Table 1 Common experimental approaches for the characterization of lncRNAs
| Functional involvement of lncRNAs | Techniques or methods used | References |
|---|---|---|
| LncRNA-protein interaction |
• RNA immunoprecipitation (RIP) • High-throughput sequencing of RNA isolated by cross-linking immunoprecipitation (HITS-CLIP) • Photoactivatable ribonucleotide-enhanced cross-linking and immunoprecipitation (PAR-CLIP) | [74,75,76,77, 175,176,177,178,179] |
| LncRNA-DNA interaction |
• Chromatin isolation by RNA purification (ChIRP) • RNA antisense purification (RAP) • Capture hybridization analysis of RNA targets (CHART) | [81, 82, 180,181,182,183,184] |
| LncRNA-RNA interaction |
• RNA antisense purification followed by RNA sequencing (RAP-RNA) • Cross-linking, ligation and sequencing of hybrids (CLASH) | [83, 185, 186] |
| LncRNA localization | • RNA single-molecule fluorescence in situ hybridization (RNA smFISH) | [85, 187] |