A new kinetic metric from spectral analysis of transition rates is applied to RNA energy landscapes, showing that ultrametricity depends on nucleotide order for fixed composition.
The energy landscapes and motions of proteins. Science
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Black hole phase transitions in AdS spacetime show critical slowing down with relaxation time scaling as τ = |ε|^{-2/3}, and this exponent is the same for RN-AdS, Kerr-AdS, and Bardeen black holes.
A tunable microscopic model of network liquids with a liquid-liquid phase transition, analyzed via RFOT theory, predicts nanonucleation near the glass transition and links thermodynamic and kinetic anomalies when matched to water-like conditions.
DeltaDiff is a physics-guided inference method that predicts mutant protein structures from a baseline diffusion model without retraining, tested on three systems with nonlocal changes.
Numerical examination of ultrametricity in Nussinov-model RNA energy minima shows wide variation across 18 RNAs and strong sensitivity to nucleotide sequence permutation.
citing papers explorer
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Kinetic metric for basins of attraction of RNA secondary structures and analysis of the ultrametricity of the energy landscape
A new kinetic metric from spectral analysis of transition rates is applied to RNA energy landscapes, showing that ultrametricity depends on nucleotide order for fixed composition.
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Critical slowing down of black hole phase transition and universal dynamic scaling in AdS black holes
Black hole phase transitions in AdS spacetime show critical slowing down with relaxation time scaling as τ = |ε|^{-2/3}, and this exponent is the same for RN-AdS, Kerr-AdS, and Bardeen black holes.
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Polyamorphism in Glassy Network Materials
A tunable microscopic model of network liquids with a liquid-liquid phase transition, analyzed via RFOT theory, predicts nanonucleation near the glass transition and links thermodynamic and kinetic anomalies when matched to water-like conditions.
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DeltaDiff: Training-Free, Physics-Guided Machine Learning for Predicting Mutant Protein Structures
DeltaDiff is a physics-guided inference method that predicts mutant protein structures from a baseline diffusion model without retraining, tested on three systems with nonlocal changes.
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Ultrametricity of Energy Minimum Configurations of RNA Secondary Structures in the Nussinov Model
Numerical examination of ultrametricity in Nussinov-model RNA energy minima shows wide variation across 18 RNAs and strong sensitivity to nucleotide sequence permutation.