Transcriptome-wide profiling of RNA G-quadruplex structures using rG4-seq
Alternative RNA structures such as RNA G-quadruplexes (rG4s) are often important in gene regulation and cellular processes, however, there is no experimental method for transcriptome-wide assessment of rG4 structures. Here, we introduce a novel approach called rG4-seq, which marries rG4-mediated reverse transcriptase stalling with next-generation sequencing to enable in vitro profiling of rG4 structures on a transcriptomic scale at nucleotide resolution. Upon high-throughput sequencing and bioinformatic analysis, the structural features and distribution of rG4s could be determined, as recently reported using extracted polyadenylated-enriched RNA from HeLa cells (Kwok et al, 2016). rG4-seq is readily applicable to any transcriptome, allowing global studies of rG4 structures and their potential regulatory roles in biology.
Posted 20 Sep, 2016
Transcriptome-wide profiling of RNA G-quadruplex structures using rG4-seq
Posted 20 Sep, 2016
Alternative RNA structures such as RNA G-quadruplexes (rG4s) are often important in gene regulation and cellular processes, however, there is no experimental method for transcriptome-wide assessment of rG4 structures. Here, we introduce a novel approach called rG4-seq, which marries rG4-mediated reverse transcriptase stalling with next-generation sequencing to enable in vitro profiling of rG4 structures on a transcriptomic scale at nucleotide resolution. Upon high-throughput sequencing and bioinformatic analysis, the structural features and distribution of rG4s could be determined, as recently reported using extracted polyadenylated-enriched RNA from HeLa cells (Kwok et al, 2016). rG4-seq is readily applicable to any transcriptome, allowing global studies of rG4 structures and their potential regulatory roles in biology.
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