Hi all friends,
I have done a de novo transcriptome assembly of a non-model plant (no reference genome is available) and some analysis to get differentially expressed genes (DEG) with different packages, but I don't know which analysis lead me to more biologically meaningful DEG gene list. I was wondering how we can obtain the biologically meaningful interpretation from DEG? one answer may be GO analysis, but the output of this analysis is general, not specific and not much helpful at least for a non-model organism, like my case. Please let me know your experience on this issue.