Jove
Visualize
Contact Us
JoVE
x logofacebook logolinkedin logoyoutube logo
ABOUT JoVE
OverviewLeadershipBlogJoVE Help Center
AUTHORS
Publishing ProcessEditorial BoardScope & PoliciesPeer ReviewFAQSubmit
LIBRARIANS
TestimonialsSubscriptionsAccessResourcesLibrary Advisory BoardFAQ
RESEARCH
JoVE JournalMethods CollectionsJoVE Encyclopedia of ExperimentsArchive
EDUCATION
JoVE CoreJoVE BusinessJoVE Science EducationJoVE Lab ManualFaculty Resource CenterFaculty Site
Terms & Conditions of Use
Privacy Policy
Policies

Related Concept Videos

RNA Interference01:23

RNA Interference

28.6K
RNA interference (RNAi) is a process in which a small non-coding RNA molecule blocks the post-transcriptional expression of a gene by binding to its messenger RNA (mRNA) and preventing the protein from being translated.
This process occurs naturally in cells, often through the activity of genomically-encoded microRNAs. Researchers can take advantage of this mechanism by introducing synthetic RNAs to deactivate specific genes for research or therapeutic purposes. For example, RNAi could be used...
28.6K
RNA-seq03:21

RNA-seq

12.4K
RNA sequencing, or RNA-Seq, is a high-throughput sequencing technology used to study the transcriptome of a cell. Transcriptomics helps to interpret the functional elements of a genome and identify the molecular constituents of an organism. Additionally, it also helps in understanding the development of an organism and the occurrence of diseases. 
Before the discovery of RNA-seq, microarray-based methods and Sanger sequencing were used for transcriptome analysis. However, while...
12.4K
Experimental RNAi02:15

Experimental RNAi

8.2K
RNA interference (RNAi) is a cellular mechanism that inhibits gene expression by suppressing its transcription or activating the RNA degradation process. The mechanism was discovered by Andrew Fire and Craig Mello in 1998 in plants. Today, it is observed in almost all eukaryotes, including protozoa, flies, nematodes, insects, parasites, and mammals. This precise cellular mechanism of gene silencing has been developed into a technique that provides an efficient way to identify and determine the...
8.2K
siRNA - Small Interfering RNAs02:30

siRNA - Small Interfering RNAs

19.0K
Small interfering RNAs, or siRNAs, are short regulatory RNA molecules that can silence genes post-transcriptionally, as well as the transcriptional level in some cases. siRNAs are important for protecting cells against viral infections and silencing transposable genetic elements.
In the cytoplasm, siRNA is processed from a double-stranded RNA, which comes from either endogenous DNA transcription or exogenous sources like a virus. This double-stranded RNA is then cleaved by the...
19.0K

You might also read

Related Articles

Articles linked to this work by shared authors, journal, and citation graph.

Sort by
Same author

Caveats on Using Firth's Penalization in the Model-Based Regression Standardization for Rare Diseases.

Statistics in medicine·2026
Same author

Kinetic and thermodynamic properties of phosphorothioate and phosphorodiamidate morpholino oligonucleotides binding to target RNA.

Journal of biochemistry·2026
Same author

Effect of home visiting support on maternal psychosocial needs and postnatal depression: emulating a target trial.

BMJ mental health·2026
Same author

Clinical outcomes following fractional flow reserve-guided revascularization using nicorandil versus conventional hyperemic agents: insights from the J-PRIDE Registry.

Cardiovascular intervention and therapeutics·2026
Same author

HBV Envelope Protein-Bearing Vesicles Show Preferential Uptake in Hepatocyte-Derived Cells.

International journal of molecular sciences·2026
Same author

Beyond the Hazard Ratio: Causal Inference from Time-to-Event Data with Dependent Censoring, Confounding, and Competing Risks.

Journal of epidemiology·2026
Same journal

An Efficient TetR/TetO-Integrated Packaging System for Fowl Adenovirus 4 Vector Carrying Toxic Transgene.

Methods and protocols·2026
Same journal

Exploring Barriers and Facilitators to COVID-19 Vaccination Uptake Among Individuals with Mental Illness in the Australian Healthcare System: A Qualitative Study Protocol.

Methods and protocols·2026
Same journal

In Vitro Capacitation in Boar Sperm: Evaluation of Selected Detection Techniques.

Methods and protocols·2026
Same journal

Multiparametric Flow Cytometry Panel for Characterization of Mouse T Cell Differentiation and NK Cell Maturation Following Inflammatory Challenge.

Methods and protocols·2026
Same journal

Protocol for the Implementation of a Targeted Maternal and Newborn Service Delivery Bundle in Sierra Leone.

Methods and protocols·2026
Same journal

Contact Lens-Associated Ocular Surface and Corneal Disorders.

Methods and protocols·2026
See all related articles

Related Experiment Video

Updated: Mar 25, 2026

Identification of RNAs Engaged in Direct RNA-RNA Interaction with a Long Non-Coding RNA
07:24

Identification of RNAs Engaged in Direct RNA-RNA Interaction with a Long Non-Coding RNA

Published on: July 9, 2021

2.7K

Surface Plasmon Resonance Analysis for Evaluating ASO Targeting Structured RNA.

Tomohiro Shinozaki1, Takuya Hasegawa1, Mst Tahmina Akter1

  • 1Department of Life Science, Faculty of Advanced Engineering, Chiba Institute of Technology, 2-17-1 Tsudanuma, Narashino 275-0016, Chiba, Japan.

Methods and Protocols
|March 24, 2026
PubMed
Summary
This summary is machine-generated.

Surface plasmon resonance (SPR) analysis effectively evaluates antisense oligonucleotide (ASO) binding to structured RNA targets. This method accounts for RNA structural constraints, offering an alternative to UV melting for ASO screening.

Keywords:
antisense oligonucleotide (ASO)structured RNAsurface plasmon resonance (SPR)

More Related Videos

Sequence-specific and Selective Recognition of Double-stranded RNAs over Single-stranded RNAs by Chemically Modified Peptide Nucleic Acids
09:04

Sequence-specific and Selective Recognition of Double-stranded RNAs over Single-stranded RNAs by Chemically Modified Peptide Nucleic Acids

Published on: September 21, 2017

10.0K
An Oligonucleotide-based Tandem RNA Isolation Procedure to Recover Eukaryotic mRNA-Protein Complexes
09:45

An Oligonucleotide-based Tandem RNA Isolation Procedure to Recover Eukaryotic mRNA-Protein Complexes

Published on: August 18, 2018

11.7K

Related Experiment Videos

Last Updated: Mar 25, 2026

Identification of RNAs Engaged in Direct RNA-RNA Interaction with a Long Non-Coding RNA
07:24

Identification of RNAs Engaged in Direct RNA-RNA Interaction with a Long Non-Coding RNA

Published on: July 9, 2021

2.7K
Sequence-specific and Selective Recognition of Double-stranded RNAs over Single-stranded RNAs by Chemically Modified Peptide Nucleic Acids
09:04

Sequence-specific and Selective Recognition of Double-stranded RNAs over Single-stranded RNAs by Chemically Modified Peptide Nucleic Acids

Published on: September 21, 2017

10.0K
An Oligonucleotide-based Tandem RNA Isolation Procedure to Recover Eukaryotic mRNA-Protein Complexes
09:45

An Oligonucleotide-based Tandem RNA Isolation Procedure to Recover Eukaryotic mRNA-Protein Complexes

Published on: August 18, 2018

11.7K

Area of Science:

  • Biochemistry
  • Molecular Biology
  • RNA Therapeutics

Background:

  • Antisense oligonucleotides (ASOs) are crucial for gene expression regulation via sequence-specific RNA hybridization.
  • Target RNA higher-order structures significantly impact ASO accessibility and binding kinetics.
  • Conventional UV melting analysis often overlooks these critical RNA structural features.

Purpose of the Study:

  • To investigate surface plasmon resonance (SPR) as an in vitro method for evaluating ASO binding, considering RNA structural constraints.
  • To compare ASO binding to linear RNA fragments versus structured RNA targets.
  • To assess SPR's utility as an alternative to UV melting for ASO screening.

Main Methods:

  • Designed multiple ASOs targeting the PRF84 RNA motif involved in HIV-1 gag-pol expression.
  • Utilized SPR analysis to compare ASO interactions with complementary RNA fragments and the folded PRF84 structure.
  • Analyzed differences in ASO binding behavior based on target RNA conformation.

Main Results:

  • Identical ASOs demonstrated markedly different binding behaviors when interacting with linear RNA versus the structured PRF84.
  • RNA structure was confirmed to be a significant determinant of ASO binding affinity and kinetics.
  • SPR analysis revealed distinct interaction profiles influenced by target RNA conformation.

Conclusions:

  • SPR analysis provides a valuable method for assessing ASO-RNA interactions that incorporates crucial RNA structural information.
  • SPR serves as a potentially superior alternative to UV melting analysis for screening ASOs, especially those targeting structured RNAs.
  • This approach enhances the understanding of ASO efficacy by accounting for biological target structure.