Is there a list of mouse housekeeping genes available to download?
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6.1 years ago
Marigold77 ▴ 30

Hello everyone,

I have searched though BioStars and although many threads ask about list of housekeeping genes, no answer can be found. So I'm taking the liberty of asking again: in there a comprehesive list of housekeeping genes in mouse availabkle to view or download?

Basically, I want to be aware of which genes are housekeeping genes when looking at my RNa-seq data, because I'm doing a very exploratory research qualitatively assesing potential interesting genes (guided by data from another experiment).

any help appreciated,

Ola

RNA-Seq next-gen genome sequencing gene • 8.8k views
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thanks a lot!

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6.1 years ago
User 59 13k

No, becuase there is no good definition of a 'housekeeping gene'.  In fact most commonly used 'housekeeping' genes vary wildly in expression based on tissue type etc.

Following references liberally lifted from : https://cofactorgenomics.com/6-changes-thatll-make-big-difference-rna-seq-part-3/ to illustrate the problem

http://www.ncbi.nlm.nih.gov/pubmed/15680211

http://www.ncbi.nlm.nih.gov/pmc/articles/PMC1609175/

The following reference may be of interest however for specific mouse targets:

http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0000898

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2.1 years ago

You can find in the database "Housekeeping Transcript Atlas" reliable lists of human and mouse housekeeping genes. Link: http://www.housekeeping.unicamp.br. These lists were produced using a large and high quality RNA-seq data set. You can also access from the platform cell specific reference genes for expression normalization.

http://www.housekeeping.unicamp.br/?homePageMouse http://www.housekeeping.unicamp.br/?homePageHuman

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11 months ago
brianpenghe ▴ 50

Now universal housekeeping genes across 17 tissues have been summarized by this paper and can be downloaded here

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