title: ArrayExpress update--trends in database growth and links to data analysis tools.
abstract: The ArrayExpress Archive of Functional Genomics Data (http://www.ebi.ac.uk/arrayexpress) is one of three international functional genomics public data repositories, alongside the Gene Expression Omnibus at NCBI and the DDBJ Omics Archive, supporting peer-reviewed publications. It accepts data generated by sequencing or array-based technologies and currently contains data from almost a million assays, from over 30 000 experiments. The proportion of sequencing-based submissions has grown significantly over the last 2 years and has reached, in 2012, 15% of all new data. All data are available from ArrayExpress in MAGE-TAB format, which allows robust linking to data analysis and visualization tools, including Bioconductor and GenomeSpace. Additionally, R objects, for microarray data, and binary alignment format files, for sequencing data, have been generated for a significant proportion of ArrayExpress data.
authors.affiliation: Functional Genomics Team, EMBL-EBI, Wellcome Trust Genome Campus, Hinxton CB10 1SD, UK. gabry@ebi.ac.uk
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mesh_terms: D030541:Databases, Genetic / Q000706:statistics & numerical data / Q000639:trends; D023281:Genomics; D059014:High-Throughput Nucleotide Sequencing; D020407:Internet; D046228:Microarray Analysis; D012984:Software; D014584:User-Computer Interface