Main description:

This volume provides established approaches for identifying, characterizing, and manipulating circRNAs in vitro, in vivo, and in silico. Chapters highlight the breakthroughs and the challenges in this new field of research. 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.

Authoritative and practical, Circular RNAs: Methods and Protocols aims to useful and informative for further study into this vital field.

Contents:

1. Detection and Reconstruction of Circular RNAs from Transcriptomic Data

Yi Zheng and Fangqing Zhao

2. Deep Computational Circular RNA Analytics from RNA-seq Data

Tobias Jakobi and Christoph Dieterich

3. Genome-wide circRNA Profiling from RNA-seq Data

Daphne A. Cooper, Mariela Cortes-Lopez, and Pedro Miura

4. Analysis of Circular RNAs using the Web Tool CircInteractome

Amaresh C. Panda, Dawood B. Dudekula, Kotb Abdelmohsen, and Myriam Gorospe

5. Characterization and Validation of Circular RNA and their Host Gene mRNA Expression using PCR

Andreas W. Heumuller and Jes-Niels Boeckel

6. Detecting Circular RNAs by RNA Fluorescence In Situ Hybridization

Anne Zirkel and Argyris Papantonis

7. Single Molecule Fluorescence In Situ Hybridization (FISH) of Circular RNA CDR1as

Christine Kocks, Anastasiya Boltengagen, Monika Piewecka, Agnieszka Rybak-Wolf, and Nikolaus Rajewsky

8. A Highly-efficient Strategy for Overexpressing circRNAs

Dawei Liu, Vanessa Conn, Gregory J. Goodall, and Simon J. Conn

9. Constructing GFP-based Reporter to study Back-splicing and Translation of Circular RNA

Yun Yang and Zefeng Wang

10. Northern Blot Analysis of Circular RNAs

Tim Schneider, Silke Schreiner, Christian Preusser, Albrecht Bindereif, and Oliver Rossbach

11. Non-radioactive Northern Blot of circRNAs

Xiaolin Wang and Ge Shan

12. Characterization of Circular RNA Concatemers

Thomas B Hansen

13. Characterization of Circular RNAs (circRNA) Associated with the Translation Machinery

Deniz Bartsch, Anne Zirkel, and Leo Kurian

14. Synthesis and Engineering of Circular RNAs

Sonja Petkovic and Sabine Muller

15. Preparation of Circular RNA in vitro

Naoko Abe, Ayumi Kodama and Hiroshi Abe

16. Discovering circRNA-microRNA Interactions from CLIP-Seq Data

Xiao-Qin Zhang and Jian-Hua Yang

17. Identification of circRNAs for miRNA Targets by Argonaute2 RNA Immunoprecipitation and Luciferase Screening Assays

Yan Li, Bing Chen, and Shenglin Huang