Differentially expressed genes in monocle pseudotime
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kthapa • 0
@c5447f21
Last seen 4 weeks ago
United States

Hi

I was wondering if there is any way to extract DEGs from monocle pseudotime trajectory. I want to extract DEGs for a particular pseudotime state vs all others. Is there any way to do so?

Thanks!

monocle • 222 views
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@gordon-smyth
Last seen 4 hours ago
WEHI, Melbourne, Australia

You might try the methods in this paper:

Cheng J, Smyth GK, Chen Y (2023). Unraveling the timeline of gene expression: A pseudotemporal trajectory analysis of single-cell RNA sequencing data (version 2). F1000Research 12, 684.

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