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 Videos

Molecular beacon sequence design algorithm.

W Todd Monroe1, Frederick R Haselton

  • 1Vanderbilt University, Nashville, TN, USA. tmonroe@lsu.edu

Biotechniques
|January 28, 2003
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

Toward More Translational Tumor Models: Breast dECM-Based 3D Systems Capture Native Microenvironmental Cues.

Bioengineering (Basel, Switzerland)·2026
Same author

L-DNA calibrators for PCR amplicon characterization.

Bioscience nanotechnology·2026
Same author

A 3D-printed microdevice for dielectrophoretic torque-driven rotation of dielectric microspheres to support development of manipulation systems for zebrafish eggs.

Journal of micromechanics and microengineering : structures, devices, and systems·2026
Same author

Investigating microbiota and biochemical changes in vaginal fluid toward point-of-care microbial monitoring using surface-enhanced Raman spectroscopy.

Biophotonics discovery·2026
Same author

Evaluation of Metaplastic Triple-Negative Breast Cancer Extracellular Matrix Structure and Protein Composition.

Bioengineering (Basel, Switzerland)·2026
Same author

Single-Sample Melt-Based Screening for Rifampicin Susceptibility in the Emerging Mutation Hotspot at <i>rpoB</i> Codon 491.

ACS infectious diseases·2025
Same journal

Investigating the interactomic landscape of survival motor neuron (SMN) and the SMNΔ7 truncated protein.

BioTechniques·2026
Same journal

Antigen retrieval-immunofluorescence on free floating sections to visualize the liver lobule and its cellular makeup.

BioTechniques·2026
Same journal

Special approach of droplet digital polymerase chain reaction (ddPCR) for transgene stability of a Chinese hamster ovary (CHO) cell line.

BioTechniques·2026
Same journal

Strand-specific quantification of L1 ORF0 and related transcripts by multiplex reverse transcription with tagged primers.

BioTechniques·2026
Same journal

Why and when should we choose digital PCR?

BioTechniques·2026
Same journal

Quantitative and unbiased lung alveolar septum assessment in an LPS experimental mouse model using 2D-spatial correlation image analysis from hematoxylin and eosin slides.

BioTechniques·2026
See all related articles

This study presents a cost-effective method for designing optimal molecular beacons (fluorogenic hybridization probes) using free web tools and Excel. The algorithm aids researchers in selecting the best sequences before synthesis, reducing costs and improving detection accuracy.

Area of Science:

  • Molecular Biology
  • Bioinformatics
  • Biotechnology

Background:

  • Molecular beacons are essential fluorogenic hybridization probes for specific nucleic acid detection.
  • High synthesis costs can be a barrier to widespread molecular beacon use.
  • Optimal sequence design is critical for molecular beacon performance.

Purpose of the Study:

  • To present a cost-effective method for designing optimal molecular beacons.
  • To provide a tool for researchers, especially in smaller labs, to design molecular beacons efficiently.
  • To reduce the financial burden associated with molecular beacon synthesis.

Main Methods:

  • Utilized a method based on free Web-based tools and Microsoft Excel formulas/macros.
  • Employed mfold structural predictions for analyzing candidate sequences.

Related Experiment Videos

  • Developed an algorithm to rank potential molecular beacon sequences.

    • Main Results:

    • Successfully developed an algorithm for ranking candidate molecular beacon sequences.
    • Demonstrated the feasibility of using accessible web tools and Excel for molecular beacon design.
    • The method facilitates rational sequence selection prior to synthesis.

    Conclusions:

    • The presented public domain algorithm offers a valuable resource for optimizing molecular beacon design.
    • This approach can significantly lower costs and improve the efficiency of molecular beacon development.
    • Aids laboratories in achieving accurate nucleic acid detection through rational probe design.