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Old 09-20-2017, 01:53 AM   #1
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Location: Hong Kong

Join Date: Dec 2016
Posts: 1
Default 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! is offline   Reply With Quote

deg, rna-seq

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