significant genes from each test, pooled them and extracted the unique genes. But I am not sure if this is the best way (or even a correct way) to do it. And I guess I should perform some kind of statistical test on my procedure, like permutations or something.
Any advice on how to analyse this data is greatly appreciated.
Thanks,
Jon
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