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Table 1 Common experimental approaches for the characterization of lncRNAs

From: Long non-coding RNAs in hematological malignancies: translating basic techniques into diagnostic and therapeutic strategies

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]