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Modeling ligand docking to RNA in the design of RNA-based nanostructures

Current Opinion in Biotechnology, 2020
RNA has grown in biological importance as the discovery of its many functional roles in the cellular machinery has revealed the potential for targeting it to disrupt cancer pathways. RNA structure underlies its functionality and suitability as a nanoparticle building material.
Wojciech Kajetan, Kasprzak   +2 more
openaire   +2 more sources

The architectonics of programmable RNA and DNA nanostructures

Current Opinion in Structural Biology, 2006
The past several years have witnessed the emergence of a new world of nucleic-acid-based architectures with highly predictable and programmable self-assembly properties. For almost two decades, DNA has been the primary material for nucleic acid nanoconstruction.
Luc, Jaeger, Arkadiusz, Chworos
openaire   +2 more sources

Gold Nanoparticles as Carriers for Functional RNA Nanostructures

Bioconjugate Chemistry, 2021
Conjugates of gold nanoparticles and ribonucleic acid are particularly interesting for biological applications to serve as therapeutics or biosensors. In this paper we present, for the first time, a conjugate of gold nanoparticles and structural RNA (tectoRNA), which serves as a tool for gene expression regulation.
Anna Graczyk   +2 more
openaire   +2 more sources

Use of RNA Structure Flexibility Data in Nanostructure Modeling [PDF]

open access: yesMethods, 2011
In the emerging field of RNA-based nanotechnology there is a need for automation of the structure design process. Our goal is to develop computer methods for aiding in this process. Towards that end, we created the RNA junction database, which is a repository of RNA junctions, i.e.
Luc Jaeger   +2 more
exaly   +3 more sources

RNA nanostructures and scaffolds for biotechnology applications

Current Opinion in Biotechnology, 2019
RNA plays important roles in the regulation of gene expressions and other cellular functions. It functions as both as an informational carrier and a nanomachine due to its complementary base-pairing ability and complexed three-dimensional structure. Several nanostructures have been designed and constructed by exploiting these natural RNA properties. In
Hirohisa, Ohno   +2 more
openaire   +2 more sources

Computer-Assisted Design and Characterization of RNA Nanostructures

2023
Molecular dynamics (MD) simulations can aid in the design and characterization of RNA nanomaterials, providing details about structural and dynamical properties as a function of sequence and environment. Here, we describe how to perform explicit and implicit solvent all-atom MD simulations for RNA nanoring systems.
Christina J, Bayard   +1 more
openaire   +2 more sources

Discriminating Immunorecognition Pathways Activated by RNA Nanostructures

2023
Nucleic acid nanoparticles (NANPs) composed of therapeutic DNA, RNA, or a hybrid of both are increasingly investigated for their targeted and tunable immunomodulatory properties. By taking advantage of the NANPs' unique and relatively straightforward self-assembling behavior, nucleic acid sequences can be designed from the bottom-up and specifically ...
Leyla, Danai   +2 more
openaire   +2 more sources

Protocols for the In Silico Design of RNA Nanostructures

2008
Recent developments in the field of nanobiology have significantly expanded the possibilities for new modalities in the treatment of many diseases, including cancer. Ribonucleic acid (RNA) represents a relatively new molecular material for the development of these biologically oriented nanodevices. In addition, RNA nanobiology presents a relatively new
Bruce A, Shapiro   +3 more
openaire   +2 more sources

Nanostructured Probes for RNA Detection in Living Cells

Annals of Biomedical Engineering, 2006
The ability to visualize in real-time the expression level and localization of specific RNAs in living cells can offer tremendous opportunities for biological and disease studies. Here we review the recent development of nanostructured oligonucleotide probes for living cell RNA detection, and discuss the biological and engineering issues and challenges
Philip, Santangelo   +2 more
openaire   +2 more sources

RNA-Mediated CdS-Based Nanostructures

2015
The colloidal method provides an important tool to synthesize different nanostructures and their assemblies. The coating of colloidal inorganic nanostructures by the biotemplate of similar dimension not only provides them the thermodynamic stability but also imparts the chemical features to grow in different dimensionalities and capabilities for ...
Vinit, Kumar, Anil, Kumar
openaire   +2 more sources

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