RNA nanostructures : methods and protocols

著者

    • Bindewald, Eckart
    • Shapiro, Bruce A.

書誌事項

RNA nanostructures : methods and protocols

edited by Eckart Bindewald, Bruce A. Shapiro

（Methods in molecular biology / John M. Walker, series editor, v. 1632）（Springer protocols）

Humana Press, c2017

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注記

"This Humana Press imprint is published by Springer Nature. THe registered company is Springer Science+Business Media LLC"--T.p. verso

Includes bibliographical references and index

内容説明・目次

内容説明

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.

目次

Preface... Table of Contents... Contributing Authors... 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 Prediction of the Immunomodulatory Potential of RNA Sequences Gandharva Nagpal, Kumardeep Chaudhary, Sandeep Kumar Dhanda, and Gajendra Pal Singh Raghava 6. Co-Transcriptional Production of Chemically Modified RNA Nanoparticles Maria L. Kireeva, Kirill A. Afonin, Bruce A. Shapiro, and Mikhail Kashlev 7. Supported Fluid Lipid Bilayer as a Scaffold to Direct Assembly of RNA Nanostructures Aleksandra P. Dabkowska, Agnes Michanek, Luc Jaeger, Arkadiusz Chworos, Tommy Nylandera and Emma Sparr 8. Evaluation of Thermal Stability of RNA Nanoparticles by Temperature Gradient Gel Electrophoresis (TGGE) in Native Condition Kheiria Benkato, Ben O'Brien, My N. Bui, Daniel Jasinski, Peixuan Guo, and Emil F. Khisamutdinov 9. Design and Crystallography of Self-Assembling RNA Nanostructures Mark A. Boerneke and Thomas Hermann 10. X-Aptamer Selection and Validation Ganesh L. Lokesh, Hongyu Wang, Curtis H. Lam, Varatharasa Thiviyanathan, Nancy Ward, David G. Gorenstein and David E. Volk 11. Design and Preparation of Aptamer-siRNA Chimeras (AsiCs) for Targeted Cancer Therapy Sven Kruspe and Paloma H. Giangrande 12. Cellular Delivery of siRNAs using Bolaamphiphiles Kshitij Gupta 13. Preparation and Optimization of Lipid-Like Nanoparticles for mRNA Delivery Bin Li and Yizhou Dong 14. Chitosan Nanoparticles for miRNA Delivery Merve Denizli, Burcu Aslan, Lingegowda S. Mangala, Dahai Jiang, Cristian Rodriguez-Aguayo, Gabriel Lopez-Berestein, and Anil K. Sood 15. Synthesis of PLGA/Lipid Hybrid Nanoparticles for siRNA Delivery using the Emulsion Method PLGA-PEG/Lipid Nanoparticles for siRNA Delivery Lei Wang, Benjamin Griffel, and Xiaoyang Xu 16. Oxime Ether Lipids as Transfection Agents: Assembly and Complexation with siRNA Anu Puri, Serena Zampino, Mathias Viard, and Bruce A. Shapiro 17. Polycationic Probe-Guided Nanopore Single-Molecule Counter for Selective miRNA Detection Kai Tian, Ruicheng Shi, and Li-Qun Gu 18. Intracellular Re-Association of RNA-DNA Hybrids that Activates RNAi in HIV-Infected Cells Angelica N. Martins, Weina Ke, Vaishnavi Jawahar, Morriah Striplin, Caryn Striplin, Eric O. Freed, And Kirill A. Afonin 19. Construction and In Vivo Testing of Prokaryotic Riboregulators Alexander A. Green 20. Preparation of a Conditional RNA Switch Paul Zakrevsky, Lorena Parlea, Eckart Bindewald, Kirill A. Afonin, and Bruce A. Shapiro 21. Rational Engineering of a Modular Group I Ribozyme to Control its Activity by Self-Dimerization Takahiro Tanaka, Yoshiya Ikawa, and Shigeyoshi Matsumura 22. CRISPR-Cas RNA Scaffolds for Transcriptional Programming in Yeast Jesse G. Zalatan 23. Using Planar Phi29 pRNA Three-Way Junction to Control Size and Shape of RNA Nanoparticles for Biodistribution Profiling in Mice Farzin Haque, Congcong Xu, Daniel L. Jasinski, Hui Li, and Peixuan Guo

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