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 Experiment Video

Updated: Jul 3, 2026

Exploring Sequence Space to Identify Binding Sites for Regulatory RNA-Binding Proteins
11:34

Exploring Sequence Space to Identify Binding Sites for Regulatory RNA-Binding Proteins

Published on: August 9, 2019

Massively parallel interrogation of aptamer sequence, structure and function.

Nicholas O Fischer1, Jeffrey B-H Tok, Theodore M Tarasow

  • 1Chemistry, Materials, Earth and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, California, United States of America.

Plos One
|July 17, 2008
PubMed
Summary
This summary is machine-generated.

Related Concept Videos

You might also read

Related Articles

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

Sort by
Same author

An mRNA vaccine encoding the Ebola virus glycoprotein induces high neutralizing antibody titers and provides strong protection against lethal infections in mouse models.

Frontiers in immunology·2026
Same author

High-density soft bioelectronic fibres for multimodal sensing and stimulation.

Nature·2025
Same author

Ticking off Lyme disease: OspA mRNA vaccine halts infection in mouse model.

Molecular therapy. Nucleic acids·2025
Same author

Nanolipoprotein particle (NLP) vaccine confers protection against <i>Yersinia pestis</i> aerosol challenge in a BALB/c mouse model.

Frontiers in immunology·2025
Same author

Densely Packed and Highly Ordered Carbon Flower Particles for High Volumetric Performance.

Small science·2025
Same author

Highly tail-asymmetric lipids interdigitate and cause bidirectional ordering.

Journal of lipid research·2025
Same journal

Modeling and analysis of forward and inverse kinematics for a flexible Stewart platform.

PloS one·2026
Same journal

Barriers and facilitators to healthcare utilization amongst people living with sickle cell disease in the United States: A scoping review.

PloS one·2026
Same journal

Enhancing data completeness in time series: Imputation strategies for missing data using significant periodically correlated components.

PloS one·2026
Same journal

Key targets and mechanisms by which gut microbiota-derived metabolites regulate Alzheimer's disease through the immune - inflammatory pathway: Based on network pharmacology and molecular docking.

PloS one·2026
Same journal

Grid-tied Transformer-less Boost Switched Capacitor Topology (TLBSCT) for PV applications.

PloS one·2026
Same journal

The load-velocity profiles and exercise-specific velocity zones for seven commonly used weightlifting exercises.

PloS one·2026
See all related articles

This study developed a high-density DNA microarray to rapidly screen thousands of aptamer sequences for binding affinity. The method efficiently identifies optimal aptamer sequences and structures for high-affinity reagents like those targeting immunoglobulin E (IgE).

Area of Science:

  • Biotechnology
  • Molecular Biology
  • Bioinformatics

Background:

  • Optimizing high-affinity reagents is crucial in medicine and life sciences.
  • Aptamers, or single-stranded oligonucleotides, are affinity reagents that bind various targets.
  • Current methods for aptamer optimization present a significant bottleneck.

Purpose of the Study:

  • To develop a high-throughput method for synthesizing and analyzing aptamer sequence permutations.
  • To optimize aptamer function and identify high-affinity binding sequences.
  • To investigate the sequence-structure-function relationship of aptamers targeting immunoglobulin E (IgE).

Main Methods:

  • Utilized high-density DNA microarray technology to synthesize approximately 3,900 aptamer sequence permutations in triplicate.

More Related Videos

Mapping the Binding Site of an Aptamer on ATP Using MicroScale Thermophoresis
08:09

Mapping the Binding Site of an Aptamer on ATP Using MicroScale Thermophoresis

Published on: January 7, 2017

Aptamer-Based Target Detection Facilitated by a 3-Stage G-Quadruplex Isothermal Exponential Amplification Reaction
03:38

Aptamer-Based Target Detection Facilitated by a 3-Stage G-Quadruplex Isothermal Exponential Amplification Reaction

Published on: October 6, 2022

Related Experiment Videos

Last Updated: Jul 3, 2026

Exploring Sequence Space to Identify Binding Sites for Regulatory RNA-Binding Proteins
11:34

Exploring Sequence Space to Identify Binding Sites for Regulatory RNA-Binding Proteins

Published on: August 9, 2019

Mapping the Binding Site of an Aptamer on ATP Using MicroScale Thermophoresis
08:09

Mapping the Binding Site of an Aptamer on ATP Using MicroScale Thermophoresis

Published on: January 7, 2017

Aptamer-Based Target Detection Facilitated by a 3-Stage G-Quadruplex Isothermal Exponential Amplification Reaction
03:38

Aptamer-Based Target Detection Facilitated by a 3-Stage G-Quadruplex Isothermal Exponential Amplification Reaction

Published on: October 6, 2022

  • Performed on-chip interrogation of synthesized aptamers for binding to fluorescently labeled immunoglobulin E (IgE).
  • Analyzed fluorescence intensity data to correlate aptamer sequence with binding affinity.

    • Main Results:

    • Successfully synthesized and analyzed thousands of aptamer sequences in parallel.
    • Demonstrated high intra- and inter-chip correlation for aptamer sequence replicates.
    • Observed strong correlation between specific aptamer sequences, IgE concentration, and fluorescence intensity, indicating successful aptamer-mediated binding.

    Conclusions:

    • Massively parallel sequence-function analysis confirmed the importance of a consensus sequence and a common stem:loop structure for IgE binding aptamers.
    • The microarray approach provides an efficient, high-information content method for aptamer optimization.
    • This technique lays the foundation for better understanding and manipulation of high-affinity aptamer biomolecules.