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• W2289849046 startingPage "1042" @default.
• W2289849046 abstract "Understanding how the sequence of a DNA molecule affects its dynamic properties is a central problem affecting biochemistry and biotechnology. The process of cyclizing short DNA, as a critical step in molecular cloning, lacks a comprehensive picture of the kinetic process containing sequence information. We have elucidated this process by using coarse-grained simulations, enhanced sampling methods, and recent theoretical advances. We are able to identify the types and positions of structural defects during the looping process at a base-pair level. Correlations along a DNA molecule dictate critical sequence positions that can affect the looping rate. Structural defects change the bending elasticity of the DNA molecule from a harmonic to subharmonic potential with respect to bending angles. We explore the subelastic chain as a possible model in loop formation kinetics. A sequence-dependent model is developed to qualitatively predict the relative loop formation time as a function of DNA sequence." @default.
• W2289849046 created "2016-06-24" @default.
• W2289849046 creator A5046225712 @default.
• W2289849046 creator A5049887816 @default.
• W2289849046 date "2016-03-07" @default.
• W2289849046 modified "2023-10-16" @default.
• W2289849046 title "Sequence Affects the Cyclization of DNA Minicircles" @default.
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• W2289849046 doi "https://doi.org/10.1021/acs.jpclett.6b00246" @default.
• W2289849046 hasPubMedCentralId "https://www.ncbi.nlm.nih.gov/pmc/articles/5297252" @default.
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