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# Line 137 | Line 137 | underlying mechanism for the phenomena was investigate
137  
138   \section{Methodology}
139   \subsection{Imposd-Flux Methods in MD Simulations}
140 < [CF. CAHILL]
141 < For systems with low interfacial conductivity one must have a method
142 < capable of generating relatively small fluxes, compared to those
143 < required for bulk conductivity. This requirement makes the calculation
144 < even more difficult for those slowly-converging equilibrium
145 < methods\cite{Viscardy:2007lq}.
146 < Forward methods impose gradient, but in interfacial conditions it is
147 < not clear what behavior to impose at the boundary...
148 < Imposed-flux reverse non-equilibrium
140 > Steady state MD simulations has the advantage that not many
141 > trajectories are needed to study the relationship between thermal flux
142 > and thermal gradients. For systems including low conductance
143 > interfaces one must have a method capable of generating or measuring
144 > relatively small fluxes, compared to those required for bulk
145 > conductivity. This requirement makes the calculation even more
146 > difficult for those slowly-converging equilibrium
147 > methods\cite{Viscardy:2007lq}. Forward methods may impose gradient,
148 > but in interfacial conditions it is not clear what behavior to impose
149 > at the interfacial boundaries. Imposed-flux reverse non-equilibrium
150   methods\cite{MullerPlathe:1997xw} have the flux set {\it a priori} and
151 < the thermal response becomes easier to
152 < measure than the flux. Although M\"{u}ller-Plathe's original momentum
153 < swapping approach can be used for exchanging energy between particles
154 < of different identity, the kinetic energy transfer efficiency is
155 < affected by the mass difference between the particles, which limits
156 < its application on heterogeneous interfacial systems.
151 > the thermal response becomes easier to measure than the flux. Although
152 > M\"{u}ller-Plathe's original momentum swapping approach can be used
153 > for exchanging energy between particles of different identity, the
154 > kinetic energy transfer efficiency is affected by the mass difference
155 > between the particles, which limits its application on heterogeneous
156 > interfacial systems.
157  
158   The non-isotropic velocity scaling (NIVS)\cite{kuang:164101} approach to
159   non-equilibrium MD simulations is able to impose a wide range of
# Line 274 | Line 275 | structure[CITE PORTER].
275   they are not distinguished in our study. The maximum butanethiol
276   capacity on Au surface is $1/3$ of the total number of surface Au
277   atoms, and the packing forms a $(\sqrt{3}\times\sqrt{3})R30^\circ$
278 < structure[CITE PORTER].
279 < A series of different coverages was derived by evenly eliminating
280 < butanethiols on the surfaces, and was investigated in order to study
281 < the relation between coverage and interfacial conductance.
278 > structure\cite{doi:10.1021/ja00008a001,doi:10.1021/cr9801317}. A
279 > series of different coverages was derived by evenly eliminating
280 > butanethiols on the surfaces, and was investigated in order to study
281 > the relation between coverage and interfacial conductance.
282  
283   The capping agent molecules were allowed to migrate during the
284   simulations. They distributed themselves uniformly and sampled a
# Line 303 | Line 304 | corresponding spacing is usually $35[DOUBLE CHECK] \si
304   solvent molecules would change the normal behavior of the liquid
305   phase. Therefore, our $N_{solvent}$ values were chosen to ensure that
306   these extreme cases did not happen to our simulations. And the
307 < corresponding spacing is usually $35[DOUBLE CHECK] \sim 75$\AA.
307 > corresponding spacing is usually $35 \sim 75$\AA.
308  
309   The initial configurations generated are further equilibrated with the
310   $x$ and $y$ dimensions fixed, only allowing length scale change in $z$
# Line 504 | Line 505 | C_A (t) = \langle\vec{v}_A (t)\cdot\vec{v}_A (0)\rangl
505   C_A (t) = \langle\vec{v}_A (t)\cdot\vec{v}_A (0)\rangle
506   \label{vCorr}
507   \end{equation}
507
508   Followed by Fourier transforms, the power spectrum can be constructed:
509   \begin{equation}
510   \hat{f}(\omega) = \int_{-\infty}^{\infty} C_A (t) e^{-2\pi it\omega}\,dt
# Line 772 | Line 772 | ranges[CITATIONS]. This suggests that explicit hydroge
772  
773   Furthermore, results for rigid body toluene solvent, as well as other
774   UA-hexane solvents, are reasonable within the general experimental
775 < ranges[CITATIONS]. This suggests that explicit hydrogen might not be a
776 < required factor for modeling thermal transport phenomena of systems
777 < such as Au-thiol/organic solvent.
775 > ranges\cite{Wilson:2002uq,cahill:793,PhysRevB.80.195406}. This
776 > suggests that explicit hydrogen might not be a required factor for
777 > modeling thermal transport phenomena of systems such as
778 > Au-thiol/organic solvent.
779  
780   However, results for Au-butanethiol/toluene do not show an identical
781   trend with those for Au-butanethiol/hexane in that $G$ remains at
# Line 885 | Line 886 | not have as much contribution to the ``Intramolecular
886   measurement results. Compared to the C-H vibrational overlap between
887   hexane and butanethiol, both of which have alkyl chains, that overlap
888   between toluene and butanethiol is not so significant and thus does
889 < not have as much contribution to the ``Intramolecular Vibration
890 < Redistribution''[CITE HASE]. Conversely, extra degrees of freedom such
891 < as the C-H vibrations could yield higher heat exchange rate between
892 < these two phases and result in a much higher conductivity.
889 > not have as much contribution to the heat exchange
890 > process. Conversely, extra degrees of freedom such as the C-H
891 > vibrations could yield higher heat exchange rate between these two
892 > phases and result in a much higher conductivity.
893  
894   Although the QSC model for Au is known to predict an overly low value
895   for bulk metal gold conductivity\cite{kuang:164101}, our computational
# Line 917 | Line 918 | As a combinational effects of the above two, butanethi
918   transfer efficiency between butanethiol and organic solvents is closer
919   to that within bulk liquid phase.
920  
921 < As a combinational effects of the above two, butanethiol acts as a
922 < channel to expedite thermal transport process. The acoustic impedance
923 < mismatch between the metal and the liquid phase can be effectively
924 < reduced with the presence of suitable capping agents.
921 > Furthermore, our observation validated previous
922 > results\cite{hase:2010} that the intramolecular heat transport of
923 > alkylthiols is highly effecient. As a combinational effects of these
924 > phenomena, butanethiol acts as a channel to expedite thermal transport
925 > process. The acoustic impedance mismatch between the metal and the
926 > liquid phase can be effectively reduced with the presence of suitable
927 > capping agents.
928  
929   \begin{figure}
930   \includegraphics[width=\linewidth]{vibration}

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