Question

RNA sequencing of two samples

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5.8 years ago

B- for bioinformatics ▴ 30

How I can compare the expression value for two genes in the two samples? & What the measure I can use in the comparison have been arrived at?

sequencing rna-seq • 1.1k views

ADD COMMENT • link 5.8 years ago by B- for bioinformatics ▴ 30

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What kind of data? How many samples? And so on. There are many very good packages with lots of documentation around - like DESeq2 and edgeR - and I feel reading them carefully will answer your questions.

ADD REPLY • link 5.8 years ago by h.mon 35k

score 0 · Answer 1 · 2019-02-21

If you only have 2 samples, there is a minimal amount of things that you can do. You should still normalise them together and then just look at, for example, ratio of expression for your gene of interest. p-values for a 1 vs 1 comparison make little sense - you would be laughed out of the room if you presented p-values for n=2