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Implications of secondary structure in messenger RNA
Journal of Theoretical Biology, 1972Abstract The physical properties and nucleotide sequences of some messenger RNA molecules suggest the presence of extensive base-paired secondary structure. This paper evaluates the evolutionary conflict between this secondary structure and the encoded amino acid sequence, and concludes that selection pressure for specific base-pairing in a messenger
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UFold: fast and accurate RNA secondary structure prediction with deep learning
Nucleic Acids Research, 2022Laiyi Fu, Qinke Peng, Xiaohui Xie
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Computational Prediction of RNA Secondary Structure
2013The purpose of this section is to detail methods for the computational prediction of RNA secondary structure. This protocol is intended to provide an easy entry into the field of RNA structure prediction for those wishing to utilize it in their research and to suggest 'best practices' for going from sequence to secondary structure depending on the ...
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RASP: an atlas of transcriptome-wide RNA secondary structure probing data
Nucleic Acids Research, 2021Kui Xu, Qiangfeng Zhang, Pan Li
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RNA Secondary Structure Analysis Using the Vienna RNA Package
Current Protocols in Bioinformatics, 2009Ivo L Hofacker
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RNA Secondary Structure Analysis Using RNAstructure
Current Protocols in Bioinformatics, 2006David Mathews
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Multistrand RNA Secondary Structure Prediction and Nanostructure Design Including Pseudoknots
ACS Nano, 2011Luc Jaeger, , Kirill Afonin
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Secondary Structure Prediction for Aligned RNA Sequences
Journal of Molecular Biology, 2002Ivo L Hofacker, Peter F Stadler
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The Conservation and Function of RNA Secondary Structure in Plants
Annual Review of Plant Biology, 2016Brian Gregory +2 more
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