Answers.Body: <p>You probably have red blood cell contamination.  It's probably better to identify which cells they are.  They'll probably cluster away from the cells you are interested in.</p>
  
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Answers.CreationDate: 2020-06-25T18:40:18.930Z
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Answers.Body: <p>They may be B cells, did you analysis if they have b cell marker?</p>
  
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Answers.CreationDate: 2021-06-16T19:14:55.767Z
Answers.LastActivityDate: 2021-06-16T19:14:55.767Z
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Body: <p>In one scRNA-seq sample I encountered the genes: Hbb-bs, Hba-a1 and Hba-a2. These genes appear on top of the list of the highest expressed genes but the 75% percentile of cells have very low counts. Therefore the expression is highly skewed.</p>
  <p><a href="https://i.sstatic.net/D6ptW.png" rel="nofollow noreferrer"><img src="https://i.sstatic.net/D6ptW.png" alt="enter image description here" /></a></p>
  <p>Reading from <a href="https://www.genecards.org/cgi-bin/carddisp.pl?gene=HBB&amp;keywords=hbb-bs" rel="nofollow noreferrer">gene cards</a>, they appear to be coding hemoglobin subunits and involved in oxygen transport. I think they may need to be removed before normalization, also because the analysis I'm running does not consider oxygen transport.</p>
  <p>Has anyone encountered this situation and what do I do?</p>
  
Tags: <gene><scrnaseq>
Title: Hemoglobin subunits genes in scRNA-seq
ThreadText: # Hemoglobin subunits genes in scRNA-seq
  
  (Asked by: username_0 on 2018-08-06)
  
  In one scRNA-seq sample I encountered the genes: Hbb-bs, Hba-a1 and Hba-a2. These genes appear on top of the list of the highest expressed genes but the 75% percentile of cells have very low counts. Therefore the expression is highly skewed.
  
  [![enter image description here](https://i.sstatic.net/D6ptW.png)](https://i.sstatic.net/D6ptW.png)
  
  Reading from [gene cards](https://www.genecards.org/cgi-bin/carddisp.pl?gene=HBB&keywords=hbb-bs), they appear to be coding hemoglobin subunits and involved in oxygen transport. I think they may need to be removed before normalization, also because the analysis I'm running does not consider oxygen transport.
  
  Has anyone encountered this situation and what do I do?
  
  **Tags:** gene, scrnaseq
  
  
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  ## 2 answers
  
  ### Answer by username_1 on 2020-06-25. Score: 2 | Accepted answer
  
  You probably have red blood cell contamination. It's probably better to identify which cells they are. They'll probably cluster away from the cells you are interested in.
  
  
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  ### Answer by username_2 on 2021-06-16. Score: 0
  
  They may be B cells, did you analysis if they have b cell marker?
  
  
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