DNA barcoding, Gaussian processes, Probability theory, Monte Carlo methods, Electrostatics, Fluorophores, Nanochannels, Polymers, Diffraction optics, Computer simulation
We develop an approximation for the probability of optically resolving two fluorescent labels on the backbone of a DNA molecule confined in a nanochannel in the Odijk regime as a function of the fluorescence wavelength, channel size, and the properties of the DNA (persistence length and effective width). The theoretical predictions agree well with equivalent data produced by Monte Carlo simulations of a touching wormlike bead model of DNA in a high ionic strength buffer. Although the theory is only strictly valid in the limit where the effective width of the nanochannel is small compared with the persistence length of the DNA, simulations indicate that the theoretical predictions are reasonably accurate for channel widths up to two-thirds of the persistence length. Our results quantify the conjecture that DNA barcoding has kilobase pair resolution—provided the nanochannel lies in the Odijk regime.
Original Publication Citation
Biomicrofluidics 6, 014101 (2012); https://doi.org/10.1063/1.3672691
BYU ScholarsArchive Citation
Wang, Yanwei; Reinhart, Wes F.; Tree, Douglas R.; and Dorfman, Kevin D., "Resolution limit for DNA barcodes in the Odijk regime" (2012). Faculty Publications. 6292.
American Institute of Physics
Ira A. Fulton College of Engineering
© 2012 American Institute of Physics.
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