Question: Is there any specific quality metrics for lncRNA-seq or miRNA-seq?
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gravatar for zhenyisong
4.4 years ago by
zhenyisong130
China
zhenyisong130 wrote:

I read this thread about Which software do you use for RNA-seq data quality control?. But for lnc RNA-seq or miRNA-seq, what should we carefully plan in the steps of quality control and preoprocessing before we analyze the data?

ADD COMMENTlink modified 4.4 years ago by Devon Ryan89k • written 4.4 years ago by zhenyisong130
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gravatar for Devon Ryan
4.4 years ago by
Devon Ryan89k
Freiburg, Germany
Devon Ryan89k wrote:

I don't think that anything will be fundamentally different for ncRNAs. The only big difference there is one of annotation quality, at least in terms of lncRNA annotations, which aren't currently up to the same quality as mRNA (or even miRNA) annotations. So the difficult part is accurately calling novel lncRNAs, even that's what you have in mind. This is all assuming that you're using a well-annotated model organism, of course.

ADD COMMENTlink written 4.4 years ago by Devon Ryan89k

you mean that researchers use the same quality metrics as mRNA-seq?

ADD REPLYlink written 4.4 years ago by zhenyisong130
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