| 3D chromatin interactions |
| Hi-C | High-resolution in situ Hi-C: identifies chromatin loops anchored by convergent CTCF binding sites | [14] |
| RNAPII ChIA-PET | Chromatin interaction analysis by paired-end tag sequencing targeting RNAPII: identifies chromatin interactions enriched for RNAPII binding | [16] |
| CTCF ChIA-PET | Chromatin interaction analysis by paired-end tag sequencing targeting CTCF: identifies chromatin interactions enriched for CTCF binding | [16] |
| CHi-C | Promoter capture Hi-C: identifies chromatin interactions between promoters and other loci | [17] |
| Genetic interactions |
| eQTLs | Expression quantitative trait loci: identifies genetic variants correlated with changes of gene expression of individuals in a human population | [18, 19] |
| CRISPR/Cas9 perturbations |
| crisprQTLs | Identifies loci that when targeted with CRISPR/Cas9 correlate with changes in gene expression measured in single cells | [20] |
