Table 1: A comparison of genomic search engine features.

ArrayExpress Oncomine plexDB Genevestigator ArraySearch 1 Website http://www.ebi.ac.uk/gxa/ http://oncomine.org/ http://www.plexdb.org/ https://www.genevestigator.com/ http://ArraySearch.org/ 2 Microarray data source ArrayExpress ArrayExpress, GEO, SMD AtGenExpress, NASCArrays, TAIR, datasets uploaded by plexDB curators AtGenExpress, NCBI GEO, TAIR, ArrayExpress, NASCArrays, other sources … NCBI GEO 3 Species Arabidopsis+others Human Arabidopsis+others Arabidopsis+others Arabidopsis 4 statistical analysis 4.1 Query gene correlation with contrasts No No No No Yes 4.2 Query gene correlation by gene ontology No No No No Yes 4.4 User-defined expression profile query No No No No Yes 4.5 Correlation between query gene/samples No No No No Yes 5 Graphical output of gene coexpression Heatmap Scatter plot Line graph/hierarchical Clustering Line Graph Heatmap/bargraph 6 Output: coexpression scores between query genes No No Yes Yes No 7 References Parkinson et al. [10] Rhodes et al. [5] Wise et al. [4] Hruz et al. [2]