Search research articles

ABOUT JoVE

Overview Leadership Blog JoVE Help Center

AUTHORS

Publishing Process Editorial Board Scope & Policies Peer Review FAQ Submit

LIBRARIANS

Testimonials Subscriptions Access Resources Library Advisory Board FAQ

RESEARCH

JoVE Journal Methods Collections JoVE Encyclopedia of Experiments Archive

EDUCATION

JoVE Core JoVE Business JoVE Science Education JoVE Lab Manual Faculty Resource Center Faculty Site

Terms & Conditions of Use

Related Concept Videos

Proofreading

Proofreading

Synthesis of new DNA molecules is carried out by the enzyme DNA polymerase, which adds nucleotides on the daughter strand complementary to the template DNA strand. DNA polymerase has a higher affinity to add the correct base and ensures fidelity during DNA replication. Furthermore, it exhibits proofreading activity during replication, using an exonuclease domain that cuts off incorrect nucleotides from the nascent DNA strand.
Errors During Replication are Corrected by the DNA Polymerase...

DNA Isolation

DNA Isolation

DNA isolation protocols can be fast and straightforward or complex and time-consuming depending on the type and quality of DNA required for further processing. For example, plasmid DNA extraction is a bit more complicated than genomic DNA extraction because of the need for an appropriate lysis method to separate plasmid DNA from gDNA during isolation. However, for specific applications, such as long-range DNA sequencing that require a good yield of high- quality DNA samples, we need to follow...

Next-generation Sequencing

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....

DNA Agarose Gel Electrophoresis

DNA Agarose Gel Electrophoresis

Agarose gel electrophoresis is a laboratory technique commonly used to separate DNA fragments by size. However, it can also be used to isolate and purify DNA fragments using a gel extraction protocol.
Gel extraction follows five major steps: running gel electrophoresis to separate fragments, isolating the individual bands, extracting DNA from those bands, and removing the dye and salts from the extracted mixture to obtain pure DNA.
In cloning experiments, both the insert and vector DNA...

Labeling DNA Probes

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...

You might also read

Related Articles

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

Sort by

Same author

PE-STAR: prime editing with SOS-triggered and RecJ-augmented repair enables high-efficiency editing in Escherichia coli.

Nucleic acids research·2026

Same author

A pH-regulated camouflage strategy for access control in molecular systems.

Nanoscale horizons·2026

Same author

DNA-based cooperative games: an interactive collective decision-making architecture.

Organic & biomolecular chemistry·2026

Same author

DNACSE: Enhancing Genomic LLMs with Contrastive Learning for DNA Barcode Identification.

Journal of chemical information and modeling·2026

Same author

Designing DNA Triplexes with High Affinity and Specific Recognition Based on Multiple Biophysical Mechanisms.

Journal of chemical theory and computation·2025

Same author

STWM: Sliding Time Window Method Driven by Enzymes for Image Information Access.

ACS applied materials & interfaces·2025

Search research articles

Related Experiment Video

Updated: Jun 27, 2025

DNA-Tethered RNA Polymerase for Programmable In vitro Transcription and Molecular Computation

DNA-Tethered RNA Polymerase for Programmable In vitro Transcription and Molecular Computation

Published on: December 29, 2021

Arbitrary Digital DNA Computing: A Programmable Molecular Perceptron Driven by Lambda Exonuclease for Lighting up

Xun Zhang¹, Xin Liu¹, Xiaokang Zhang¹

¹School of Computer Science and Technology, Dalian University of Technology, Dalian 116024, China.

ACS Applied Materials & Interfaces

|April 30, 2024

Summary

This study introduces a versatile molecular perceptron for DNA circuits, simplifying complex logic operations. This advance enhances DNA circuit design for biosensing and targeted therapies.

Keywords:

DNA circuits Lambda exonuclease hydrolysis characteristic molecular digital computation molecular perceptron

More Related Videos

Automated Robotic Liquid Handling Assembly of Modular DNA Devices

Automated Robotic Liquid Handling Assembly of Modular DNA Devices

Published on: December 1, 2017

Plasmid-derived DNA Strand Displacement Gates for Implementing Chemical Reaction Networks

Plasmid-derived DNA Strand Displacement Gates for Implementing Chemical Reaction Networks

Published on: November 25, 2015

Related Experiment Videos

Last Updated: Jun 27, 2025

DNA-Tethered RNA Polymerase for Programmable In vitro Transcription and Molecular Computation

DNA-Tethered RNA Polymerase for Programmable In vitro Transcription and Molecular Computation

Published on: December 29, 2021

Automated Robotic Liquid Handling Assembly of Modular DNA Devices

Automated Robotic Liquid Handling Assembly of Modular DNA Devices

Published on: December 1, 2017

Plasmid-derived DNA Strand Displacement Gates for Implementing Chemical Reaction Networks

Plasmid-derived DNA Strand Displacement Gates for Implementing Chemical Reaction Networks

Published on: November 25, 2015

Area of Science:

Biochemistry
Molecular Computing
Synthetic Biology

Background:

DNA circuits offer molecular information processing for bioanalytical applications.
Traditional DNA circuits using cascaded logic gates face scalability and cost limitations.

Purpose of the Study:

To develop a novel molecular perceptron for versatile DNA circuit design.
To overcome limitations of traditional logic gate cascades in DNA computing.

Main Methods:

Utilized the Lambda exonuclease interface reaction mechanism.
Developed a mathematical model and heuristic algorithm for parameter optimization.
Performed simulations and Förster Resonance Energy Transfer (FRET) experiments.

Main Results:

Demonstrated enhanced versatility of DNA circuits by adjusting weight and bias parameters.
Successfully simulated and experimentally validated a series of logic operations.
Confirmed the universality of the proposed molecular perceptron.

Conclusions:

The molecular perceptron offers a new paradigm for designing versatile DNA circuits.
This innovation has potential applications in biosensing, targeted therapy, and nanomachines.
The approach enhances scalability and reduces development costs for molecular computing.