This volume presents a collection of computational and experimental protocols pertaining to the creation, characterization, and utilization of RNA nanostructures. The chapters in this book cover topics such as ion effects in RNA folding; design and crystallography of self-assembling RNA nanostructures; x-aptamer selection and validation; RNAi in HIV-infected cells; and preparation of a conditional RNA switch. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls.
Cutting-edge and thorough, RNA Nanostructures: Methods and Protocols is a valuable resource for the design and production of RNA nanostructures. Researchers and scientists sharing these detailed protocols is important for sustained progress in the field.
Preface&
Table of Contents&
Contributing Authors&
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?1. ?1.?A New Method to Predict Ion Effects in RNA Folding
Li-Zhen Sun and Shi-Jie Chen
2.?Computational Generation of RNA Nanorings
Rishabh Sharan, Eckart Bindewald, Wojciech Kasprzak, and Bruce A. Shapiro? ? ? ???
3.????? Protocols for Molecular Dynamics Simulations of RNA Nanostructures
Taejin Kim, Wojciech K. Kasprzak, and Bruce A. Shapiro
?4.????? Rolling Circle Transcription for the Self-Assembly of Multimeric RNAi Structures and its Applications in Nanomedicine
Mihue Jang and Hyung Jun Ahn
?5.?Computational PlÓ$