Nuclear Bodies and Noncoding RNAs

Visualization of lncRNA by Single Molecule Fluorescence in situ Hybridization.- Super-resolution Imaging of Nuclear Bodies by STED Microscopy.- High-resolution 3D DNA FISH Using Plasmid Probes and Computational Correction of Optical Aberrations to Study Chromatin Structure at the Sub-megabase Scale.- Time-lapse Imaging of Nuclear Bodies.- Visualization of Nucleic Acids with Synthetic Exciton-controlled Fluorescent Oligonucleotide Probes.- Live CLEM Imaging to Analyze Nuclear Structures at High-resolution.- Ultrastructural Analysis of Nuclear Bodies Using Electron Microscopy.- Analyses of Nuclear Proteins and Nucleic Acid Structures Using Atomic Force Microscopy.- Genome-wide Co-localization Screening of Nuclear Body Components Using a Fluorescently Tagged FLJ cDNA Clone Library.- Purification of Specific Chromatin Regions Using Oligonucleotides: Capture Hybridization Analysis of RNA Targets (CHART).- RNA Antisense Purification (RAP) for Mapping RNA Interactions with Chromatin.- In situ Dissection of RNA Functional Subunits by Domain-specific Chromatin Isolation by RNA Purification (dChIRP).- Extracting, Enriching and Identifying Nuclear Body Sub-complexes Using Label-based Quantitative Mass Spectrometry.- Studying RNA-binding Protein Interactions with Target mRNAs in Eukaryotic Cells: Native Ribonucleoprotein Immunoprecipitation (RIP) Assays.- Cross-linking and Immunoprecipitation of Nuclear RNA Binding Proteins.- Purifications of Non-coding RNA and Bound Proteins using FLAG Peptide-conjugated Antisense-oligonucleotides.- MMCT-Mediated Chromosome Engineering Technique Applicable to Functional Analysis of lncRNA and Nuclear Dynamics.- Reconstitution of Nucleocytoplasmic Transport Using Digitonin-Permeabilized Cells.- Genome-wide Analysis of Long Noncoding RNA Turnover.- Knockdown of Nuclear-retained Long Noncoding RNAs Using Modified DNA Antisense Oligonucleotides.- siRNA Screening of Nuclear Proteins.