The great majority of polymorphisms associated with human inflammatory diseases are located in non-coding regions of the genome. These findings suggest that DNA regulatory elements, along with approximately 10,000 long non-coding RNAs and microRNAs expressed in these extensive genomic regions, have evolved to precisely regulate gene expression in a time- and cell-specific manner. Moreover, this indicates that dysfunction in these regulatory mechanisms plays a crucial role in the development of chronic inflammatory diseases. Therefore, my research program employs emerging genome-scale methods to elucidate how factors such as diet, allergens, or the microbiota influence immune responses by activating specific non-coding RNAs or DNA regulatory elements, and to determine how dysregulation of these processes contributes to inflammatory diseases, with the ultimate goal of developing highly specific immunotherapies.