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4.7 years ago
boczniak767
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850
Is there any way to retrieve expression values for a given gene from GEO and ArrayExpress?
The aim is to check if a given gene was expressed in stress conditions in a plant. I imagine I could use gene or probe ID.
I know there are R packages like GEOquery but it doesn't do what I need.
The thing is that arrays offer relative measures so it only shows if a gene is differentially-expressed, not if it is expressed at all. There is the GEO2R option (https://www.ncbi.nlm.nih.gov/geo/geo2r/) for array data that allow a simple and quick comparison between samples of a given dataset to give you a first hint. For anything else I guess you have to download RNA-seq data as this can give information about expression levels rather than a binary statement of DEG/non-DEG.