Hi every body,
I want to analyze the results of Cuffdiff.
Cuffdiff has detected 149 significant differential expressed genes.
However, some genes have FPKM=0 (no read has been mapped) or very small FPKM in one condition.
My question is, should I consider those with FPKM=0 or very small FPKM?
Is it biologically possible that one genes does not expressed in one condition and over expressed in another condition?
I am looking forward your comments