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Table 1 Examples of lncRNAs discovered with various approaches described in the text

From: Strategies to identify long noncoding RNAs involved in gene regulation

lncRNA name Types of RNA lncRNA identification methods* Reference
ANRIL RNA-ChIP (UV cross-linking) and CLIP RT-PCR [12]
RepA RIP (no cross-linking) Northern blotting [13]
TRE-1, -2 and -3 RNA-ChIP (cross-linked with formaldehyde) RT-PCR [14]
Xist RIP (no cross-linking) RT-PCR [13]
LincRNA-EPS Polyadenylated RNA Microarrays of 10,802 lncRNAs and RNA-seq [15]
lincRNA-SFMBT2, lincRNA-RoR, and lincRNA-VLDLR Total RNA Microarrays of 900 lincRNAs [16]
lncRNA_ES1, ES2 and ES3 Total RNA Microarrays of 6,671 lncRNAs [17]
ncRNA-a1-7 Polyadenylated RNA Microarrays of 3,019 lncRNAs [18]
HOTAIR Polyadenylated RNA Tiling arrays of 39 HOX genes [19]
RIP (no cross-linking) Validation with RT-PCR
HOTAIRM1 Polyadenylated RNA Tiling arrays of HOXA genes [20]
lincRNA-p21 Polyadenylated RNA Tiling arrays of 400 lincRNAs [21]
Mistral RNA-ChIP (no cross-linking) Tiling arrays of chromosomes 6, 8 and 16 [22]
300 lincRNAs RIP (no cross-linking) Tiling arrays of 900 lincRNAs [23]
1,600 lincRNAs Polyadenylated RNA Tiling arrays of 350 K4-K36 domains [24]
ANCR Polyadenylated RNA RNA-seq [25]
BANCR Polyadenylated RNA RNA-seq [26]
5 lncRNAs CLIP RNA-seq [27]
216 lincRNAs RIP (no cross-linking) RNA-seq [28]
RIP (UV cross-linking) Validation with RT-PCR
>8,000 lncRNAs Polyadenylated RNA Analysis of existing RNA-seq data [29]
  1. * LncRNAs are categorized based on the methods of their discovery: gene-specific approaches (RT-PCR and Northern blotting), microarrays, tiling arrays and RNA-seq.