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Question: Differentiation in GSE and GDS idS
2
gravatar for seemaviriyala
10 months ago by
seemaviriyala • 20
seemaviriyala • 20 wrote:

Why do same GSE IDs like GSE18 have different GEO DataSet (GDS) ID numbers. On what basis you differentiate GDS, GSE and GSM Ids
genome • 565 views
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modified 10 months ago by Sean Davis ♦ 25k • written 10 months ago by seemaviriyala • 20
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gravatar for Sean Davis
10 months ago by
Sean Davis ♦ 25k
National Institutes of Health, Bethesda, MD
Sean Davis ♦ 25k wrote:

Some submissions have undergone a curation process at GEO, giving them a GDS accession. NCBI has not been curating data for several years, so the GDS accessions are historical and now represent a pretty small proportion of the GEO information. A GDS and GSE represent pretty much the same type of data, a collection of samples. A GSM is a single sample in GEO. Therefore, GDS and GSE contain one or more GSMs.
ADD COMMENT • link modified 10 months ago • written 10 months ago by Sean Davis ♦ 25k
1

See also the GEO FAQ.

ADD REPLY • link written 10 months ago by Devon Ryan ♦ 88k

Hi. Sean Davis,

I have already gone though the GEO database, but it doesn't answer my question. In GEOmetadb, I found some unique GDS IDs like GDS15, GDS16, GDS17, GDS18, GDS19, GDS20, GDS21, GDS30 and GDS31 with common GSE ID - GSE18. My question is on what basis are these GDS IDs are common to GSE18. Also, they belong to different GPL IDs like GPL51, GPL52 and GPL53.

ADD REPLY • link written 10 months ago by seemaviriyala • 20

Please read the link in my comment, this is described there.

ADD REPLY • link written 10 months ago by Devon Ryan ♦ 88k

GSE18 has nine different platforms (microarray types). The GDS records each represent one of those microarray types.

ADD REPLY • link written 10 months ago by Sean Davis ♦ 25k
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