Body: <p>I have been asked by my supervisor to conduct an RNAseq without experimentally depleting the samples. However I am quite unsure regarding how much sequencing depth per sample I would require in order to map a decent percentage of the ORFs if I were to proceed this way.</p>
  
  <p>Has anyone ever done RNAseq w/o depletion and with what results? Would you go on with it or should I make the case for depleting even though it's gonna be more expensive.</p>
  
  <p>Thanks.</p>
  
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2020-03-11T15:56:32.580Z
Comments.Text: Hi and welcome, there's not enough information in your post to allow a comprehensive answer in my opinion. RNAseq of which species is quite key here.
Comments.UserDisplayName: M__
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2020-03-11T21:15:42.197Z
Comments.Text: Did they want you to do poly-A enrichment instead? What is the actual goal? What is the organism?
Comments.UserDisplayName: Devon Ryan
Comments.ContentLicense: CC BY-SA 4.0
Comments.CreationDate: 2020-03-12T09:27:43.583Z
Comments.Text: Hi, I just realized I did not mention I am working with plant **endopythic bacteria**, so no chances of using poly-A enrichment. The species is _Acidovorax facilis_, with the goal of assessing differential expression when exposed to different root exudates.
Comments.UserDisplayName: Roberto Siani
Tags: <rna-seq>
Title: RNAseq without depletion?
ThreadText: # RNAseq without depletion?
  
  (Asked by: username_0 on 2020-03-11)
  
  I have been asked by my supervisor to conduct an RNAseq without experimentally depleting the samples. However I am quite unsure regarding how much sequencing depth per sample I would require in order to map a decent percentage of the ORFs if I were to proceed this way.
  
  Has anyone ever done RNAseq w/o depletion and with what results? Would you go on with it or should I make the case for depleting even though it's gonna be more expensive.
  
  Thanks.
  
  **Tags:** rna-seq
  
  > **Comments:**
  > **username_1**: Hi and welcome, there's not enough information in your post to allow a comprehensive answer in my opinion. RNAseq of which species is quite key here.  
  > **username_2**: Did they want you to do poly-A enrichment instead? What is the actual goal? What is the organism?  
  > **username_0**: Hi, I just realized I did not mention I am working with plant **endopythic bacteria**, so no chances of using poly-A enrichment. The species is _Acidovorax facilis_, with the goal of assessing differential expression when exposed to different root exudates.  
  
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  ## 0 answers
  
  