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- W4301503670 abstract "Rate processes are often modeled using Markov-State Models (MSM). Suppose you know a prior MSM, and then learn that your prediction of some particular observable rate is wrong. What is the best way to correct the whole MSM? For example, molecular dynamics simulations of protein folding may sample many microstates, possibly giving correct pathways through them, while also giving the wrong overall folding rate, when compared to experiment. Here, we describe Caliber Corrected Markov Modeling (C2M2): an approach based on the principle of maximum entropy for updating a Markov model by imposing state- and trajectory- based constraints. We show that such corrections are equivalent to asserting position-dependent diffusion coefficients in continuous-time continuous-space Markov processes modeled by a Smoluchowski equation. We derive the functional form of the diffusion coefficient explicitly in terms of the trajectory-based constraints. We illustrate with examples of 2D particle diffusion and an overdamped harmonic oscillator." @default.
- W4301503670 created "2022-10-05" @default.
- W4301503670 creator A5013305919 @default.
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- W4301503670 date "2017-11-08" @default.
- W4301503670 modified "2023-10-17" @default.
- W4301503670 title "Caliber Corrected Markov Modeling (C2M2): Correcting Equilibrium Markov models" @default.
- W4301503670 doi "https://doi.org/10.48550/arxiv.1711.03043" @default.
- W4301503670 hasPublicationYear "2017" @default.
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