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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]