Ernst and colleagues (6) recently developed a map of chromatin states, including enhancers, promoters, insulators and heterochromatin, in nine human cell lines based on a variety of histone modifications. Using this map, it was demonstrated that these states can be used to prioritize SNPs within LD blocks associated with disease, and in some cases reveal biologically plausible enrichments for cell type-specific enhancers. Here we present a tool, HaploReg, to systematically mine these chromatin state data, along with conservation data and regulatory motif alterations.
