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  • mullin.yu@gmail.com
    Junior Member
    • Dec 2016
    • 1
    #1

    Beginner questions on RNA-seq DEG

    Currently, I have the following RNA samples and want to see any up/down-regulated gene expression in proband to explain the disease-causing of the proband.

    Sample1: (Proband) blood
    Sample2: (Proband) fibroblast
    Sample3: (Control person #1) blood
    Sample4: (Control person #1) fibroblast
    Sample5: (Control person #2) blood
    Sample6: (Control person #2) fibroblast
    Sample7: (Control person #3) blood
    Sample8: (Control person #3) fibroblast

    In this case,
    1. Can I do the DEG? Any tool suggested in this case (cuff/DESeq/edgeR)
    2. Can I treat control samples as biological replica of proband?
    3. Is it statistically significant? And any way to improve?

    Thanks a lot!
    Tags: deg, rna-seq
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