Table 1.
Description of chromHMM states used in our analyses as given at https://egg2.wustl.edu/roadmap/web_portal/chr_state_learning.html. Boldfaced states were defined as “active transcription” states and used to set CpG-Gene priors
| State no. | Mnemonic | Description |
|---|---|---|
| 1 | TssA | Active TSS |
| 2 | TssAFlnk | Flanking active TSS |
| 3 | TxFlnk | Transcr. at gene 5′ and 3′ |
| 4 | Tx | Strong transcription |
| 5 | TxWk | Weak transcription |
| 6 | EnhG | Genic enhancers |
| 7 | Enh | Enhancers |
| 8 | ZNF/Rpts | ZNF genes and repeats |
| 9 | Het | Heterochromatin |
| 10 | TssBiv | Bivalent/poised TSS |
| 11 | BivFlnk | Flanking bivalent TSS/Enh |
| 12 | EnhBiv | Bivalent enhancer |
| 13 | ReprPC | Repressed polycomb |
| 14 | ReprPCWk | Weak repressed polycomb |
| 15 | Quies | Quiescent/low |