ArrayExpress update—trends in database growth and links to data analysis tools

作者：Gabriella Rustici, Nikolay N. Kolesnikov, Marco Brandizi, Tony Burdett, Miroslaw Dylag, Ibrahim Emam, Anna Farne, Emma Hastings, Jon Ison, Maria Keays, Natalja Kurbatova, JAMES M. MALONE, Roby Mani, Annalisa Mupo, Rui Pedro Pereira, Ekaterina Pilicheva, Johan Rung, Anjan Sharma, Amy A. Tang, Tobias Ternent, Andrew Tikhonov, Danielle Welter, Eleanor M. Williams, Alvis Brāzma, Helen E. Parkinson, Uğis Sarkans · 发表于：Nucleic Acids Research · 年份：2012 · DOI：10.1093/nar/gks1174 · 被引用次数：379 · 研究领域：Gene expression and cancer classification、Genomics and Phylogenetic Studies、Bioinformatics and Genomic Networks

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.