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RNA Pull-down Procedure to Identify RNA Targets of a Long Non-coding RNA
Published on: April 10, 2018
A statistical test for conserved RNA structure shows lack of evidence for structure in lncRNAs
Elena Rivas1, Jody Clements2, Sean R Eddy1,3,4,5
1Department of Molecular and Cellular Biology, Harvard University, Cambridge, Massachusetts, USA.
Abstract:
Many functional RNAs have an evolutionarily conserved secondary structure. Conservation of RNA base pairing induces pairwise covariations in sequence alignments. We developed a computational method, R-scape (RNA Structural Covariation Above Phylogenetic Expectation), that quantitatively tests whether covariation analysis supports the presence of a conserved RNA secondary structure. R-scape analysis finds no statistically significant support for proposed secondary structures of the long noncoding RNAs HOTAIR, SRA, and Xist.
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