Droplet-Based Microfluidic Systems for High-Throughput Single DNA Molecule Isothermal Amplification and Analysis

2009 ◽  
Vol 81 (12) ◽  
pp. 4813-4821 ◽  
Author(s):  
Linas Mazutis ◽  
Ali Fallah Araghi ◽  
Oliver J. Miller ◽  
Jean-Christophe Baret ◽  
Lucas Frenz ◽  
...  
Keyword(s):  
High Throughput ◽  
Isothermal Amplification ◽  
Microfluidic Systems ◽  
Dna Molecule ◽  
Single Dna Molecule

scholarly journals Loop-mediated isothermal amplification of a single DNA molecule in polyacrylamide gel-based microchamber

2009 ◽  
Vol 11 (3) ◽  
pp. 711-711
Author(s):  
Liza Lam ◽  
Shouichi Sakakihara ◽  
Koji Ishizuka ◽  
Shoji Takeuchi ◽  
Hideyuki F. Arata ◽  
...  
Keyword(s):  
Polyacrylamide Gel ◽  
Isothermal Amplification ◽  
Loop Mediated Isothermal Amplification ◽  
Dna Molecule ◽  
Single Dna Molecule

A microfluidic chip capable of generating and trapping emulsion droplets for digital loop-mediated isothermal amplification analysis

Lab on a Chip ◽  
2018 ◽  
Vol 18 (2) ◽  
pp. 296-303 ◽  
Author(s):  
Yu-Dong Ma ◽  
Kang Luo ◽  
Wen-Hsin Chang ◽  
Gwo-Bin Lee
Keyword(s):  
Nucleic Acids ◽  
Microfluidic Chip ◽  
Limit Of Detection ◽  
Isothermal Amplification ◽  
Loop Mediated Isothermal Amplification ◽  
Novel Device ◽  
Dna Molecule ◽  
Emulsion Droplets ◽  
Droplet Array ◽  
Single Dna Molecule

A microfluidic droplet array chip was designed to execute the digital LAMP. This novel device was capable of 1) creating emulsion droplets, 2) sorting them into a trapping array, and 3) executing LAMP for only 40 min. Nucleic acids could be accurately quantified and the limit of detection was only single DNA molecule.

Loop-mediated isothermal amplification of a single DNA molecule in polyacrylamide gel-based microchamber

2008 ◽  
Vol 10 (4) ◽  
pp. 539-546 ◽  
Author(s):  
Liza Lam ◽  
Shouichi Sakakihara ◽  
Koji Ishizuka ◽  
Shoji Takeuchi ◽  
Hideyuki F. Arata ◽  
...  
Keyword(s):  
Polyacrylamide Gel ◽  
Isothermal Amplification ◽  
Loop Mediated Isothermal Amplification ◽  
Dna Molecule ◽  
Single Dna Molecule

scholarly journals Correction to Single DNA Molecule Patterning for High-Throughput Epigenetic Mapping

2012 ◽  
Vol 84 (5) ◽  
pp. 2606-2606 ◽  
Author(s):  
Aline Cerf ◽  
Benjamin R. Cipriany ◽  
Jaime J. Benítez ◽  
Harold G. Craighead
Keyword(s):  
High Throughput ◽  
Dna Molecule ◽  
Single Dna Molecule

scholarly journals Single DNA Molecule Patterning for High-Throughput Epigenetic Mapping

2011 ◽  
Vol 83 (21) ◽  
pp. 8073-8077 ◽  
Author(s):  
Aline Cerf ◽  
Benjamin R. Cipriany ◽  
Jaime J. Benítez ◽  
Harold G. Craighead
Keyword(s):  
High Throughput ◽  
Dna Molecule ◽  
Single Dna Molecule

The elastic theory of a single DNA molecule

Pramana ◽  
2003 ◽  
Vol 61 (2) ◽  
pp. 353-360
Author(s):  
Haijun Zhou ◽  
Yang Zhang ◽  
Zhang-Can Ou-Yang
Keyword(s):  
Elastic Theory ◽  
Dna Molecule ◽  
Single Dna Molecule

Label-free plasmonic assisted optical trapping of single DNA molecule

2021 ◽  
Author(s):  
Lei Chen ◽  
Wei Liu ◽  
Dongyi Shen ◽  
Zhihao Zhou ◽  
Yuehan Liu ◽  
...  
Keyword(s):  
Optical Trapping ◽  
Label Free ◽  
Dna Molecule ◽  
Single Dna Molecule

Analysis of an origin of DNA amplification in Sciara coprophila by a novel three-dimensional gel method

1994 ◽  
Vol 14 (2) ◽  
pp. 1520-1529
Author(s):  
C Liang ◽  
S A Gerbi
Keyword(s):  
Three Dimensional ◽  
Dna Amplification ◽  
Gel Method ◽  
Dna Molecule ◽  
Cutting Out ◽  
Origin Region ◽  
2D Gel ◽  
Third Dimension ◽  
Single Dna Molecule ◽  
Replication Intermediates

The replication origin region for DNA amplification in Sciara coprophila DNA puff II/9A was analyzed with a novel three-dimensional (3D) gel method. Our 3D gel method involves running a neutral/neutral 2D gel and then cutting out vertical gel slices from the area containing replication intermediates, rotating these slices 90 degrees to form the third dimension, and running an alkaline gel for each of the slices. Therefore, replication intermediates are separated into forks and bubbles and then are resolved into parental and nascent strands. We used this technique to determine the size of forks and bubbles and to confirm the location of the major initiation region previously mapped by 2D gels to a 1-kb region. Furthermore, our 3D gel analyses suggest that only one initiation event in the origin region occurs on a single DNA molecule and that the fork arc in the composite fork-plus-bubble pattern in neutral/neutral 2D gels does not result from broken bubbles.

scholarly journals Determining Trap Compliances, Microsphere Size Variations, and Response Linearities in Single DNA Molecule Elasticity Measurements with Optical Tweezers

2021 ◽  
Vol 8 ◽  
Author(s):  
Youbin Mo ◽  
Mounir Fizari ◽  
Kristina Koharchik ◽  
Douglas E. Smith
Keyword(s):  
Optical Tweezers ◽  
Dna Elasticity ◽  
Dna Stretching ◽  
Dna Molecule ◽  
Scale Factors ◽  
Length Measurements ◽  
Microsphere Size ◽  
Force Range ◽  
Single Dna Molecule ◽  
Displacement Measurements

We previously introduced the use of DNA molecules for calibration of biophysical force and displacement measurements with optical tweezers. Force and length scale factors can be determined from measurements of DNA stretching. Trap compliance can be determined by fitting the data to a nonlinear DNA elasticity model, however, noise/drift/offsets in the measurement can affect the reliability of this determination. Here we demonstrate a more robust method that uses a linear approximation for DNA elasticity applied to high force range (25–45 pN) data. We show that this method can be used to assess how small variations in microsphere sizes affect DNA length measurements and demonstrate methods for correcting for these errors. We further show that these measurements can be used to check assumed linearities of system responses. Finally, we demonstrate methods combining microsphere imaging and DNA stretching to check the compliance and positioning of individual traps.

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