Complete RNA inverse folding: computational design of functional hammerhead ribozymes
نویسندگان
چکیده
منابع مشابه
Complete RNA inverse folding: computational design of functional hammerhead ribozymes
Nanotechnology and synthetic biology currently constitute one of the most innovative, interdisciplinary fields of research, poised to radically transform society in the 21st century. This paper concerns the synthetic design of ribonucleic acid molecules, using our recent algorithm, RNAiFold, which can determine all RNA sequences whose minimum free energy secondary structure is a user-specified ...
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Mortalin, also known as mot2/mthsp70/GRP75/PBP74, is a member of the heat-shock protein 70 family that is heat-uninducible. It is differentially distributed in cells that have normal and immortal phenotypes, has been localized to various subcellular sites, and has several binding partners and functions. Here, we describe the construction and use of mortalin-specific conventional and hybrid ribo...
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The aim of the inverse folding problem for RNA is, given a target structure like e.g. the one depicted in Fig. 1, find a sequence that folds into this structure. In this project we will exclusively focus on the secondary structure. The main driving force behind RNA structure formation is the creation of base pairs similar to the ones observed in the DNA double helical structure. In RNA thymine ...
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A hammerhead ribozyme targeted against the HIV-1 env coding region was expressed as part of the anticodon loop of human tRNA3Lys without sacrificing tRNA stability or ribozyme catalytic activity. These tRNA-ribozymes were isolated from a library which was designed to contain linkers (sequences connecting the ribozyme to the anticodon loop) of random sequence and variable length. The ribozyme ta...
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In the Oxford Summer School in Computational Biology 2011, one of the projects was aimed at creating an improved method for inverse RNA folding based on a genetic algorithm (GA) approach. This turned out to be sufficiently successful [16] and inspiring, that we will extend on it in this year’s summer school. The inverse RNA folding problem consists of finding an RNA sequence that, as a molecule...
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ژورنال
عنوان ژورنال: Nucleic Acids Research
سال: 2014
ISSN: 1362-4962,0305-1048
DOI: 10.1093/nar/gku740