Journal
/
Biology
/
Plasmid-derived DNA Strand Displacement Gates for Implementing Chemical Reaction Networks
JoVE Journal
Biology
This content is Free Access.
JoVE Journal Biology
Plasmid-derived DNA Strand Displacement Gates for Implementing Chemical Reaction Networks

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

DOI:
10.3791/53087-v

•

07:50 min

•

November 25, 2015

•

, ,
1Department of Electrical Engineering,University of Washington, 2Department of Computer Science & Engineering,University of Washington

Chapters

  • 00:05Title
  • 00:32Enzymatic Processing of Plasmids
  • 03:06Fluorescence Measurements for a Chemical Reaction A + B -> B + C
  • 06:13Results: Fluorescence Kinetics Measurements (Plasma-derived vs. Synthesized Gates)
  • 07:24Conclusion

Summary

Automatic Translation

Automatic Translation

This protocol describes a method for deriving DNA strand displacement gates from plasmids and testing them using fluorescence kinetics measurements. Gates can be modularly composed into multi-component systems to approximate the behavior of formal chemical reaction networks (CRN), demonstrating a new use for CRNs as a molecular programming language.

Tags

DNA NanotechnologyPlasmid DNANicked Double-stranded DNA (ndsDNA)Strand Displacement GatesChemical Reaction NetworksMolecular ProgrammingEnzymatic ProcessingFluorescence Kinetics

Article

Embed

ADD TO PLAYLIST

Usage Statistics

Related Videos

check_url/53087?article_type=v

Analysis of DNA Double-strand Break (DSB) Repair in Mammalian Cells
check_url/53087?article_type=v

How to Culture, Record and Stimulate Neuronal Networks on Micro-electrode Arrays (MEAs)
check_url/53087?article_type=v

Bioengineering Human Microvascular Networks in Immunodeficient Mice
check_url/53087?article_type=v

Iterative Optimization of DNA Duplexes for Crystallization of SeqA-DNA Complexes
check_url/53087?article_type=v

Identification of Metabolically Active Bacteria in the Gut of the Generalist Spodoptera littoralis via DNA Stable Isotope Probing Using 13C-Glucose
check_url/53087?article_type=v

Protocols for Implementing an Escherichia coli Based TX-TL Cell-Free Expression System for Synthetic Biology
check_url/53087?article_type=v

Real-time Imaging of Single Engineered RNA Transcripts in Living Cells Using Ratiometric Bimolecular Beacons
check_url/53087?article_type=v

Selected Reaction Monitoring Mass Spectrometry for Absolute Protein Quantification
check_url/53087?article_type=v

In Vivo Alkaline Comet Assay and Enzyme-modified Alkaline Comet Assay for Measuring DNA Strand Breaks and Oxidative DNA Damage in Rat Liver
check_url/53087?article_type=v

Amplification, Next-generation Sequencing, and Genomic DNA Mapping of Retroviral Integration Sites

Read Article