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How to get Gene symbols from feature number?

I am working on microarray data analysis of B cell (GSE2050). They didn't mention the probe set id,...etc (unique identifier) for gene annotation/gene symbol, they analyze the data through significance analysis of Microarray (SAM) and reported DEG (2937) in the supplementary file as follows [feature number (20,25,81.........), name,....]. I want to identify the gene symbols.

Q1: Can we identify gene symbols from Feature number (20,31,80........)? If yes then how?
Q2: Can I use the supplementary file (excel file) for further analysis and DEG?

I will be highly obliged and waiting for your answers.

rna-seq chip-seq r next-gen gene
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updated by h.mon h.mon • written by Muhammad Haseeb • Muhammad Haseeb

In the methods section of the paper, they mentioned which type of technology they used to generate expression data. You can search How to convert _____ array probes to gene symbols?

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written by venu venu

1 answer

If you search for GSE2050, you will eventually find this page, which shows you the platform was Caltech 16K cDNA Mouse Array. There is even a link at GEO to this platform, where you will find the annotation.

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written by h.mon h.mon

Dear H.Mon, Thank you very much for a nice answer. Actually, my concern is that can I use the differential expressed gene (DEG) supplementary file of this data for further analysis? If yes, then the supplementary file is missing the gene symbols and they mentioned only the feature number and gene name in the supplementary file. There is another file where the gene symbol is mentioned but manually it is hard to copy/paste for DEG 2937 genes one by one. Because they didn't provide unique id/probe id in the supplementary file it's not in order. Can we identify the gene symbols from feature number? I am waiting for your valuable comment. Thank you once again

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written by Muhammad Haseeb • Muhammad Haseeb

Search for GEO bioconductor and you will find lots of material to get you started. A good start could be this page.

However, if by "supplementary file of this data" you mean some supplementary file from a manuscript, I have no idea if it is appropriate for further (unstated) analysis.

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written by h.mon h.mon

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