problem in probeID conversion in Staphylococcus aureus
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4.5 years ago

Dear all,

I want to do functional clustering of large number of co-expressed genes belong to bacterium Staphylococus aureus . I have the transcript Ids of these genes, but unfortunately DAVID functional annotation tool does not recognize them.

I tried to convert these ids using Biodbnet, but it did not work either. ds The ids belong to gpl1339.

Does any body have any idea what should I do?

Thank you in advance

Nazanin

affyId conversion Staphylococcus aureus gpl1339 • 1.2k views
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4.5 years ago
zjhzwang ▴ 180

You can get ID information from GEO database directly.
For your dataset GPL1339, the URL is :
https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?view=data&acc=GPL1339&id=13187&db=GeoDb_blob89

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Thank u. But I had already downloaded this annotation file. When I open gpl1339 in excel, unfortunately gene symbol column is empty and no other columns has gene symbols

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Maybe you can use the second column Protein accession numbers

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