Related papers: Quantification of the differences between quenched…
It is the first step for understanding how RNA structure folds from base sequences that to know how its secondary structure is formed. Traditional energy-based algorithms are short of precision, particularly for non-nested sequences, while…
Quantum annealing is a promising technique which leverages quantum mechanics to solve hard optimization problems. Considerable progress has been made in the development of a physical quantum annealer, motivating the study of methods to…
This study investigates the suitability of the annealed approximation in high-dimensional systems characterized by dense networks with quenched link disorder, employing models of coupled oscillators. We demonstrate that dynamic equations…
Detection of entangled states is essential in both fundamental and applied quantum physics. However, this task proves to be challenging especially for general quantum states. One can execute full state tomography but this method is time…
A simple model is presented for the calculation of the quenched average over impurities which are rendered static by setting their mass equal to infinity. The path integral formalism of the second quantized theory contains annealed averages…
We introduce a generalization of entanglement based on the idea that entanglement is relative to a distinguished subspace of observables rather than a distinguished subsystem decomposition. A pure quantum state is entangled relative to such…
Ensembles of neural networks (NNs) have long been used to estimate predictive uncertainty; a small number of NNs are trained from different initialisations and sometimes on differing versions of the dataset. The variance of the ensemble's…
RNA-Seq is a widely-used method for studying the behavior of genes under different biological conditions. An essential step in an RNA-Seq study is normalization, in which raw data are adjusted to account for factors that prevent direct…
The kinetic folding of RNA sequences into secondary structures is modeled as a complex adaptive system, the components of which are possible RNA structural rearrangements (SRs) and their associated bases and base pairs. RNA bases and base…
We study the folding of RNA secondary structures with quenched sequence randomness by means of the constrained annealing method. A thermodynamic phase transition is induced by including the conformational weight of loop structures. In…
This paper studies quantum annealing (QA) for clustering, which can be seen as an extension of simulated annealing (SA). We derive a QA algorithm for clustering and propose an annealing schedule, which is crucial in practice. Experiments…
This paper studies quantum annealing (QA) for clustering, which can be seen as an extension of simulated annealing (SA). We derive a QA algorithm for clustering and propose an annealing schedule, which is crucial in practice. Experiments…
Motivation: RNA design aims to find RNA sequences that fold into a given target secondary structure, a problem also known as RNA inverse folding. However, not all target structures are designable. Recent advances in RNA designability have…
Using two models of opinion dynamics, the $q$-voter model with independence and the $q$-voter model with anticonformity, we discuss how the change of disorder from annealed to quenched affects phase transitions on networks. To derive phase…
We study the complexity of approximations to the normalized information distance. We introduce a hierarchy of computable approximations by considering the number of oscillations. This is a function version of the difference hierarchy for…
Averaging provides an alternative to bandwidth selection for density kernel estimation. We propose a procedure to combine linearly several kernel estimators of a density obtained from different, possibly data-driven, bandwidths. The method…
Entanglement measures quantify nonclassical correlations present in a quantum system, but can be extremely difficult to calculate, even more so, when information on its state is limited. Here, we consider broad families of entanglement…
We review studies of entanglement entropy in systems with quenched randomness, concentrating on universal behavior at strongly random quantum critical points. The disorder-averaged entanglement entropy provides insight into the quantum…
We provide an analytical argument for understanding the likely nature of parameter shifts between those coming from an analysis of a dataset and from a subset of that dataset, assuming differences are down to noise and any intrinsic…
The quantum relative entropy is a fundamental quantity in quantum information science, characterizing the distinguishability between two quantum states. However, this quantity is not additive in general for correlated quantum states,…