Question: Do we need to estimate effective transcriptome size before sequencing?
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gravatar for gayachit
4.2 years ago by
gayachit200
India
gayachit200 wrote:

Hello everyone

We are thinking of doing whole transcriptome of some plants. I need to know do we need to have an estimate of the effective size of the transcriptome so that we know how much data coverage we need?? If yes, then how to do that? What are the pre-requisite things one should know before RNA-seq? Please help

rna-seq • 1.6k views
ADD COMMENTlink modified 4.2 years ago by Carlo Yague5.0k • written 4.2 years ago by gayachit200
0
gravatar for Carlo Yague
4.2 years ago by
Carlo Yague5.0k
Canada
Carlo Yague5.0k wrote:

Usually the coverage needed is estimated based on the genome size (easier to calculate than transcriptome size).

For instance, this table give crude coverage estimates based on genome size and application (differential expression analysis or transcript discovery).

ADD COMMENTlink written 4.2 years ago by Carlo Yague5.0k

Thanks for the information carlo...

ADD REPLYlink written 4.2 years ago by gayachit200
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