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A list of human cell cycle genes for Seurat
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15 months ago
Pestudkaru • 20
Munich

Hi!

First of all I apologize if this question has already been asked. I googled the hell out it but couldn't find any help.

So my exact question is: where can I get a list of human cell cycle genes (the more recent the better) with annotations to which part of the cycle they belong to, so that I could use them in Seurat::CellCycleScoring In the vignette they are using mouse genes and if I try to use those genes on my data I get only one of my cells assigned to G2M and the rest are S (1 out of 500!)- so basically it doesn't work. I can use SCRAN package's Cyclone function just fine but principle there seems to be a bit different so I can't just copy the cell cycle info from there to Seurat package. I also found 2-3 pages/databases with lists of cell cycle genes (KEGG for example) but it's just a list of genes and I have no idea which one's are G1/G1/M/S. Has anyone tried using Seurat::CellCycleScoring on human data? How did you do it?

Thank you!

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Thank you genomax but I've already seen both of those links and neither has the complete information I need. Qiagen (and KEGG as well) only has a list of genes that are Cell Cycle related but no information as to which part of the cycle (G1/2,S). And the link to the paper has some helpful information but they were more interested in periodic genes than what part of the cycle any of those genes really was.

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It would be good to add some information about where and how did you generate this list since it seems to be hosted in your personal space without any reference.

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