Hi~ I am very new to a biological lab.
Now, I am going to identify DE genes from intestinal samples of health cows and sick cows.
When I extracted the RNA, the tissues I used were different in weight. But when I prepared the library for illumine sequencer, I did adjust the concentration of RNA to a same value, and the same quantity of RNA was used ( I think it was 1ug totally).
Now, the RNA-seq data is back, and I get the read count using htseq-count. Can I use those data directly to identify DE genes using edgeR? Or, should I normalize those data first using a housekeeping gene first?
Could anyone be kind and let know this, if you happen to know the answer? I'd really appreciate that...
Now, I am going to identify DE genes from intestinal samples of health cows and sick cows.
When I extracted the RNA, the tissues I used were different in weight. But when I prepared the library for illumine sequencer, I did adjust the concentration of RNA to a same value, and the same quantity of RNA was used ( I think it was 1ug totally).
Now, the RNA-seq data is back, and I get the read count using htseq-count. Can I use those data directly to identify DE genes using edgeR? Or, should I normalize those data first using a housekeeping gene first?
Could anyone be kind and let know this, if you happen to know the answer? I'd really appreciate that...
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