Where can I find mutation status in GEO?

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4 months ago

Bine ▴ 90

Good afternoon,

I have downloaded the gene expression data of this dataset on GEO: GSE196576.

However, according to several papers (e.g. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9093780/) , which use this data there should be information on mutation status available in the metadata, which I dont see.

I download the metadata from GEO via this command: getGEO(GEO="GSE196576",GSEMatrix=FALSE).

I cannot find any information on the mutation status (e.g. KRAS mutation) here.

Can anyone help me with this?

Thanks a lot!

GEO • 286 views

ADD COMMENT • link 3 months ago by Bine ▴ 90

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This info does not appear to be in NCBI sample records (e.g. https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM5889734 ). Best bet may be to see if the paper has this info in a supplemental file.

ADD REPLY • link 3 months ago by GenoMax 147k

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Thank you. I checked in the supplementary, however no information there :(

ADD REPLY • link 3 months ago by Bine ▴ 90

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