Anisotropic Hydrodynamic Mean-Field Theory for Semiflexible Polymers under Tension

Hinczewski, Michael; Netz, Roland R.

doi:10.1021/ma2009645

Cited by 13 publications

(12 citation statements)

References 44 publications

(196 reference statements)

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“…Let us define again a characteristic function α(t) as in Eq. (9). Generally, α(t) will approach unity for very small and very large values of time t, but will have a minimum at intermediate time values .…”

mentioning

confidence: 97%

Polymer Dynamics, Fluorescence Correlation Spectroscopy, and the Limits of Optical Resolution

Enderlein

2012

Phys. Rev. Lett.

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In recent years, fluorescence correlation spectroscopy has been increasingly applied for the study of polymer dynamics on the nanometer scale. The core idea is to extract, from a measured autocorrelation curve, an effective mean-square displacement function that contains information about the underlying conformational dynamics. The paper presents a fundamental study of the applicability of fluorescence correlation spectroscopy for the investigation of nanoscale conformational and diffusional dynamics. We find that fluorescence correlation spectroscopy cannot reliably elucidate processes on length scales much smaller than the resolution limit of the optics used and that its improper use can yield spurious results for the observed dynamics.

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confidence: 97%

Polymer Dynamics, Fluorescence Correlation Spectroscopy, and the Limits of Optical Resolution

Enderlein

2012

Phys. Rev. Lett.

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“…This behavior is well accounted for by the Zimm model [72]. Due to the larger persistence length of double-stranded DNA (L p = 50nm), the inherent molecular rigidity (rod-like behavior) influences the short-time dynamics that are modulated by hydrodynamic effects [113,205]. At intermediate times, DNA dynamics is quantitatively described by Zimm theory for a semi-flexible chain [113,114].…”

Section: Polymer Models For Modeling Dna Dynamicsmentioning

confidence: 99%

“…Due to the larger persistence length of double-stranded DNA (L p = 50nm), the inherent molecular rigidity (rod-like behavior) influences the short-time dynamics that are modulated by hydrodynamic effects [113,205]. At intermediate times, DNA dynamics is quantitatively described by Zimm theory for a semi-flexible chain [113,114]. More elaborated models take into account bending elasticity to force the alinement of three consecutive monomers, as well as rotational energy of the strand [143].…”

Section: Polymer Models For Modeling Dna Dynamicsmentioning

confidence: 99%

Polymer physics of nuclear organization and function

Amitai

Holcman

2016

Preprint

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We review here recent progress to link the nuclear organization to its function, based on elementary physical processes such as diffusion, polymer dynamics of DNA, chromatin and the search mechanism for a small target by double-stranded DNA (dsDNA) break. These physical models and their analysis make it possible to compute critical rates involved in cell reorganization timing, which depends on many parameters. In the framework of polymer models, various empirical observations are interpreted as anomalous diffusion of chromatin at various time scales. The reviewed theoretical approaches offer a framework for extracting features, biophysical parameters, predictions, and so on, based on a large variety of experimental data, such as chromosomal capture data, single particle trajectories, and more. Combining theoretical approaches with live cell microscopy data should unveil some of the still unexplained behavior of the nucleus in carrying out some of its key function involved in survival, DNA repair or gene activation.

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“…The FJC model describes a single, isolated, flexible, polymer chain without any long-range interactions. The WLC model describes a polymer chain with intermediate behavior between a rigid-rod and a flexible coil [21,27,28]. In addition, further development of these models is still an important research topic [29].…”

Section: Introductionmentioning

confidence: 99%

Drag force of polyethyleneglycol in flow measured by a scanning probe microscope

2019

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We propose a method to measure the drag force due to synthetic polymers in flowing fluids by using a scanning probe microscope (SPM). Methoxy polyethyleneglycol thiol (mPEG-SH) was attached to the cantilever probe of the SPM, which was further immersed in flows of glycerol and polyethyleneglycol (PEG) solutions. The mPEG-SH-bonded cantilever detects the extra force due to polymer-polymer and polymer-fluids interaction in flowing fluids. The conformation of the mPEG-SH polymer bonded to the probe of the cantilever was predicted as having a stem and ellipsoidal-flower shape, and the drag force due to the deformed mPEG-SH was calculated. The forces detected by experiments using the SPM and the forces obtained by model calculations were compared and found to be reasonably close.

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Anisotropic Hydrodynamic Mean-Field Theory for Semiflexible Polymers under Tension

Cited by 13 publications

References 44 publications

Polymer Dynamics, Fluorescence Correlation Spectroscopy, and the Limits of Optical Resolution

Polymer Dynamics, Fluorescence Correlation Spectroscopy, and the Limits of Optical Resolution

Polymer physics of nuclear organization and function

Drag force of polyethyleneglycol in flow measured by a scanning probe microscope

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