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Title Dynamics of DNA in a nanostructured confined environment
Author Mikkelsen, Morten Bo Lindholm (NanoSystemsEngineering Section, Department of Micro- and Nanotechnology, Technical University of Denmark, DTU, DK-2800 Kgs. Lyngby, Denmark)
Supervisor Kristensen, Anders (NanoSystemsEngineering Section, Department of Micro- and Nanotechnology, Technical University of Denmark, DTU, DK-2800 Kgs. Lyngby, Denmark)
Reisner, Walter (NSE-Optofluidics Group, Department of Micro- and Nanotechnology, Technical University of Denmark, DTU, DK-2800 Kgs. Lyngby, Denmark)
Institution Technical University of Denmark, DTU, DK-2800 Kgs. Lyngby, Denmark
Thesis level Master's thesis
Year 2008
Abstract The objective of the master project is to investigate the dynamics of long DNA molecules in a fluidic device consisting of a shallow nanoslit channel with transverse nanogrooves. A pressure driven liquid flow is used to force DNA molecules into the slit channel, where they are entropically trapped and stretched out in the grooves. An increased flow rate can make the molecules jump from groove to groove while passing through the shallow nanoslit, and it is shown that the molecule velocity through the nanoslit channel depends on the molecule length. In a series of experiments, nanogroove devices of different geometries are characterized using solutions of two different DNA molecules with different lengths, and it is investigated how these geometry differences influence the molecule velocities. A large relative velocity difference between lambda DNA (48.5 kbp) and T4 DNA (165.6 kbp) is seen in a 50 nm slit channel, and it is shown that a device with varying groove widths can be used as a molecule filter. Furthermore, a MATLAB script is used for automated extraction of data from raw movie files, and based on these data of the molecule propagation, a detailed statistical analysis is performed.
Pages 114
Keywords DNA separation; Nanofluidics; Entropic trapping
Fulltext
Original PDF MasterThesis.pdf (8.27 MB)
Admin Creation date: 2008-09-03    Update date: 2009-01-07    Source: dtu    ID: 223249    Original MXD