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Title: Particle Interactions in DNA-laden Flows

Abstract

Microfluidic devices are becoming state-of-the-art in many significant applications including pathogen detection, continuous monitoring, and drug delivery. Numerical algorithms which can simulate flows of complex fluids within these devices are needed for their development and optimization. A method is being developed at LLNL by Trebotich et. al. [30] for simulations of DNA-laden flows in complex microscale geometries such as packed bed reactors and pillar chips. In this method an incompressible Newtonian fluid is discretized with Cartesian grid embedded boundary methods, and the DNA is represented by a bead-rod polymer model. The fluid and polymer are coupled through a body force. In its current state, polymer-surface interactions are treated as elastic collisions between beads and surface, and polymer-polymer interactions are neglected. Implementation of polymer-polymer interactions is the main objective of this work. It is achieved by two methods: (1) a rigid constraint whereby rods elastically bounce off one another, and (2) a smooth potential acting between rods. In addition, a smooth potential is also implemented for the polymer-surface interactions. Background information will also be presented as well as related work by other researchers.

Authors:
; ;
Publication Date:
Research Org.:
Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)
Sponsoring Org.:
USDOE
OSTI Identifier:
898439
Report Number(s):
UCRL-TR-217843
TRN: US0701909
DOE Contract Number:
W-7405-ENG-48
Resource Type:
Technical Report
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; 72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS; 99 GENERAL AND MISCELLANEOUS//MATHEMATICS, COMPUTING, AND INFORMATION SCIENCE; ALGORITHMS; DETECTION; DNA; IMPLEMENTATION; LAWRENCE LIVERMORE NATIONAL LABORATORY; MONITORING; OPTIMIZATION; PACKED BEDS; PARTICLE INTERACTIONS; PATHOGENS; POLYMERS

Citation Formats

Bybee, M D, Miller, G H, and Trebotich, D. Particle Interactions in DNA-laden Flows. United States: N. p., 2005. Web. doi:10.2172/898439.
Bybee, M D, Miller, G H, & Trebotich, D. Particle Interactions in DNA-laden Flows. United States. doi:10.2172/898439.
Bybee, M D, Miller, G H, and Trebotich, D. Tue . "Particle Interactions in DNA-laden Flows". United States. doi:10.2172/898439. https://www.osti.gov/servlets/purl/898439.
@article{osti_898439,
title = {Particle Interactions in DNA-laden Flows},
author = {Bybee, M D and Miller, G H and Trebotich, D},
abstractNote = {Microfluidic devices are becoming state-of-the-art in many significant applications including pathogen detection, continuous monitoring, and drug delivery. Numerical algorithms which can simulate flows of complex fluids within these devices are needed for their development and optimization. A method is being developed at LLNL by Trebotich et. al. [30] for simulations of DNA-laden flows in complex microscale geometries such as packed bed reactors and pillar chips. In this method an incompressible Newtonian fluid is discretized with Cartesian grid embedded boundary methods, and the DNA is represented by a bead-rod polymer model. The fluid and polymer are coupled through a body force. In its current state, polymer-surface interactions are treated as elastic collisions between beads and surface, and polymer-polymer interactions are neglected. Implementation of polymer-polymer interactions is the main objective of this work. It is achieved by two methods: (1) a rigid constraint whereby rods elastically bounce off one another, and (2) a smooth potential acting between rods. In addition, a smooth potential is also implemented for the polymer-surface interactions. Background information will also be presented as well as related work by other researchers.},
doi = {10.2172/898439},
journal = {},
number = ,
volume = ,
place = {United States},
year = {Tue Dec 20 00:00:00 EST 2005},
month = {Tue Dec 20 00:00:00 EST 2005}
}

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