User: rproendo

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rproendo0
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Posts by rproendo

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Comment: C: Differentiating between batch and treatment effects in edgeR, DESeq2
... I think we would have to go all the way back to RNA, anyway. ...
written 9 months ago by rproendo0
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Comment: C: Differentiating between batch and treatment effects in edgeR, DESeq2
... Got it -- thanks, Aaron. I have the option of going all the way back to back to RNA and generating all new libraries from scratch for all three populations as a backup, but sequencing new A or B samples is a viable and more attractive option. ...
written 9 months ago by rproendo0
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Comment: C: Differentiating between batch and treatment effects in edgeR, DESeq2
...   Hi, Aaron Thanks for the reply and input. What I didn't mention is that all samples were processed and RNA extracted simultaneously. Although I wouldn't have the ability to parse possible differences in reagents used during extractions, I can at least say that we would be able to generate sequen ...
written 9 months ago by rproendo0
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Differentiating between batch and treatment effects in edgeR, DESeq2
... Hi all, I am a bioinformatics novice and trying to get a handle on both conceptual and technical issues with batch effects in RNAseq datasets and analysis. The context is this: I've done differential expression analyses in an experiment comparing responses to a drug treatment (trt, ctrl) in two po ...
rnaseq edger deseq2 batch effect written 9 months ago by rproendo0 • updated 9 months ago by Aaron Lun24k

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