A second “expanded” model applicable to 98 epigenomes that also have an H3K27ac ChIP-seq dataset, was learned by virtually concatenating consolidated data corresponding to the core set of 5 chromatin marks and H3K27ac. The model was trained on 40 high quality epigenomes using the same parameters as those used for the primary model (Table S1 - Sheet QCSummary). We trained several models with the number of states ranging from 15 states to 25 states. An 18 state model was used for further analyses (Extended Data 2c) based on similar considerations.
