Nucleic Acids Research, 2002, Vol. 30, No. 1 207-210
© 2002 Oxford University Press
Gene Expression Omnibus: NCBI gene expression and hybridization array data repository
National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Lister Hill Center, 8600 Rockville Pike, Bethesda, MD 20894, USA
The Gene Expression Omnibus (GEO) project was initiated in response to the growing demand for a public repository for high-throughput gene expression data. GEO provides a flexible and open design that facilitates submission, storage and retrieval of heterogeneous data sets from high-throughput gene expression and genomic hybridization experiments. GEO is not intended to replace in house gene expression databases that benefit from coherent data sets, and which are constructed to facilitate a particular analytic method, but rather complement these by acting as a tertiary, central data distribution hub. The three central data entities of GEO are platforms, samples and series, and were designed with gene expression and genomic hybridization experiments in mind. A platform is, essentially, a list of probes that define what set of molecules may be detected. A sample describes the set of molecules that are being probed and references a single platform used to generate its molecular abundance data. A series organizes samples into the meaningful data sets which make up an experiment. The GEO repository is publicly accessible through the World Wide Web at http://www.ncbi.nlm.nih.gov/geo.
* To whom correspondence should be addressed. Tel: +1 301 435 6090; Fax: +1 301 480 2288; Email: alash@nih.gov
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A. J. Garcia-Pineres, A. Hildesheim, L. Dodd, T. J. Kemp, J. Yang, B. Fullmer, C. Harro, D. R. Lowy, R. A. Lempicki, and L. A. Pinto Gene Expression Patterns Induced by HPV-16 L1 Virus-Like Particles in Leukocytes from Vaccine Recipients J. Immunol., February 1, 2009; 182(3): 1706 - 1729. [Abstract] [Full Text] [PDF]
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B. J. Wouters, B. Lowenberg, and R. Delwel A decade of genome-wide gene expression profiling in acute myeloid leukemia: flashback and prospects Blood, January 8, 2009; 113(2): 291 - 298. [Abstract] [Full Text] [PDF]
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T. Barrett, D. B. Troup, S. E. Wilhite, P. Ledoux, D. Rudnev, C. Evangelista, I. F. Kim, A. Soboleva, M. Tomashevsky, K. A. Marshall, et al. NCBI GEO: archive for high-throughput functional genomic data Nucleic Acids Res., January 1, 2009; 37(suppl_1): D885 - D890. [Abstract] [Full Text] [PDF]
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M. K. Shirra, R. R. McCartney, C. Zhang, K. M. Shokat, M. C. Schmidt, and K. M. Arndt A Chemical Genomics Study Identifies Snf1 as a Repressor of GCN4 Translation J. Biol. Chem., December 19, 2008; 283(51): 35889 - 35898. [Abstract] [Full Text] [PDF]
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A. J. Galliher-Beckley, J. G. Williams, J. B. Collins, and J. A. Cidlowski Glycogen Synthase Kinase 3{beta}-Mediated Serine Phosphorylation of the Human Glucocorticoid Receptor Redirects Gene Expression Profiles Mol. Cell. Biol., December 15, 2008; 28(24): 7309 - 7322. [Abstract] [Full Text] [PDF]
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K. Papp, P. Vegh, K. Miklos, J. Nemeth, K. Rasky, F. Peterfy, A. Erdei, and J. Prechl Detection of Complement Activation on Antigen Microarrays Generates Functional Antibody Profiles and Helps Characterization of Disease-Associated Changes of the Antibody Repertoire J. Immunol., December 1, 2008; 181(11): 8162 - 8169. [Abstract] [Full Text] [PDF]
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Y. Zhu, S. Davis, R. Stephens, P. S. Meltzer, and Y. Chen GEOmetadb: powerful alternative search engine for the Gene Expression Omnibus Bioinformatics, December 1, 2008; 24(23): 2798 - 2800. [Abstract] [Full Text] [PDF]
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K. Lemuth, T. Hardiman, S. Winter, D. Pfeiffer, M. A. Keller, S. Lange, M. Reuss, R. D. Schmid, and M. Siemann-Herzberg Global Transcription and Metabolic Flux Analysis of Escherichia coli in Glucose-Limited Fed-Batch Cultivations Appl. Envir. Microbiol., November 15, 2008; 74(22): 7002 - 7015. [Abstract] [Full Text] [PDF]
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S. Druyan, J. E. de Oliveira, and C. M. Ashwell Focused Microarrays as a Method to Evaluate Subtle Changes in Gene Expression Poult. Sci., November 1, 2008; 87(11): 2418 - 2429. [Abstract] [Full Text] [PDF]
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Y. Wang, W.-Z. Zhang, L.-F. Song, J.-J. Zou, Z. Su, and W.-H. Wu Transcriptome Analyses Show Changes in Gene Expression to Accompany Pollen Germination and Tube Growth in Arabidopsis Plant Physiology, November 1, 2008; 148(3): 1201 - 1211. [Abstract] [Full Text] [PDF]
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N. L. Ben Zakour, D. E. Sturdevant, S. Even, C. M. Guinane, C. Barbey, P. D. Alves, M.-F. Cochet, M. Gautier, M. Otto, J. R. Fitzgerald, et al. Genome-Wide Analysis of Ruminant Staphylococcus aureus Reveals Diversification of the Core Genome J. Bacteriol., October 1, 2008; 190(19): 6302 - 6317. [Abstract] [Full Text] [PDF]
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J.-F. Wu, Y. Wang, and S.-H. Wu Two New Clock Proteins, LWD1 and LWD2, Regulate Arabidopsis Photoperiodic Flowering Plant Physiology, October 1, 2008; 148(2): 948 - 959. [Abstract] [Full Text] [PDF]
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T. L. Weir, V. J. Stull, D. Badri, L. A. Trunck, H. P. Schweizer, and J. Vivanco Global Gene Expression Profiles Suggest an Important Role for Nutrient Acquisition in Early Pathogenesis in a Plant Model of Pseudomonas aeruginosa Infection Appl. Envir. Microbiol., September 15, 2008; 74(18): 5784 - 5791. [Abstract] [Full Text] [PDF]
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A. R. Soliera, M. R. Lidonnici, G. Ferrari-Amorotti, M. Prisco, Y. Zhang, R. V. Martinez, N. J. Donato, and B. Calabretta Transcriptional repression of c-Myb and GATA-2 is involved in the biologic effects of C/EBP{alpha} in p210BCR/ABL-expressing cells Blood, September 1, 2008; 112(5): 1942 - 1950. [Abstract] [Full Text] [PDF]
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W. F. Tam, T.-L. Gu, J. Chen, B. H. Lee, L. Bullinger, S. Frohling, A. Wang, S. Monti, T. R. Golub, and D. G. Gilliland Id1 is a common downstream target of oncogenic tyrosine kinases in leukemic cells Blood, September 1, 2008; 112(5): 1981 - 1992. [Abstract] [Full Text] [PDF]
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H. Rehrauer, S. Schonmann, L. Eberl, and R. Schlapbach PhyloDetect: a likelihood-based strategy for detecting microorganisms with diagnostic microarrays Bioinformatics, August 15, 2008; 24(16): i83 - i89. [Abstract] [Full Text] [PDF]
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