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1.
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Biochemical reaction networks, mathematical models that describe the dynamic interrelationships between biochemical species, facilitate studying complex biological proces [...]
2023-09-21 |
Dissertation |
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2.
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A concise overview of the weighted ensemble path sampling method for rare events is given, aimed at beginners.
2017 |
Article |
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3.
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4.
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Terrell Hill's book, Free Energy Transduction and Biochemical Cycle Kinetics, is one of the most important introductory-level contributions to the biophysics of molecular [...]
2017 |
Article |
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5.
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Most behavior, observed via a subset of coordinates or discretized states, should not be Markovian even though the underlying dynamics generally will be.
2015 |
Article |
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6.
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The basics of trajectories and the different types of trajectory ensembles are explained.
2015 |
Article |
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7.
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8.
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Molecular dynamics simulations often fail to reach timescales characteristic of equilibrium sampling, so great care must be taken in computing and reporting statistical u [...]
2017 |
Article |
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9.
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The trajectory ensemble is fundamental in statistical physics and relatively easy to understand. It is also information-rich, as both equilibrium and non-equilibrium obse [...]
2015 |
Article |
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10.
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The "Hill relation" is a key result for anyone interested in calculating rates from trajectories of any kind, whether molecular simulations or otherwise. I am not aware o [...]
2015 |
Article |
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