Figure 3. TTR-present replication domain boundaries separate permissive and repressed chromatin domains.
a, b, Probability density functions for chromatin features and replication timing across mESC TTR-present replication domain boundaries. c, Chromatin states across the same boundaries. d, True versus predicted classification rates comparing the predicted classes of an unsupervised model trained on binding profiles for seven transcription factors (CTCF, HCFC1, MAFK, P300, RNA Pol II, ZC3H11A, and ZNF384) versus actual replication timing for all mESC TADs. TADs considered ‘early’ by replication timing predominantly composed class A, whereas ‘TTR’ and ‘late’ TADs predominantly composed class B. TFBS, transcription factor binding sites data.