Go Back   SEQanswers > Bioinformatics > Bioinformatics

Thread Tools
Old 04-28-2020, 12:18 PM   #1
Junior Member
Location: St. Louis

Join Date: Jul 2015
Posts: 4
Default issues with single nuclei sequencing

Hi All,

I am working on a set of single-nuclei sequencing samples. Does someone know why I might be getting a bimodal distribution in one of my samples (both in features/cell and reads/cell)? The modes are very different (1000 genes vs 150 genes). The other samples almost exclusively contain the "small mode" (i.e. ~150 gene mode). I have tried doublet removal which preferentially removes the big mode, but not enough to help. I also tried finding dead/dying cells based on mitochondrial fraction, but (a) it didn't help much and (b) I'm not even sure if that is appropriate for single nuclear samples rather than single cell samples.

Does anyone know what this may be? Is there any way for me to confidently ascertain if this represents real biology?

also, how can I flag disintegrating nuclei in single nuclei sequencing data?

rtyagi is offline   Reply With Quote

scrnaseq, seurat, single cell genomics, single nuclei

Thread Tools

Posting Rules
You may not post new threads
You may not post replies
You may not post attachments
You may not edit your posts

BB code is On
Smilies are On
[IMG] code is On
HTML code is Off

All times are GMT -8. The time now is 05:38 AM.

Powered by vBulletin® Version 3.8.9
Copyright ©2000 - 2021, vBulletin Solutions, Inc.
Single Sign On provided by vBSSO