Gene Expression Omnibus (GEO): Difference between revisions
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Revision as of 21:42, 15 April 2008
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| Link/URL: | |
|---|---|
| What: |
NCBI archive of expression data |
| Who: |
Ron Edgar NCBI |
| Updates: | |
| Upcoming events: | |
| Web Services: | |
| edit table | |
About Gene Expression Omnibus (GEO)
GEO Gene Expression Omnibus (GEO)] is the public repository for high throughput data at NCBI[1][2][3][4][5]. GEO contains
- Microarray and other transcriptome data in MIAME compliant formats
- ChIP-chip data
Content
Content in GEO has data describes as
- Datasets
- Platforms
- Series
- Samples
- Profiles: GEO profiles are expression patterns for specific genes over a dataset.
Using Gene Expression Omnibus (GEO)
The overview of how to use GEO is on the GEO website
Browsing and Searching
GEO can be searched from either the GEO search page or from the Entrez home page (use the pulldown menu to select GEO datasets or GEO profiles).
Usage examples
Add links to additional pages describing success stories here.
Technology
Web Services/API
GEO is queryable through the NCBI EUtils system. Brief documentation is provided at the GEO programmatic access page. Additional query documentation needed.
Discussion
References
See Help:References for how to manage references in EcoliWiki.
- ↑ Barrett, T et al. (2007) NCBI GEO: mining tens of millions of expression profiles--database and tools update. Nucleic Acids Res. 35 D760-5 PubMed
- ↑ Barrett, T & Edgar, R (2006) Gene expression omnibus: microarray data storage, submission, retrieval, and analysis. Meth. Enzymol. 411 352-69 PubMed
- ↑ Barrett, T & Edgar, R (2006) Mining microarray data at NCBI's Gene Expression Omnibus (GEO)*. Methods Mol. Biol. 338 175-90 PubMed
- ↑ Barrett, T et al. (2005) NCBI GEO: mining millions of expression profiles--database and tools. Nucleic Acids Res. 33 D562-6 PubMed
- ↑ Edgar, R et al. (2002) Gene Expression Omnibus: NCBI gene expression and hybridization array data repository. Nucleic Acids Res. 30 207-10 PubMed
External Links
GEO URL http://www.ncbi.nlm.nih.gov/geo/ GEO