SPOT_ID

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14 months ago

Kirstie Wong • 0

Hi everyone. Can I know how to identify gene symbols from SPOT_ID in GEO2R?

SPOT_ID • 1.0k views

ADD COMMENT • link 14 months ago by Kirstie Wong • 0

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This is what GEO platform document says about SPOT_ID:

SPOT_ID Alternative spot identifier - use only when no identifier or sequence tracking information is available. This column is useful for designating control and empty features.

Please provide the GEO platform ID that you are working with if you are asking about specific identifiers.

ADD REPLY • link 14 months ago by GenoMax 141k

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Hi GenoMax.

Here are the few GEO platform ID that I am working with which only generate SPOT_ID without any gene symbol information:

GPL23159
GPL23976
GPL21145

ADD REPLY • link 14 months ago by Kirstie Wong • 0

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Looks like these are Illumina Infinium arrays. You can get their annotation from Illumina.

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL23159 this platform has gene names available if you look in the table.

ADD REPLY • link 14 months ago by GenoMax 141k

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Thank you so much for your information GenoMax

ADD REPLY • link 14 months ago by Kirstie Wong • 0

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