Table 1.

Definition of TEs and SEs and comparison of associated features.

Parameter	Typical Enhancer (TE)	Super-Enhancer (SE)
Length (Size)	~1500 bp on average	≤12.5 kb between constituent TEs, ten of kilobases long
Constitution	Detached region	Multiple enhancer regions—constituent TEs
Histone marks	H3K4me1—● * H3K4me3—∅ * H3K27ac—● *	H3K4me1—● * H3K4me3—? * H3K27ac—●●● *
Transcription complexes	Mostly bound by small amounts (usually—one) of TFs and Mediator	Reacher in TFs (BRD4, CDK7, p300, CBP) and Mediators, also bound by numerous co-regulators, might involve several RNAP II complexes
Relative transcriptional output	Mostly acting in cis Moderate transcription levels—●/●● *	Might be acting in trans as well as in cis Higher transcription levels—●●●● *
Bioinformatical identification approaches	ChIP-seq data analysis Gene expression annotation—GREAT, ChromHMM	ChIP-seq data analysis Gene expression annotation—GREAT, ChromHMM Identification by stitching algorithms—ROSE or its analogues, including DNABERT and other ML-alternatives (CNN, RNN)

* Special symbols: ●—minimum enrichment; ●●—moderate enrichment; ●●●—high enrichment; ●●●●—the highest enrichment; ∅—no enrichment; ?—needs further investigation.