EXPANDER (EXpression Analyzer and DisplayER) is a java-based tool for analysis of gene expression and NGS data. It seamlessly integrates in one package all analysis steps, including: Data preprocessing and normalization; Identification of differential genes (including methods suitable for NGS data analysis); Clustering and biclustering; Down-stream enrichment analyses of: GO functional categories; TF binding sites in promoter regions; MicroRNA sites in 3’-UTRs and; Biological pathways and Chromosomal locations; Network-based analysis of the expression data.EXPANDER provides support for analysis of human, mouse, rat, chicken, fly, zebrafish, C. elegans, S. cerevisiae, S. pombe, arabidopsis, tomato, rice, listeria, A. fumigatus and E. coli.