Distribution of label spacings for genome mapping in nanochannels

In genome mapping experiments, long DNA molecules are stretched by confining them to very narrow channels, so that the locations of sequence-specific fluorescent labels along the channel axis provide large-scale genomic information. It is difficult, however, to make the channels narrow enough so tha...

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Bibliographic Details
Published in:Biomicrofluidics 2018-05, Vol.12 (3), p.034115-034115
Main Authors: Ödman, D., Werner, E., Dorfman, K. D., Doering, C. R., Mehlig, B.
Format: Article
Language:English
Subjects:
Biochemistry & Molecular Biology
Biophysics
confinement
Confining
conformation
Deoxyribonucleic acid
diffusion
DNA
dynamics
Fluorescence
Fysik
Genomes
manipulation
Mapping
Nanochannels
nanofluidic channels
Other Topics
Physical Sciences
Physics
Regular
Science & Technology
semiflexible polymer
simulation
single dna-molecules
statistics
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Description
Summary:In genome mapping experiments, long DNA molecules are stretched by confining them to very narrow channels, so that the locations of sequence-specific fluorescent labels along the channel axis provide large-scale genomic information. It is difficult, however, to make the channels narrow enough so that the DNA molecule is fully stretched. In practice, its conformations may form hairpins that change the spacings between internal segments of the DNA molecule, and thus the label locations along the channel axis. Here, we describe a theory for the distribution of label spacings that explains the heavy tails observed in distributions of label spacings in genome mapping experiments.
ISSN:1932-1058
1932-1058
DOI:10.1063/1.5038417