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Related Concept Videos

Labeling DNA Probes03:31

Labeling DNA Probes

DNA probes are fragments of DNA labeled with a reporter tag to enable their detection or purification. The resulting labeled DNA probes can then hybridize to target nucleic acid sequences through complementary base-pairing, and may be used to recover or identify these regions.
Radioisotopes, fluorophores, or small molecule binding partners like biotin or digoxigenin, are the most widely used reporter tags for labeling DNA probes. These labels can be attached to the probe DNA molecule via...
In-situ Hybridization02:31

In-situ Hybridization

In situ hybridization (ISH) is a technique used to detect and localize specific DNA or RNA molecules in cells, tissue, or tissue sections using a labeled probe. The technique was first used in 1969 for the investigation of nucleic acids. It is currently an essential tool in scientific research and clinical settings, especially for diagnostic purposes.
Types of probes and labels
A probe is a complementary strand of DNA or RNA that binds to corresponding nucleotide sequences in a cell. Many...
RNA-seq03:21

RNA-seq

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 microarray-based...
Next-generation Sequencing03:00

Next-generation Sequencing

The first human genome sequencing project cost $2.7 billion and was declared complete in 2003, after 15 years of international cooperation and collaboration between several research teams and funding agencies. Today, with the advent of next-generation sequencing technologies, the cost and time of sequencing a human genome have dropped over 100 fold.
Next-Generation Sequencing Methods
Although all next-generation methods use different technologies, they all share a set of standard features.

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Related Experiment Video

Updated: Jul 14, 2026

Split Hybridization Probe Utilizing a DNA Fluorescent Light-up Aptamer as a Signal Reporter for Sequence-Specific Nucleic Acid Analysis
07:10

Split Hybridization Probe Utilizing a DNA Fluorescent Light-up Aptamer as a Signal Reporter for Sequence-Specific Nucleic Acid Analysis

Published on: July 8, 2025

Stem-loop probe with universal reporter for sensing unlabeled nucleic acids.

Suk-Wah Tam-Chang1, Travis D Carson, Liming Huang

  • 1Department of Chemistry, College of Science, University of Nevada, Reno, NV 89557, USA. tchang@unr.edu

Analytical Biochemistry
|May 19, 2007
PubMed
Summary

A novel nucleic acid sensor uses a stem-loop probe (SP) and a universal reporter (UR) to detect unlabeled targets. This design enhances fluorescence upon target binding, offering a more efficient method for real-time analysis.

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Last Updated: Jul 14, 2026

Split Hybridization Probe Utilizing a DNA Fluorescent Light-up Aptamer as a Signal Reporter for Sequence-Specific Nucleic Acid Analysis
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Published on: July 8, 2025

Studying Ribonucleotide Incorporation: Strand-specific Detection of Ribonucleotides in the Yeast Genome and Measuring Ribonucleotide-induced Mutagenesis
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Studying Ribonucleotide Incorporation: Strand-specific Detection of Ribonucleotides in the Yeast Genome and Measuring Ribonucleotide-induced Mutagenesis

Published on: July 26, 2018

Area of Science:

  • Molecular Biology
  • Biochemistry
  • Analytical Chemistry

Background:

  • Nucleic acid sensing is crucial for diagnostics and research.
  • Existing methods often require labeled probes, increasing complexity and cost.
  • A need exists for efficient, sensitive, and adaptable nucleic acid detection systems.

Purpose of the Study:

  • To present the design and application of a novel sensing motif for unlabeled nucleic acids.
  • To demonstrate a fluorescence-based detection mechanism utilizing stem-loop probes and universal reporters.
  • To establish a more efficient platform for nucleic acid sensors and microarrays.

Main Methods:

  • Design of a stem-loop probe (SP) hybridized to a fluorescently labeled universal reporter (UR).
  • Exploitation of fluorescence quenching in the closed hairpin-probe complex.
  • Induction of fluorescence emission upon target hybridization and hairpin opening.

Main Results:

  • The SP-UR motif exhibits significant fluorescence quenching in its closed hairpin state.
  • Target hybridization opens the hairpin, separating the fluorophore from G-base quenchers.
  • This mechanism leads to a measurable increase in fluorescence intensity, signaling target presence.

Conclusions:

  • The developed SP-UR motif provides an efficient strategy for sensing unlabeled nucleic acids.
  • This approach offers advantages over traditional labeled probes for real-time analysis.
  • The system demonstrates potential for fabricating advanced nucleic acid sensors and microarrays.