Circular Rnas

ISBN-13: 9781071636770 / Angielski

Christoph Dieterich; Marie-Laure Baudet

Spis treści

Part I: circRNA purification

 

1. Purification of circular RNAs using poly(A) tailing followed by RNase R digestion Mei-Sheng Xiao and Jeremy E. Wilusz

 

Part II: In silico circRNA profiling

1. State of the art circular RNA analytics using the circtools software suite

Tobias Jakobi

 

1. Exploring circular RNA profile and expression in extracellular vesicles

 Jingjing Zhao, Qiaojuan Li, Shenglin Huang

 

 

 

Part III: circRNA detection, sequence validation and quantification

1. In situ hybridization of circRNAs in cells and tissues through BaseScope™ strategy Eleonora D’Ambra, Erika Vitiello, Tiziana Santini, and Irene Bozzoni

 

Sanger sequencing to determine the full-length sequence of circular RNAs

Suman Singh, Aniruddha Das, and Amaresh C. Panda

 

Droplet digital PCR for the detection and quantification of bona fide circRNAs

Linda Masante, Giorgia Susin, and Marie-Laure Baudet

 

Targeted sequencing of circular RNAs for Illumina-based counting and Nanopore structure determination

Isabel Narmann-de Vries, and Christoph Dieterich

Nanopore mediated sequencing of circular RNA

Morten Venø, Junyi Su, Yan Yan, and Jørgen Kjems

 

Part IV: Functional study: tools for loss- and gain-of function analysis

1. In vivo tissue-specific knockdown of circRNAs using shRNAs in Drosophila Melanogaster

Ines Lucia Patop, Michael Canori, and Sebastian Kadener

1. Functional circular RNA screening via RfxCas13d/BSJ-gRNA system

Hao Wu and Ling-Ling Chen

1. Base-editor-mediated circRNA knockout by targeting predominantly back-splice sites Xu-Kai Ma, Xiang Gao, and Mei Cao, and Li Yang

 

Directed Circularization of a Short RNA

 Cathrin E Hansen, Danilo Springstubbe, Sabine Müller, and Sonja Petkovic

 

1. Engineering Synthetic circRNAs for Efficient CNS Expression

Katie N. Clements, Trevor J. Gonzalez, and Aravind Asokan

 

Functional investigation of in vitro transcribed circular RNA and formulation into Lipid nanoparticles via microfluidic mixing

Malte Juchem, Sarah Cushman, Dongchao Lu, Shambhabi Chatterjee,  Christian Bär, and Thomas Thum

 

Part V: Functional study: biogenesis and translation

1. Characterising post-transcriptional modifications of circRNAs to investigate biogenesis and translation

Gaia Di Timoteo, Dario Dattilo, and Irene Bozzoni

 

Part VI: circRNA mechanisms of action

1. Native circular RNA pulldown method to simultaneously profile RNA and protein interactions

Marta M. Gabryelska, Stuart T. Webb, He Lin, Laura Gantley, Kirsty Kirk, Ryan Liu, Brett W. Stringer, Vanessa M. Conn, and Simon J. Conn

 

1. Screening and characterization of functional circRNAs in neuronal cultures

Darren Kelly and Gerhard Schratt

Blurb

This second edition details new and updated methods on circular RNA. Chapter guide readers through circular RNA purification, in silico characterization, circRNA detection, sequence validation, quantification , techniques related to  gain- and loss-of-function approaches, circular RNA synthesis, split ligation, engineering, nanoparticle packaging, RNA modifications on circular RNA biogenesis, RNA translation potential, and vaccines based on circular RNAs. 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 key tips on troubleshooting and avoiding known pitfalls.

 

Authoritative and cutting-edge, Circular RNAs, Second Edition aims to ensure successful results in the further study of this vital field.