| Citing the GEO database |
Barrett T, Troup DB, Wilhite SE, Ledoux P, Rudnev D, Evangelista C, Kim IF, Soboleva A, Tomashevsky M, Edgar R.
NCBI GEO: mining tens of millions of expression profiles--database and tools update
Nucleic Acids Res. 2006 Nov 11
Edgar R, Domrachev M, Lash AE.
Gene Expression Omnibus: NCBI gene expression and hybridization array data repository
Nucleic
Acids Res. 2002 Jan 1;30(1):207-10
More GEO publications here.
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| Citing your GEO submission |
"The data discussed in this publication have been deposited in NCBI's Gene
Expression Omnibus (GEO, http://www.ncbi.nlm.nih.gov/geo/) and are
accessible through GEO Series accession number GSExxx."
We strongly recommend that submitters cite their Series accession number because that record summarizes the experiment and includes links to all other
relevant data.
|
| Citing data you find in GEO |
Example: "Smith et al. recently performed microarray experiments investigating effect of compound X on neurons (data accessible at NCBI GEO database, accession number GSExxx; http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSExxx)."
Example: "In March 2008, a search of the GEO Profiles database revealed that Gene X is upregulated in response to compound Y (Dataset GDSxxx) and compound Z (DataSet GDSxxx)."
Also, please see Disclaimer.
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| Linking to GEO accessions |
A specific GEO Platform (GPLxxx), Sample (GSMxxx), or Series (GSExxx)
record may be linked as follows:
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSExxx
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPLxxx
http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSMxxx
where xxx is the numerical part of the accession.
We recommend linking to the Series object because it summarizes the experiment and includes links to all other
relevant accessions.
Example: http://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE6364 |
| Linking to GEO DataSet records |
A specific DataSet (GDSxxx) record may be linked as follows:
http://www.ncbi.nlm.nih.gov/geo/gds/gds_browse.cgi?gds=xxx
where xxx is the numerical part of the accession.
Example: http://www.ncbi.nlm.nih.gov/geo/gds/gds_browse.cgi?gds=2737
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| Linking to Entrez GEO Profiles |
Specific profile(s) can be linked using a query term as follows:
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=geo&term="query term"
Example: http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=geo&term=GDS621+AND+L13606_at
Example: http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=geo&term=dab2[gene+symbol]+AND+human[organism]+AND+dystrophy
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| Linking to Entrez GEO DataSets |
Specific DataSet(s) can be linked using a query term as follows:
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gds&term="query term"
Example: http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gds&term=GDS181+AND+gds[entry+type]
Example: http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=gds&term=Saccharomyces+cerevisiae[organism]+AND+stress
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