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Register a new userElucidating the $^1$H NMR relaxation mechanism in polydisperse polymers and bitumen using measurements, MD simulations, and models
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The mechanism behind the $^1$H NMR frequency dependence of $T_1$ and the viscosity dependence of $T_2$ for polydisperse polymers and bitumen remains elusive. We elucidate the matter through NMR relaxation measurements of polydisperse polymers over an extended range of frequencies ($f_0 = 0.01 leftrightarrow$ 400 MHz) and viscosities ($eta = 385 leftrightarrow 102,000$ cP) using $T_{1}$ and $T_2$ in static fields, $T_{1}$ field-cycling relaxometry, and $T_{1rho}$ in the rotating frame. We account for the anomalous behavior of the log-mean relaxation times $T_{1LM} propto f_0$ and $T_{2LM} propto (eta/T)^{-1/2}$ with a phenomenological model of $^1$H-$^1$H dipole-dipole relaxation which includes a distribution in molecular correlation times and internal motions of the non-rigid polymer branches. We show that the model also accounts for the anomalous $T_{1LM}$ and $T_{2LM}$ in previously reported bitumen measurements. We find that molecular dynamics (MD) simulations of the $T_{1} propto f_0$ dispersion and $T_2$ of similar polymers simulated over a range of viscosities ($eta = 1 leftrightarrow 1,000$ cP) are in good agreement with measurements and the model. The $T_{1} propto f_0$ dispersion at high viscosities agrees with previously reported MD simulations of heptane confined in a polymer matrix, which suggests a common NMR relaxation mechanism between viscous polydisperse fluids and fluids under confinement, without the need to invoke paramagnetism.
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Atomistic molecular dynamics simulations are used to investigate $^1$H NMR $T_1$ relaxation of water from paramagnetic Gd$^{3+}$ ions in solution at 25$^{circ}$C. Simulations of the $T_1$ relaxivity dispersion function $r_1$ computed from the Gd$^{3+}$--$^1$H dipole--dipole autocorrelation function agree within $simeq 8$% of measurements in the range $f_0 simeq $ 5 $leftrightarrow$ 500 MHz, without any adjustable parameters in the interpretation of the simulations, and without any relaxation models. The simulation results are discussed in the context of the Solomon-Bloembergen-Morgan inner-sphere relaxation model, and the Hwang-Freed outer-sphere relaxation model. Below $f_0 lesssim $ 5 MHz, the simulation overestimates $r_1$ compared to measurements, which is used to estimate the zero-field electron-spin relaxation time. The simulations show potential for predicting $r_1$ at high frequencies in chelated Gd$^{3+}$ contrast-agents used for clinical MRI.
Molecular dynamics (MD) simulations are used to investigate $^1$H nuclear magnetic resonance (NMR) relaxation and diffusion of bulk $n$-C$_5$H$_{12}$ to $n$-C$_{17}$H$_{36}$ hydrocarbons and bulk water. The MD simulations of the $^1$H NMR relaxation times $T_{1,2}$ in the fast motion regime where $T_1 = T_2$ agree with measured (de-oxygenated) $T_2$ data at ambient conditions, without any adjustable parameters in the interpretation of the simulation data. Likewise, the translational diffusion $D_T$ coefficients calculated using simulation configurations are well-correlated with measured diffusion data at ambient conditions. The agreement between the predicted and experimentally measured NMR relaxation times and diffusion coefficient also validate the forcefields used in the simulation. The molecular simulations naturally separate intramolecular from intermolecular dipole-dipole interactions helping bring new insight into the two NMR relaxation mechanisms as a function of molecular chain-length (i.e. carbon number). Comparison of the MD simulation results of the two relaxation mechanisms with traditional hard-sphere models used in interpreting NMR data reveals important limitations in the latter. With increasing chain length, there is substantial deviation in the molecular size inferred on the basis of the radius of gyration from simulation and the fitted hard-sphere radii required to rationalize the relaxation times. This deviation is characteristic of the local nature of the NMR measurement, one that is well-captured by molecular simulations.
We report self-assembly and phase transition behavior of lower diamondoid molecules and their primary derivatives using molecular dynamic (MD) simulation and density functional theory (DFT) calculations. Two lower diamondoids (adamantane and diamantane), three adamantane derivatives (amantadine, memantine and rimantadine) and two artificial molecules (Adamantane+Na and Diamantane+Na) are studied separately in 125-molecule simulation systems. We performed DFT calculations to optimize their molecular geometries and obtain atomic electronic charges for the corresponding MD simulation, by which we obtained self-assembly structures and simulation trajectories for the seven molecules. Radial distribution functions and structure factors studies showed clear phase transitions for the seven molecules.
We discuss an implementation of molecular dynamics (MD) simulations on a graphic processing unit (GPU) in the NVIDIA CUDA language. We tested our code on a modern GPU, the NVIDIA GeForce 8800 GTX. Results for two MD algorithms suitable for short-ranged and long-ranged interactions, and a congruential shift random number generator are presented. The performance of the GPUs is compared to their main processor counterpart. We achieve speedups of up to 80, 40 and 150 fold, respectively. With newest generation of GPUs one can run standard MD simulations at 10^7 flops/$.
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