NDLI: Design and numerical simulation of a DNA electrophoretic stretching device

Content Provider	Royal Society of Chemistry (RSC)
Author	Doyle, Patrick S. Kim, Ju Min
Copyright Year	2007
Abstract	DNA stretching is now a key technology in emerging DNA mapping devices such as direct linear analysis (DLA), though DNA stretching in a high throughput manner is still a challenging problem. In this work, we present a new microfluidic channel design to enhance DNA stretching using kinematic analysis and Brownian dynamics-finite element method (BD-FEM). Our group recently showed in experiments that the extensional electrophoretic field arising from a hyperbolic microcontraction can be utilized to stretch T4-DNA. We demonstrate the reliability of our BD-FEM model for the present problem by showing that the numerical predictions are consistent with the experimental data for the hyperbolic channel. We then investigate DNA stretching for four different funnel shapes. Surprisingly the maximum mean DNA stretch is quite similar in all four designs. Finally, we propose a new design with a side-feeding branch to enhance stretching based on a kinematic analysis along different feeding locations. Our numerical simulation predicted that DNA stretching can be dramatically enhanced using side-feeding.
Starting Page	213
Ending Page	225
Page Count	13
File Format	HTM / HTML PDF
ISSN	14730197
Volume Number	7
Issue Number	2
Journal	Lab on a Chip
DOI	10.1039/b612021k
Language	English
Publisher	Royal Society of Chemistry
Access Restriction	Subscribed
Subject Keyword	Hyperbolic geometry DNA Enterobacteria phage T4 Electrophoresis
Content Type	Text
Resource Type	Article
Subject	Chemistry Nanoscience and Nanotechnology Biochemistry Bioengineering Biomedical Engineering

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4	Project PI / Joint PI	Principal Investigator and Joint Principal Investigators of the project	Dr. B. Sutradhar bsutra@ndl.gov.in Prof. Saswat Chakrabarti will be added soon
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