751 citations · 3.2k across the 102 of their papers we have counts for
5 papers · 1 filter
Improved contact prediction in proteins: Using pseudolikelihoods to infer Potts models
Magnus Ekeberg, Cecilia Lövkvist, Yueheng Lan +2
Spatially proximate amino acids in a protein tend to coevolve. A protein's three-dimensional (3D) structure hence leaves an echo of correlations in the evolutionary record. Reverse…
Maximum likelihood reconstruction for Ising models with asynchronous updates
Hong-Li Zeng, Mikko Alava, Erik Aurell +2
We describe how the couplings in an asynchronous kinetic Ising model can be inferred. We consider two cases, one in which we know both the spin history and the update times and one…
Anomalous thermodynamics at the micro-scale
Antonio Celani, Stefano Bo, Ralf Eichhorn +1
Particle motion at the micro-scale is an incessant tug-of-war between thermal fluctuations and applied forces on one side, and the strong resistance exerted by fluid viscosity on t…
Analysis of Sparse Representations Using Bi-Orthogonal Dictionaries
Mikko Vehkaperä, Yoshiyuki Kabashima, Saikat Chatterjee +3
The sparse representation problem of recovering an N dimensional sparse vector x from M < N linear observations y = Dx given dictionary D is considered. The standard approach is to…
Refined Second Law of Thermodynamics for fast random processes
Erik Aurell, Krzysztof Gawȩdzki, Carlos Mejía-Monasterio +2
We establish a refined version of the Second Law of Thermodynamics for Langevin stochastic processes describing mesoscopic systems driven by conservative or non-conservative forces…