The Reference Epigenome Mapping Consortium has been working to improve epigenomic assays, generate reference epigenomic maps, and use them to understand gene regulation, differentiation, reprogramming, and human disease (see http://www.roadmapepigenomics.org/publications). This paper constitutes the first integrative analysis of all the reference epigenomes generated by the consortium, and represents an early component of the International Human Epigenome Consortium (http://ihec-epigenomes.org/) which seeks to extend such epigenomic maps to more than a thousand reference human epigenomes93.