Plant Long Non-Coding RNAs : Methods and Protocols - Chekanova, Julia A.; Wang, Hsiao-Lin V.; SpringerLink (Online service) (New York, NY : Springer New York : Imprint: Humana, 2019)
An Overview of Methodologies in Studying lncRNAs in the High-Throughput Era: When Acronyms ATTACK! -- Analysis of siRNA Precursors Generated by RNA Polymerase IV and RNA-Dependent RNA Polymerase 2 in Arabidopsis -- Identification of Long Non-Coding RNAs in the Developing Endosperm of Maize -- RNA Isolation and Analysis of lncRNAs from Gametophytes of Maize -- Improved Method of RNA Isolation from Laser Capture Microdissection (LCM) Derived-Plant Tissues -- Medium Throughput RNA In Situ Hybridization of Serial Sections from Paraffin-Embedded Tissue Microarrays -- Purification and Functional Analysis of Plant Long Non-Coding RNAs (lncRNA) -- The Involvement of Long Non-Coding RNAs in Response to Plant Stress -- Subcellular Localization and Functions of Plant lncRNAs in Drought and Salt Stress Tolerance -- Discovery, Identification, and Functional Characterization of Plant Long Intergenic Non-Coding RNAs after Virus Infection -- Bioinformatics Approaches to Studying Plant Long Non-Coding RNAs (lncRNAs): Identification and Functional Interpretation of lncRNAs from RNA-seq Data Sets -- Identification of Novel lincRNA and Co-Expression Network Analysis using RNA Sequencing Data in Plants -- An Easy-to-Follow Pipeline for Long Non-Coding RNA Identification: A Case Study in Diploid Strawberry Fragaria vesca -- Reference-Based Identification of Long Non-Coding RNAs in Plants with Strand-Specific RNA-Sequencing Data -- NAMS: Non-Coding Assessment in Magnoliophyta Species -- De novo Plant Transcriptome Assembly and Annotation using Illumina RNA-seq Reads -- Identification of Long Non-Coding RNA-Protein Interactions through In Vitro RNA Pull-Down Assay with Plant Nuclear Extracts -- Analysis of Interaction between Long Non-Coding RNAs and Protein by RNA-Immunoprecipitation in Arabidopsis -- Trimolecular Fluorescence Complementation (TriFC) Assay for Visualization of RNA-Protein Interaction in Plants -- In Vivo Genome-Wide RNA Structure Probing with Structure-seq2 -- Using Protein Interaction Profile Sequencing (PIP-seq) to Identify RNA Secondary Structure and RNA-Protein Interaction Sites of Long Non-Coding RNAs in Plants -- Computationally Characterizing Protein Bound Long Non-Coding RNAs and their Secondary Structure using Protein Interaction Profile Sequencing (PIP-seq) in Plants -- Stalking Structure in Plant Long Non-Coding RNAs -- Transcriptome-Wide Mapping 5-methylcytosine by m5C RNA Immunoprecipitation Followed by Deep Sequencing in Plant -- A Walkthrough to the Use of GreeNC: The Plant lncRNA Database -- CANTATAdb 2.0: Expanding the Collection of Plant Long Non-Coding RNAs -- Experimentally Validated Plant lncRNAs in EVLncRNAs Database -- In Situ Hi-C for Plants: An Improved Method to Detect Long-Range Chromatin Interactions.
Keywords: Plant science; Botany; Plant genetics; Plant Sciences; Plant Genetics and Genomics