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
From: Network reconstruction for trans acting genetic loci using multi-omics data and prior information
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 |