Rna Visualization
Rna Visualization - Related Videos
07:06
Visualizing RNA Localization in Xenopus Oocytes
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Cited by 5 •
2010
Visualization of in vivo RNA transport is accomplished by microinjection of fluorescently labeled RNA transcripts into Xenopus oocytes, followed by confocal microscopy.
10:52
Visualization and Quantification of Intermolecular RNA Base Pairing in in vitro RNA Clusters Using Split Broccoli RNA Reporters
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2026
This protocol describes a visual assay using split Broccoli RNA reporters to detect and quantify intermolecular base pairing in RNA clusters in vitro.
02:59
Using Immuno-RNA Fluorescence In Situ Hybridization to Visualize SARS-CoV-2
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2025
This video demonstrates the application of Hybridization Chain Reaction (HCR)-Fluorescence In Situ Hybridization (FISH) for visualizing the spatial distribution of SARS-CoV-2 subgenomic RNA. Combining HCR with immunofluorescence techniques has the potential to provide insights into host-virus interactions at the single-cell level.
11:32
Mapping RNA-RNA Interactions Globally Using Biotinylated Psoralen
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Cited by 18 •
2017
Here, we detail the method of Sequencing of Psoralen crosslinked, Ligated, and Selected Hybrids (SPLASH), which enables genome-wide mapping of intramolecular and intermolecular RNA-RNA interactions in vivo. SPLASH can be applied to study RNA interactomes of organisms including yeast, bacteria and humans.
09:54
RNA-Seq
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2023
Among different methods to evaluate gene expression, the high-throughput sequencing of RNA, or RNA-seq. is particularly attractive, as it can be performed and analyzed without relying on prior available genomic information. During RNA-seq, RNA isolated from samples of interest is used to generate a DNA library, which is then amplified and sequenced. Ultimately, RNA-seq can determine which genes are expressed, the levels of their expression, and the presence of any previously unknown transcripts.
FAQs
Fluorescence-based RNA visualization depends on sequence complementarity: a labeled nucleic-acid probe binds the RNA sequence it matches. Hybridization places the label at the transcript’s location, allowing microscopy to record a signal rather than merely measuring RNA in bulk. This sequence-directed recognition links the observed fluorescence to the spatial distribution of the targeted RNA.
Engineered RNA tags use a different signal-generation strategy. Instead of detecting the transcript through a directly labeled complementary probe, the tag recruits fluorescent-binding proteins, making the RNA observable for live-cell imaging. This approach is especially relevant when the research question concerns RNA behavior over time, such as movement, persistence, or changing cellular location.
A transcript’s amount does not by itself show where it functions or how its distribution changes. Mapping location can connect RNA distribution with gene regulation and cellular function, while time-resolved observations can indicate synthesis, transport, or stability changes. In biochemical studies, this spatial and dynamic context helps distinguish altered localization from a simple change in overall expression.
A typical workflow selects a complementary labeled nucleic-acid probe, applies it to cells, tissues, or a biochemical sample, and uses microscopy to record the resulting fluorescence. If an engineered tag strategy is chosen, the sample instead relies on fluorescent-binding proteins recruited by the tagged RNA. The chosen route determines whether the readout emphasizes probe-defined detection or live-cell observation.
In biochemistry, researchers can use RNA visualization to examine post-transcriptional regulation and RNA processing while retaining spatial context. Imaging can also support studies of interactions between RNA and proteins or between different RNAs, and can reveal disease-associated changes. These applications connect molecular events with the cellular locations where regulation or dysfunction occurs.
Quantitative imaging allows researchers to compare expression patterns and RNA dynamics between experimental conditions. The comparison may focus on where signal appears, how its distribution changes, or how RNA behavior differs over time. Interpreting these measurements alongside localization, synthesis, transport, or stability observations can show whether conditions affect abundance alone or also the transcript’s cellular behavior.