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Low UMI count of a sample

Posted By: sg823, on Feb 3, 2019 at 1:24 PM

I have recently obtained single cell RNA sequencing data through 10X genomics technology for 4 of my mice primary samples. The median UMI counts per cell obtained post cellranger count for each of the samples is 8270, 6266, 7488 and 2753. I am wondering whether particularly low UMI count for one of the samples can potentially affect my downstream analysis in any sense? If yes, is there a way I can think of resolving this issue? Please share your experiences in this regard.

 

 

Thank you so much.

Shikha Gupta