Abstract: This disclosure relates generally to the prediction of a gene target of an enhancer based on genomic proximity and a comparison to a set of known enhancer-gene pairs. A gene can be selected a gene from a given cell type. A domain can be established bi-directionally around the gene, and enhancers located within the domain can be identified. The enhancers located within the domain can be considered to be in close genomic proximity to the gene. For each enhancer, a test pair of the enhancer and the gene can be established and compared to a set of known enhancer-gene pairs. The prediction can be established based on the comparison and the genomic proximity.