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Related Concept Videos

Thermodynamic Potentials01:26

Thermodynamic Potentials

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Thermodynamic potentials are state functions that are extremely useful in analyzing a thermodynamic system. They have dimensions of energy. The four important thermodynamic potentials are internal energy, enthalpy, Helmholtz free energy, and Gibbs free energy. These thermodynamic potentials can be expressed using two of the following variables: pressure, volume, temperature, and entropy. These two variables are expressed as the rate of change of the thermodynamic potential with respect to other...
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Thermodynamics: Chemical Potential and Activity01:10

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The effective concentration of a species in a solution can be expressed precisely in terms of its activity. Activity considers the effect of electrolytes present in the vicinity of the species of interest and depends on the ionic strength of the solution. The activity of a species is expressed as the product of molar concentration and the activity coefficient of the species.
The thermodynamic equilibrium constant is more accurately defined in terms of activity rather than concentration.
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Thermodynamic Systems01:06

Thermodynamic Systems

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A thermodynamic system is a set of objects whose thermodynamic properties are of interest. The system is considered to be embedded in its surroundings or the environment. The system and its environment can exchange heat and do work on each other through a boundary that separates them. However, the immediate surroundings of the system interact with it directly and therefore have a much stronger influence on its behavior and properties.
Consider an example of  tea boiling in a kettle. The...
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Potential-Energy Criterion for Equilibrium01:16

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Potential energy or potential function plays an essential role in determining the stability of a mechanical system. If a system is subjected to both gravitational and elastic forces, the potential function of the system can be expressed as the algebraic sum of gravitational and elastic potential energy. If the system is in equilibrium and is displaced by a small amount, then the work done on the system equals the negative of the change in the system's potential energy from the initial to the...
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Mechanistic Models: Overview of Compartment Models01:21

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Mechanistic models, a category encompassing both physiological and compartmental modeling, differ from empirical models' approaches to incorporating known factors about the systems being modeled. Empirical models describe data with minimal assumptions, while mechanistic models aim to provide a robust description of available data by specifying assumptions and integrating known factors about the system. Compartmental analysis is a key example of a mechanistic model in pharmacokinetics and...
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Gibbs Free Energy and Thermodynamic Favorability02:23

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The spontaneity of a process depends upon the temperature of the system. Phase transitions, for example, will proceed spontaneously in one direction or the other depending upon the temperature of the substance in question. Likewise, some chemical reactions can also exhibit temperature-dependent spontaneities. To illustrate this concept, the equation relating free energy change to the enthalpy and entropy changes for the process is considered:
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Learning composition-transferable coarse-grained models: Designing external potential ensembles to maximize

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  • 1Department of Chemical Engineering, University of California, Santa Barbara, California 93106, USA.

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Summary
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This study shows that using specific simulation ensembles improves coarse-grained molecular models. Applying thermodynamic potentials during coarse-graining enhances model accuracy and transferability for predicting thermodynamic properties.

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Area of Science:

  • Computational chemistry and molecular modeling.
  • Statistical mechanics and thermodynamics.
  • Materials science and condensed matter physics.

Background:

  • Bottom-up coarse-graining of molecular models faces challenges in thermodynamic faithfulness and transferability across different conditions.
  • Current efforts often focus on refining the functional form of coarse-grained potentials.
  • The choice of simulation ensemble is critical for model development but often overlooked.

Purpose of the Study:

  • To investigate the impact of simulation ensemble choice on the predictive power of coarse-grained models.
  • To demonstrate that specific ensembles can enhance thermodynamic faithfulness and transferability.
  • To introduce a method for systematically designing informative ensembles using the Fisher information metric.

Main Methods:

  • Coarse-graining molecular models from ensembles with applied perturbations, specifically spatially varying external potentials.
  • Applying the strategy to atomistic models of water and methanol, and a binary mixture of Gaussian spheres.
  • Quantifying ensemble informativeness using the Fisher information metric to design optimal bias potentials.

Main Results:

  • Near-quantitative capture of activity coefficients across the entire composition range for tested systems.
  • Demonstrated success without explicitly targeting activity coefficients during the coarse-graining process.
  • Validation of the hypothesis that ensembles with applied thermodynamic potentials are more "thermodynamically informative".

Conclusions:

  • Smarter selection of simulation ensembles, particularly those with applied thermodynamic potentials, significantly improves coarse-grained model accuracy and transferability.
  • The Fisher information metric provides a principled approach to designing optimal ensembles for learning thermodynamically faithful models.
  • This work offers a new paradigm for developing robust and predictive coarse-grained molecular models.