Table 1.
SEA v3.0 data content compared with previous version of SEA
| Content | SEA | SEA v3.0 | Fold increase | |
|---|---|---|---|---|
| Super-enhancers | Species | 4 | 11 | 2.75 |
| Recognition factor | H3K27ac | H3K27ac,BRD4,p300,Med1 | 4 | |
| Super-enhancer | 83 996 | 164 545 | 1.96 | |
| Enhancer | No | 3 361 785 | New | |
| Experimental confirmed SEs | 3 | 52 | 17.33 | |
| Cell types/tissues/disease | 134 | 266 | 2.0 | |
| Genome browser | DNA methylation | 26 | 37 | 1.42 |
| H3K27ac | 194 | 208 | 1.07 | |
| Expression | 35 | 87 | 2.49 | |
| TF ChIP-seq data | 98 | 126 | 1.29 | |
| 4D genome | No | Yes | New | |
| SE constituent | No | 32 | New | |
| Reference genome | 4 | 11 | 2.75 | |
| CpG islands | 4 | 11 | 2.75 | |
| SNP | Yes | Yes | New | |
| Transcription factor binding sites | Yes | Yes | New | |
| CRISPR-Cas9 | Yes | Yes | New | |
| p300 | No | 34 | New | |
| BRD4 | No | 2 | New | |
| Conservation | Yes | Yes | New | |
| Genome position | Yes | Yes | New | |
| Analysis tools | GREAT | Yes | Yes | - |
| Enrichr | No | Yes | New | |
| Specific analysis of H3K27ac status | Yes | Yes | - | |
| SE cell type specificity | No | Yes | New | |
| TF enrichment analysis | Yes | Yes | New | |
| Regulatory network | Yes | Yes | New | |
| Query | Yes | Yes | New | |
| Data Downloads | Yes | Yes | New | |
| Others | Publications related to super-enhancers | 8 | 52 | 6.5 |