Gene Expression Omnibus

Gene Expression Omnibus http //www.ncbi.nlm.nih. gov/geo/ Gene expression and array database... 

Edgar R, Domrachev M, Lash AE (2002) Gene expression omnibus NCBI gene expression and hybridization array data repository. Nucleic Acids Res 30 207-210... 

Public repositories of microarray gene expression data have been developed to store the results of array experiments ArrayExpress (32) in Europe, Gene Expression Omnibus (GEO) in the United States (33), and the Center for Information Biology Gene Expression Database (CIBEX) (34) in Japan. Many journals already require an accession number (indicating that a data set has been submitted to one of these public databases) prior to publication. 

Gene expression profiling is an approach to identify dys-regulated genes in response to drug treatment. Data are available through public repositories, the Gene Expression Omnibus at NIH (http //www.ncbi.nlm.nih.gov/geo/) and the ArrayEx-press at EBI (http //www.ebi.ac.uk/microarray-as/ae/). 

List of Abbreviations CD/MRV, Common Disease/Multiple Rare Variants DAAO, D-amino acid oxidase DAOA, D-aminoacid oxidase activator EST, expression sequence tag GEO, Gene Expression Omnibus MAF, minor allele frequency NIMH, National Institute of Mental Health NMDA, N-methyl D-aspartate RT-PCR, reverse transcription-PCR... 

Barrett T, Edgar R (2006) Gene expression omnibus microarray data storage, submission, retrieval, and analysis. Methods Enzymol 411 352-369... 

Public repositories that adhere to academic or industry standards and are designed to be used by many analysis applications and groups. A good example of this is the Gene Expression Omnibus from the NCBI (http // www.ncbi.nlm.nih.gov) (75) or Array Express from the EBI (http //www. ebi.ac.uk) (76). 

The importance acquired by the microarray technology and its input to the research community can be illustrated by browsing at the best-known expression data repository, the Gene Expression Omnibus (GEO http //www.ncbi. nlm.nih.gov/geo/) (28). For example, in mid-2013 the array model Human Genome U133 Plus 2.0 of Asymetrix (entry GPL570) accounts for 82,767 hybridized samples, distributed by 3093 data series. 

Following publication, large-scale data can be uploaded to search data repositories. The two most popular are arrayExpress and the Gene Expression Omnibus (GEO). Community-generated data stored in ArrayExpress and GEO, maintained by the European Bioinformatics Institute and the National Center for Biotechnology Institute, respectively, are searchable and readily available for download and analysis. Verification analyses can be performed using these previously published datasets. 

NCBI Gene Expression Omnibus SAGEmap xProfller... 

With large public resources of microarray easily available, primarily ArrayEx-press and the Gene Expression Omnibus (GEO), a new era is dawning on mieroarray analysis. One of the approaches concerns combining information... 

Our data indicate that the formation of somatic globular embryos is accompanied by the accumulation of storage protein transcripts. Figure 9.6 illustrates that transcripts for the synthesis of gibberellic acid also accompany the formation of somatic embryos. These microarray hybridizations experiments have been entered into the GEO (Gene Expression Omnibus) database of NCBI at http //www.ncbi.nlm.nih.gov/geo. For complete details on interpretation of the data, see Thibaud-Nissen et al ... 

GEO Gene Expression Omnibus A high-throughput gene expression data repository http //ncbi.nlm.nih.gov/geo... 

Davis, S. and P S. Meltzer. 2007. GEOquery A bridge between the Gene Expression Omnibus (GEO) and BioConductor. Bioinjbrmatics 23 1846-1847. 

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