arXiv subjects

Erik Aurell

Publications and source records attributed to Erik Aurell.

At least 37 records · Page 2Linked to original sources

arXiv2021

Do Gedankenexperiments compel quantization of gravity?

Whether gravity is quantized remains an open question. To shed light on this problem, various Gedankenexperiments have been proposed. One popular example is an interference experiment with a massive system that interacts gravitationally with another distant system, where an apparent paradox arises: even for space-like separation the outcome of the interference experiment depends on actions on the distant system, leading to a violation of either complementarity or no-signalling. A recent resolution shows that the paradox is avoided when quantizing gravitational radiation and including quantum fluctuations of the gravitational field. Here we show that the paradox in question can also be resolved without considering gravitational radiation, relying only on the Planck length as a limit on spatial resolution. Therefore, in contrast to conclusions previously drawn, we find that the necessity for a quantum field theory of gravity does not follow from so far considered Gedankenexperiments of this type. In addition, we point out that in the common realization of the setup the effects are governed by the mass octopole rather than the quadrupole. Our results highlight that no Gedankenexperiment to date compels a quantum field theory of gravity, in contrast to the electromagnetic case.

gr-qc↗

arXiv2021

Symmetries of quantum evolutions

A cornerstone of quantum mechanics is the characterisation of symmetries provided by Wigner's theorem. Wigner's theorem establishes that every symmetry of the quantum state space must be either a unitary transformation, or an antiunitary transformation. Here we extend Wigner's theorem from quantum states to quantum evolutions, including both the deterministic evolution associated to the dynamics of closed systems, and the stochastic evolutions associated to the outcomes of quantum measurements. We prove that every symmetry of the space of quantum evolutions can be decomposed into two state space symmetries that are either both unitary or both antiunitary. Building on this result, we show that it is impossible to extend the time reversal symmetry of unitary quantum dynamics to a symmetry of the full set of quantum evolutions. Our no-go theorem implies that any time symmetric formulation of quantum theory must either restrict the set of the allowed evolutions, or modify the operational interpretation of quantum states and processes. Here we propose a time symmetric formulation of quantum theory where the allowed quantum evolutions are restricted to a suitable set, which includes both unitary evolution and projective measurements, but excludes the deterministic preparation of pure states. The standard operational formulation of quantum theory can be retrieved from this time symmetric version by introducing an operation of conditioning on the outcomes of past experiments.

quant-ph↗

arXiv2021

Quantum black holes as solvents

Almost all of the entropy in the universe is in the form of Bekenstein--Hawking (BH) entropy of super-massive black holes. This entropy, if it satisfies Boltzmann's equation $S=\log{\cal N}$, hence represents almost all the accessible phase space of the Universe, somehow associated to objects which themselves fill out a very small fraction of ordinary three-dimensional space. Although time scales are very long, it is believed that black holes will eventually evaporate by emitting Hawking radiation, which is thermal when counted mode by mode. A pure quantum state collapsing to a black hole will hence eventually re-emerge as a state with strictly positive entropy, which constitutes the famous black hole information paradox. Expanding on a remark by Hawking we posit that BH entropy is a thermodynamic entropy, which must be distinguished from information-theoretic entropy. The paradox can then be explained by information return in Hawking radiation. The novel perspective advanced here is that if BH entropy counts the number of accessible physical states in a quantum black hole, then the paradox can be seen as an instance of the fundamental problem of statistical mechanics. We suggest a specific analogy to the increase of the entropy in a solvation process. We further show that the huge phase volume (${\cal N}$), which must be made available to the universe in a gravitational collapse, cannot originate from the entanglement between ordinary matter and/or radiation inside and outside the black hole. We argue that, instead, the quantum degrees of freedom of the gravitational field must get activated near the singularity, resulting in a final state of the `entangled entanglement' form involving both matter and gravity.

gr-qc↗

arXiv2021

Inferring epistasis from genomic data with comparable mutation and outcrossing rate

We consider a population evolving due to mutation, selection and recombination, where selection includes single-locus terms (additive fitness) and two-loci terms (pairwise epistatic fitness). We further consider the problem of inferring fitness in the evolutionary dynamics from one or several snap-shots of the distribution of genotypes in the population. In the recent literature this has been done by applying the Quasi-Linkage Equilibrium (QLE) regime first obtained by Kimura in the limit of high recombination. Here we show that the approach also works in the interesting regime where the effects of mutations are comparable to or larger than recombination. This leads to a modified main epistatic fitness inference formula where the rates of mutation and recombination occur together. We also derive this formula using by a previously developed Gaussian closure that formally remains valid when recombination is absent. The findings are validated through numerical simulations.

q-bio.PE↗

arXiv2021

The Vernon transform and its use in quantum thermodynamics

The thermodynamics of a quantum system interacting with an environment that can be assimilated to a harmonic oscillator bath has been extensively investigated theoretically. In recent experiments, the system under study however does not interact directly with the bath, but though a cavity or a transmission line. The influence on the system from the bath is therefore seen through an intermediate system, which modifies the characteristics of this influence. Here we first show that this problem is elegantly solved by a transform, which we call the Vernon transform, mapping influence action kernels on influence action kernels. We also show that the Vernon transform takes a particularly simple form in the Fourier domain, though it then must be interpreted with some care. Second, leveraging results in quantum thermodynamics we show how the Vernon transform can also be used to compute the generating function of energy changes in the environment. We work out the example of a system interacting with two baths of the Caldeira-Leggett type, each of them seen through a cavity.

quant-ph↗

arXiv2020

Global analysis of more than 50,000 SARS-Cov-2 genomes reveals epistasis between 8 viral genes

Genome-wide epistasis analysis is a powerful tool to infer gene interactions, which can guide drug and vaccine development and lead to a deeper understanding of microbial pathogenesis. We have considered all complete SARS-CoV-2 genomes deposited in the GISAID repository until \textbf{four} different cut-off dates, and used Direct Coupling Analysis together with an assumption of Quasi-Linkage Equilibrium to infer epistatic contributions to fitness from polymorphic loci. We find \textbf{eight} interactions, of which three between pairs where one locus lies in gene ORF3a, both loci holding non-synonymous mutations. We also find interactions between two loci in gene nsp13, both holding non-synonymous mutations, and four interactions involving one locus holding a synonymous mutation. Altogether we infer interactions between loci in viral genes ORF3a and nsp2, nsp12 and nsp6, between ORF8 and nsp4, and between loci in genes nsp2, nsp13 and nsp14. The paper opens the prospect to use prominent epistatically linked pairs as a starting point to search for combinatorial weaknesses of recombinant viral pathogens.

q-bio.QM↗

arXiv2020

Fröhlich-coupled qubits interacting with fermionic baths

We consider a macroscopic quantum system such as a qubit, interacting with a bath of fermions as in the Fröhlich polaron model. The interaction Hamiltonian is thus linear in the macroscopic system variable, and bilinear in the fermions. Using the recently developed extension of Feynman-Vernon theory to non-harmonic baths we evaluate quadratic and the quartic terms in the influence action. We find that for this model the quartic term vanish by symmetry arguments. Although the influence of the bath on the system is of the same form as from bosonic harmonic oscillators up to effects to sixth order in the system-bath interaction, the temperature dependence is nevertheless rather different, unless rather contrived models are considered.

quant-ph↗

arXiv2020

Large Deviations and Fluctuation Theorem for the Quantum Heat Current

We study the heat current flowing between two baths consisting of harmonic oscillators interacting with a qubit through a spin-boson coupling. An explicit expression for the generating function of the total heat flowing between the hot and cold baths is derived by evaluating the corresponding Feynman-Vernon path integral under the non-interacting blip approximation (NIBA). This generating function satisfies the Gallavotti-Cohen fluctuation theorem, both before and after performing the NIBA. We also verify that the heat conductivity is proportional to the variance of the heat current, retrieving the well known fluctuation dissipation relation. Finally, we present numerical results for the heat current.

cond-mat.stat-mech↗

arXiv2020

Inverse Ising techniques to infer underlying mechanisms from data

As a problem in data science the inverse Ising (or Potts) problem is to infer the parameters of a Gibbs-Boltzmann distributions of an Ising (or Potts) model from samples drawn from that distribution. The algorithmic and computational interest stems from the fact that this inference task cannot be done efficiently by the maximum likelihood criterion, since the normalizing constant of the distribution (the partition function) can not be calculated exactly and efficiently. The practical interest on the other hand flows from several outstanding applications, of which the most well known has been predicting spatial contacts in protein structures from tables of homologous protein sequences. Most applications to date have been to data that has been produced by a dynamical process which, as far as it is known, cannot be expected to satisfy detailed balance. There is therefore no a priori reason to expect the distribution to be of the Gibbs-Boltzmann type, and no a priori reason to expect that inverse Ising (or Potts) techniques should yield useful information. In this review we discuss two types of problems where progress nevertheless can be made. We find that depending on model parameters there are phases where, in fact, the distribution is close to Gibbs-Boltzmann distribution, a non-equilibrium nature of the under-lying dynamics notwithstanding. We also discuss the relation between inferred Ising model parameters and parameters of the underlying dynamics.

stat.OT↗

arXiv2020

Inferring genetic fitness from genomic data

The genetic composition of a naturally developing population is considered as due to mutation, selection, genetic drift and recombination. Selection is modeled as single-locus terms (additive fitness) and two-loci terms (pairwise epistatic fitness). The problem is posed to infer epistatic fitness from population-wide whole-genome data from a time series of a developing population. We generate such data in silico, and show that in the Quasi-Linkage Equilibrium (QLE) phase of Kimura, Neher and Shraiman, that pertains at high enough recombination rates and low enough mutation rates, epistatic fitness can be quantitatively correctly inferred using inverse Ising/Potts methods.

q-bio.PE↗

arXiv2019

On a Multilocus Wright-Fisher Model with Mutation and a Svirezhev-Shahshahani Gradient-like Selection Dynamics

In this paper we introduce a multilocus diffusion model of a population of $N$ haploid, asexually reproducing individuals. The model includes parent-dependent mutation and interlocus selection, the latter limited to pairwise relationships but among a large number of simultaneous loci. The diffusion is expressed as a system of stochastic differential equations (SDEs) that are coupled in the drift functions through a Shahshahani gradient-like structure for interlocus selection. The system of SDEs is derived from a sequence of Markov chains by weak convergence. We find the explicit stationary (invariant) density by solving the corresponding stationary Fokker-Planck equation under parent-independent mutation, i.e., Kingman's house-of-cards mutation. The density formula enables us to readily construct families of Wright-Fisher models corresponding to networks of loci.

math.PR↗

arXiv2019

An operator derivation of the Feynman-Vernon theory, with applications to the generating function of bath energy changes and to anharmonic baths

We present a derivation of the Feynman-Vernon approach to open quantum systems in the language of super-operators. We show that this gives a new and more direct derivation of the generating function of energy changes in a bath, or baths. This generating function is given by a Feynman-Vernon-like influence functional, with only time shifts in some of the kernels. We further show that the approach can be extended to anharmonic baths by an expansion in cumulants. Every non-zero cumulant of certain environment correlation functions thus gives a kernel in a higher-order term in the Feynman-Vernon action.

quant-ph↗

arXiv2019

A simplified characteristic functions of quantum heat

This paper presents a simplified structure of the characteristic function of the distribution of energy changes in a bosonic environment interacting linearly with a quantum system. This characteristic function of quantum heat can be expressed using the same functionals (Feynman-Vernon action) as for the quantum state, with only the cross-terms in the double path integral shifted in time.

cond-mat.stat-mech↗

arXiv2019

A theory of non-equilibrium local search on random satisfaction problems

We study local search algorithms to solve instances of the random $k$-satisfiabi lity problem, equivalent to finding (if they exist) zero-energy ground states of statistical models with disorder on random hypergraphs. It is well known that the best such algorithms are akin to non-equilibrium processes in a high-dimensional space. In particular, algorithms known as focused, and which do not obey detailed balance, outperform simulated annealing and related methods in the task of finding the solution to a complex satisfiability problem, that is to find (exactly or approximately) the minimum in a complex energy landscape. A physical question of interest is if the dynamics of these processes can be well predicted by the well-developed theory of equilibrium Gibbs states. While it has been known empirically for some time that this is not the case, an alternative systematic theory that does so has been lacking. In this paper we introduce such a theory based on the recently developed technique of cavity master equations and test it on the paradigmatic random $3$-satisfiability problem. Our theory predicts the solution process very accurately away from the algorithm phase boundary and also predicts the qualitative form of this boundary.

cond-mat.dis-nn↗

arXiv2019

Thermal power of heat flow through a qubit

In this paper we consider thermal power of a heat flow through a qubit between two baths. The baths are modeled as set of harmonic oscillators initially at equilibrium, at two temperatures. Heat is defined as the change of energy of the cold bath, and thermal power is defined as expected heat per unit time, in the long-time limit. The qubit and the baths interact as in the spin-boson model, i.e. through qubit operator $σ_z$. We compute thermal power in an approximation analogous to `non-interacting blip' (NIBA) and express it in the polaron picture as products of correlation functions of the two baths, and a time derivative of a correlation function of the cold bath. In the limit of weak interaction we recover known results in terms of a sum of correlation functions of the two baths, a correlation functions of the cold bath only, and the energy split.

cond-mat.mes-hall↗

arXiv2018

DCA for genome-wide epistasis analysis: the statistical genetics perspective

Direct Coupling Analysis (DCA) is a now widely used method to leverage statistical information from many similar biological systems to draw meaningful conclusions on each system separately. DCA has been applied with great success to sequences of homologous proteins, and also more recently to whole-genome population-wide sequencing data. We here argue that the use of DCA on the genome scale is contingent on fundamental issues of population genetics. DCA can be expected to yield meaningful results when a population is in the Quasi-Linkage Equilibrium (QLE) phase studied by Kimura and others, but not, for instance, in a phase of Clonal Competition. We discuss how the exponential (Potts model) distributions emerge in QLE, and compare couplings to correlations obtained in a study of about 3,000 genomes of the human pathogen Streptococcus pneumoniae.

q-bio.PE↗

arXiv2018

Global estimates of errors in quantum computation by the Feynman-Vernon formalism

The operation of a quantum computer is considered as a general quantum operation on a mixed state on many qubits followed by a measurement. The general quantum operation is further represented as a Feynman-Vernon double path integral over the histories of the qubits and of an environment, and afterward tracing out the environment. The qubit histories are taken to be paths on the two-sphere $S^2$ as in Klauder's coherent-state path integralof spin, and the environment is assumed to consist of harmonic oscillators initially in thermal equilibrium, and linearly coupled to to qubit operators $\hat{S}_z$. The environment can then be integrated out to give a Feynman-Vernon influence action coupling the forward and backward histories of the qubits. This representation allows to derive in a simple way estimates that the total error of operation of a quantum computer without error correction scales linearly with the number of qubits and the time of operation. It also allows to discuss Kitaev's toric code interacting with an environment in the same manner.

quant-ph↗

arXiv2018

The characteristic functions of quantum heat with baths at different temperatures

This paper is about quantum heat defined as the change in energy of a bath during a process. The presentation takes into account recent developments in classical strong-coupling thermodynamics, and addresses a version of quantum heat which satisfies quantum-classical correspondence. The characteristic function and the full counting statistics of quantum heat are shown to be formally similar. The paper further shows that the method can be extended to more than one bath, e.g. two baths at different temperatures, which opens up the prospect of studying correlations and heat flow. The paper extends earlier results on the expected quantum heat in the setting of one bath (Aurell \& Eichhorn 2015, Aurell 2017).

cond-mat.stat-mech↗