Abstract
ExAtlas is an online, interactive tool for meta-analysis and visualization of gene expression data. Complementing other software tools, ExAtlas compares multicomponent data sets and generates results for all combinations as a table/matrix (e.g., all gene expression profiles vs. all Gene Ontology [GO] annotations). In addition to standard statistical tools (analysis of variance, principal component analysis [PCA], and pairwise comparison), ExAtlas supports meta-analysis of paired samples, global gene set enrichment and overlap, and a new method for assessing global correlation between gene expression profiles. False discovery rate is used in all statistical analyses to account for multiple hypothesis testing. ExAtlas generates output images, including heatmaps, scatterplots, bar charts, and three-dimensional PCA plots. Users can upload their own data and/or extract data from the GEO/NCBI database. Some of the most widely used public data sets (e.g., GNF/BioGPS, BrainSpan, GO, MSIGDB, GAD phenotypes, ENCODE ChIP-seq, and protein-protein interaction) are preloaded, updated, and can be used for functional annotations.
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