Small Non-Coding Rnas: Methods and Protocols

ISBN-13: 9781071613856 / Angielski / Twarda / 2021 / 270 str.

Mathieu Rederstorff

Spis treści

 

PART I INTRODUCTION TO SMALL NON-CODING RNAS

 

1 Regulatory Non-coding RNAs: An Overview

Camille Virciglio, Yoann Abel, and Mathieu Rederstorff

 

2 RNA Precipitation

Valérie Bourguignon-Igel, Yoann Abel, and Mathieu Rederstorff

 

3 Quantitative and Qualitative Assessment of Small RNA Preparations

Virginie Marchand, Lilia Ayadi, Valérie Bourguignon-Igel, and Yuri Motorin

 

4 Non-coding RNA Silencing in Mammalian Cells by Antisense LNA GapmeRs Transfection

Charbel Alfeghaly, Christelle Aigueperse, Sylvain Maenner, and Isabelle Behm-Ansmant

 

 

PART II DETECTION OF SMALL NON-CODING RNAS

 

5 Northern Blot Detection of Tiny RNAs

Jana C. Wiegard, M. Amri C. Schlüter, Olga Y. Burenina, Elena A. Kubareva, Gabriele Klug, Arnold Grünweller, and Roland K. Hartmann

 

6 Stem-loop qRT-PCR Based Quantification of miRNAs

Yoann Abel and Mathieu Rederstorff

 

7 Detection and Labeling of Small Non-coding RNAs by Splinted Ligation

Marlène Vayssières, Gabrielle Bourgeois, Florian Chardon, Anne-Sophie Tillault, and Magali Blaud

 

8 Fluorescence In Situ Hybridization Of Small Non-coding RNAs

Valentin Vautrot, Géraud Heckler, Christelle Aigueperse, and Isabelle Behm-Ansmant

 

 

PART III FUNCTIONAL ANALYSIS OF SMALL NON-CODING RNAS

 

 

9 Using native RIP, UV-CLIP or fCLIP to Address Protein-RNA Interactions In Vivo

Layea Baldini and Stéphane Labialle

 

10 Purification of RiboNucleoProtein Particles by MS2-MBP Affinity Chromatography

Aymeric Sanchez and Sylvain Maenner

 

11 Study of genome-wide occupancy of long non-coding RNAs using Chromatin Isolation by RNA Purification (ChIRP)

Charbel Alfeghaly, Isabelle Behm-Ansmant, and Sylvain Maenner

 

12 Gene Reporter Assays to Study miRNA Function

Yoann Abel and Mathieu Rederstorff

 

13 CRISPR/Cas9 System to Knock-Down microRNA In Vitro and In Vivo

Bin Yi, Kristina Larter, and Yaguang Xi

 

 

PART IV HIGH-THROUGHPUT ANALYSIS OF SMALL NON-CODING RNAS

 

 

14 Microarray Analysis of Whole-Transcriptome RNAs including Non-Coding RNAs

Quentin Thuillier and Isabelle Behm-Ansmant

 

15 Isolation, Extraction, and Deep-Sequencing Analysis Of Extracellular RNAs (exRNAs) from Human Plasma

Virginie Marchand, Adeline Galvanin, and Yuri Motorin

 

16 Analysis of the RNA and protein complexome by Grad-seq

Jens Hör and Jörg Vogel

 

17 µIVC-Seq: A Method for Ultrahigh-throughput Development and Functional Characterization of Small RNAs

Farah Bouhedda, Roger Cubi, Stéphanie Baudrey and Michael Ryckelynck

 

 

PART V STRUCTURAL APPROACHES

 

 

18 RNA Secondary Structure Study by Chemical Probing Methods using DMS and CMCT

Fatima Alghoul, Gilbert Eriani, and Franck Martin

 

19 Application of NMR Spectroscopy to Determine the 3D structure of Small Non-coding RNAs

Marie-Eve Chagot, Marc Quinternet, Xavier Manival, and Isabelle Lebars

Blurb

This second edition provides new and updated chapters detailing methods tackling all aspects of small non-coding RNAs biology.  Chapters guide readers through customized dedicated protocols and technologies that will help decipher the numerous functions of small non-coding RNAs. Written in the highly successful Methods of 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.

Instructive and practical, Small Non-Coding RNAs: Methods and Protocols, Second Edition aims to be a valuable help and of great interest to a large number of researchers working in the field of RNA or willing to develop RNA studies.