arXiv subjects

Onur Pusuluk

Publications and source records attributed to Onur Pusuluk.

At least 19 recordsLinked to original sources

arXiv2026

The Funessian process: Non-Markovian dynamics shaped by the first event

We construct a continuous-time, positively divisible non-Markovian process with memory of the initial state that satisfies the differential Chapman--Kolmogorov equation. In the stationary state, the correlation function exhibits exponential decay, a behavior typically regarded as characteristic of Markovian dynamics. Nevertheless, the memory is preserved throughout the evolution of the process, manifesting itself in observable statistical quantities. We further demonstrate that mutual information serves as a reliable measure of the non-Markovian character of the process. As an application, we study a random walk driven by the constructed process and show that the memory effect breaks ergodicity and modifies transport properties such as the diffusion coefficient.

math.PR↗

arXiv2026

Quantum in Biology, Quantum for Biology, and Biology for Quantum: Mapping the Evidence and the Road Ahead

Quantum science and biology now intersect in three complementary directions: quantum in biology, quantum for biology, and biology for quantum. This review provides a structured narrative evidence map of that interface rather than an exhaustive catalogue or formal systematic review. For each topic, we ask what the mechanistic or technological claim is, which quantum resource is invoked, what the strongest experiments and models establish, which classical alternatives or engineering confounds remain competitive, and what decisive tests or benchmarks would most strongly change confidence. The most mature quantum-in-biology cases remain mechanistically constrained tunneling in some enzymatic hydrogen-transfer reactions and radical-pair spin chemistry as a viable framework for magnetoreception, whereas several higher-visibility topics remain suggestive but unresolved under physiological conditions. In quantum for biology, the central issue is whether quantum-enabled tools improve biological inference relative to strong classical baselines under realistic calibration, dose, throughput, and uncertainty constraints. In biology for quantum, the strongest claims arise when biomolecular structure or self-assembly measurably improves fabrication, integration, or robustness in quantum devices. Summary tables in the Appendix provide a compact cross-map view of the current evidence, major confounds, and the experiments or benchmarks most likely to discriminate between competing explanations.

quant-ph↗

arXiv2026

Catalytic quantum thermodynamics beyond additivity and reduced-state monotones

The generalized second laws of quantum thermodynamics are usually formulated in terms of R\'enyi divergences and the associated family of generalized free energies. In catalytic thermal transformations, this framework typically certifies the existence of a suitable catalyst but does not make the catalytic contribution explicit in the resulting system-level inequalities. Here we develop a complementary formulation based on non-additive divergences, whose pseudo-additive structure yields a family of generalized free energies with an explicit catalyst-dependent correction term. For uncorrelated catalytic thermal transformations, we show that this leads to non-additive second-law relations that make the catalytic contribution explicit and provide nontrivial constraints on admissible catalysts when the catalyst is returned only approximately. We also analyze correlated catalytic thermal transformations and show, through explicit finite-dimensional examples, that reduced-state data are generally insufficient to characterize thermodynamic accessibility: the thermo-majorization behavior of the joint transformation can change while the system and catalyst marginals remain fixed, and even states with identical marginals and the same mutual information can exhibit different thermo-majorization accessibility. Our results show that non-additivity can be thermodynamically informative in uncorrelated catalysis, whereas correlated catalysis generally requires a genuinely joint-state-sensitive description beyond reduced-state monotones.

quant-ph↗

arXiv2026

The physical basis of information flow in neural matter: a thermocoherent perspective on cognitive dynamics

Information flow is central to contemporary accounts of cognition, yet its physical basis in living neural matter remains poorly specified. Here, we develop a multiscale resource-theoretical framework motivated by the \textit{thermocoherent effect}, where heat flow is reciprocally coupled to a delocalized information flow carried by shared coherence and not reducible to local subsystem variables. Extending this line of work in light of recent results on correlation-enabled Mpemba-type thermal relaxation, we argue that the operational relevance of correlations depends less on their taxonomy than on their dynamical accessibility under the underlying interaction geometry. Relational structure encoded in the state of a single composite system -- including quantum entanglement, quantum discord, and classical correlations -- may therefore act as a usable physical resource that remains hidden from local subsystem descriptions. We propose that electrical, chemical, ionic, and thermal transport processes in neural matter may, under suitable microscopic conditions, generate or transduce partially hidden relational resources whose mutual coupling can progressively build larger-scale thermocoherent organization across spatial or spatiotemporal partitions in neural tissue. Ion-channel interfaces, hydrogen-bonded proton networks, aromatic $\pi$-electron architectures, and phosphate-rich motifs emerge as plausible substrate classes in which such resources may arise, become transiently accessible under environmental coupling, and leave coarse-grained signatures in neural dynamics. The resulting picture is neither a claim of macroscopic quantum cognition nor a reduction of cognition to abstract coding, but a falsifiable framework in which microscopic relational resources can bias transport, relaxation, signaling, and cross-scale neural coordination.

q-bio.NC↗

arXiv2026

Quantum Information Flow in Microtubule Tryptophan Networks

Networks of aromatic amino acid residues within microtubules, particularly those formed by tryptophan, may serve as pathways for optical information flow. Ultraviolet excitation dynamics in these networks are typically modeled with effective non-Hermitian Hamiltonians. By extending this approach to a Lindblad master equation that incorporates explicit site geometries and dipole orientations, we track how correlations are generated, routed, and dissipated, while capturing both energy dissipation and information propagation among coupled chromophores. We compare localized injections, fully delocalized preparations, and eigenmode-based initial states. To quantify the emerging quantum-informational structure, we evaluate the $L_1$ norm of coherence, the correlated coherence, and the logarithmic negativity within and between selected chromophore sub-networks. The results reveal a strong dependence of both the direction and persistence of information flow on the type of initial preparation. Superradiant components drive the rapid export of correlations to the environment, whereas subradiant components retain them and slow their leakage. Embedding single tubulin units into larger dimers and spirals reshapes pairwise correlation maps and enables site-selective routing. Scaling to larger ordered lattices strengthens both export and retention channels, whereas static energetic and structural disorder suppresses long-range transport and reduces overall correlation transfer. These findings provide a Lindbladian picture of information flow in cytoskeletal chromophore networks and identify structural and dynamical conditions that transiently preserve nonclassical correlations in microtubules.

quant-ph↗

arXiv2025

Thermodynamic limits of the Mpemba effect: A unified resource theory analysis of correlation-enabled mechanisms

The Mpemba effect, in which a hotter system cools faster than a colder one, remains one of the most intriguing anomalies in thermodynamics. Here, we investigate its microscopic origin within the framework of quantum resource theories and introduce correlations as a new enabling mechanism: classical correlations can support the effect, whereas quantum correlations become relevant only under specific energy-degeneracy conditions. Importantly, correlations are necessary but not sufficient. Whether they induce the effect depends on their distribution across subsystems and on system parameters. Other resources, such as non-Markovian memory effects and Hilbert space dimensionality, primarily modulate the temperature window in which the effect can occur. Finally, by analyzing both didactic multi-qubit instances and a phenomenological single-molecule model of water, we demonstrate that the insufficiency of correlations helps explain the sporadic and sometimes contradictory observations of the Mpemba effect in experiments.

quant-ph↗

arXiv2024

Quantum Models of Consciousness from a Quantum Information Science Perspective

This perspective explores various quantum models of consciousness from the viewpoint of quantum information science, offering potential ideas and insights. The models under consideration can be categorized into three distinct groups based on the level at which quantum mechanics might operate within the brain: those suggesting that consciousness arises from electron delocalization within microtubules inside neurons, those proposing it emerges from the electromagnetic field surrounding the entire neural network, and those positing it originates from the interactions between individual neurons governed by neurotransmitter molecules. Our focus is particularly on the Posner model of cognition, for which we provide preliminary calculations on the preservation of entanglement of phosphate molecules within the geometric structure of Posner clusters. These findings provide valuable insights into how quantum information theory can enhance our understanding of brain functions.

q-bio.NC↗

arXiv2024

Steady-State Entanglement Generation via Casimir-Polder Interactions

We investigate the generation of steady-state entanglement between two atoms resulting from the fluctuation-mediated Casimir-Polder (CP) interactions near a surface. Starting with an initially separable state of the atoms, we analyze the atom-atom entanglement dynamics for atoms placed at distances in the range of $\sim25$ nm away from a planar medium, examining the effect of medium properties and geometrical configuration of the atomic dipoles. We show that perfectly conducting and superconducting surfaces yield an optimal steady-state concurrence value of approximately 0.5. Furthermore, although the generated entanglement decreases with medium losses for a metal surface, we identify an optimal distance from the metal surface that assists in entanglement generation by the surface. While fluctuation-mediated interactions are typically considered detrimental to the coherence of quantum systems at nanoscales, our results demonstrate a mechanism for leveraging such interactions for entanglement generation.

quant-ph↗

arXiv2024

Manipulating fermionic mode entanglement in the presence of superselection rules

Superselection rules (SSRs), linked to the conservation of physical quantities such as parity or particle number, impose constraints on allowable physical operations in fermionic systems. This affects the amount of extractable mode entanglement possessed in a given state and its manipulation by the so-called entanglement-free operations. Here, we present a majorization-based algorithm for the mixed state transformations of bipartite mode entanglement, where the allowed operations (i.e., resource non-generating operations), that is, local operations and classical communication, are restricted by local SSRs. We then focus on the local parity SSR and investigate the possibility to relax the constraints imposed by it through a catalyst. In particular, we show that an ancillary mode system can catalyze the change in local parity. Finally, we discuss the application of our methodology to various problems in different fields. Accordingly, we propose that it may shed new light on the activation of orbital entanglement in chemical molecules and the manipulation of multipartite entanglement or quantum discord in distinguishable quantum systems.

quant-ph↗

arXiv2024

Biorthogonal resource theory of genuine quantum superposition

The phenomenon of quantum superposition manifests in two distinct ways: it either spreads out across non-orthogonal basis states or remains concealed within their overlaps. Despite its profound implications, the resource theory of superposition often neglects the quantum superposition residing within these overlaps. However, this component is intricately linked to a form of state indistinguishability and can give rise to quantum correlations. In this paper, we introduce a pseudo-Hermitian representation of the density operator, wherein its diagonal elements correspond to biorthogonal extensions of Kirkwood-Dirac quasi-probabilities. This representation provides a unified framework for the inter-basis quantum superposition and basis state indistinguishability, giving rise to what we term as \textit{genuine} quantum superposition. Moreover, we propose appropriate generalizations of current superposition measures to quantify genuine quantum superposition that serves as the fundamental notion of nonclassicality from which both quantum coherence and correlations emerge. Finally, we explore potential applications of our theoretical framework, particularly in the quantification of electron delocalization in chemical bonding and aromaticity.

quant-ph↗

arXiv2024

Electron delocalization in aromaticity as a superposition phenomenon

This letter investigates the applications and extensions of the resource theory of quantum superposition within the realm of quantum chemistry. Specifically, we explore aromaticity, a fundamental concept originally developed to elucidate the structural symmetry, energetic stability, and chemical reactivity of benzene and its derivatives. While aromaticity and its counterpart, antiaromaticity, are associated with the delocalization of electrons between nonorthogonal atomic orbitals, they lack a universally accepted and comprehensive definition. We demonstrate that the genuine quantum superposition exhibited by biorthogonal atomic orbitals effectively captures the aromaticity order of representative monocyclic molecules. These findings reveal that the quantum resource theories hold significant implications, offering fresh insights into our comprehension of chemical bonding phenomena.

quant-ph↗

arXiv2024

Geometrical optimization of spin clusters for the preservation of quantum coherence

We investigate the influence of geometry on the preservation of quantum coherence in spin clusters subjected to a thermal environment. Assuming weak inter-spin coupling, we explore the various buffer network configurations that can be embedded in a plane. Our findings reveal that the connectivity of the buffer network is crucial in determining the preservation duration of quantum coherence in an individual central spin. Specifically, we observe that the maximal planar graph yields the longest preservation time for a given number of buffer spins. Interestingly, our results demonstrate that the preservation time does not consistently increase with an increasing number of buffer spins. Employing a quantum master equation in our simulations, we further demonstrate that a tetrahedral geometry comprising a four-spin buffer network provides optimal protection against environmental effects.

quant-ph↗

arXiv2023

Boosting Biomolecular Switch Efficiency With Quantum Coherence

The resource theory of quantum thermodynamics has emerged as a powerful tool for exploring the out-of-equilibrium dynamics of microscopic and highly correlated systems. Recently, it has been employed in photoisomerization, a mechanism facilitating vision through the isomerism of the photo receptor protein rhodopsin, to elucidate the fundamental limits of efficiency inherent in this physical process. Limited attention has been given to the impact of energetic quantum coherences in this process, as these coherences do not influence the energy level populations within an individual molecule subjected to thermal operations. However, a specific type of energetic quantum coherences can impact the energy level populations in the scenario involving two or more molecules. In this study, we examine the case of two molecules undergoing photoisomerization to show that energetic quantum coherence can function as a resource that amplifies the efficiency of photoisomerization. These insights offer evidence for the role of energetic quantum coherence as a key resource in the realm of quantum thermodynamics at mesoscopic scales.

quant-ph↗

arXiv2023

A Compendious Review of Majorization-Based Resource Theories: Quantum Information and Quantum Thermodynamics

The field of quantum resource theory (QRT) has emerged as an invaluable framework for the examination of small and strongly correlated quantum systems, surpassing the boundaries imposed by traditional statistical treatments. The fundamental objective of general QRTs is to characterize these systems by precisely quantifying the level of control attainable to an experimenter. In this review article, we refrain from providing an exhaustive summary of the extensive literature on QRT. Rather, our focus centers on a specific sub-literature founded upon the theory of majorization. The primary aim is to augment our comprehension of genuine quantum phenomena manifested across diverse technological applications and incite investigations into novel resource theories encompassing multiple types of resources. Consequently, we emphasize the underlying similarities shared by various resources, including bipartite quantum entanglement, quantum coherence, and superposition, alongside informational, thermal, and generalized nonequilibrium resources.

quant-ph↗

arXiv2023

What is \textit{Quantum} in Probabilistic Explanations of the Sure Thing Principle Violation?

The Prisoner's Dilemma game (PDG) is one of the simple test-beds for the probabilistic nature of the human decision-making process. Behavioral experiments have been conducted on this game for decades and show a violation of the so-called \textit{sure thing principle}, a key principle in the rational theory of decision. Quantum probabilistic models can explain this violation as a second-order interference effect, which cannot be accounted for by classical probability theory. Here, we adopt the framework of generalized probabilistic theories and approach this explanation from the viewpoint of quantum information theory to identify the source of the interference. In particular, we reformulate one of the existing quantum probabilistic models using density matrix formalism and consider different amounts of classical and quantum uncertainties for one player's prediction about another player's action in PDG. This enables us to demonstrate that what makes possible the explanation of the violation is the presence of \textit{quantum coherence} in the player's initial prediction and its conversion to probabilities during the dynamics. Moreover, we discuss the role of other quantum information-theoretical quantities, such as quantum entanglement, in the decision-making process. Finally, we propose a three-choice extension of the PDG to compare the predictive powers of quantum probability theory and a more general probabilistic theory that includes it as a particular case and exhibits third-order interference.

quant-ph↗

arXiv2022

Witnessing superpositions of causal orders before the process is completed

The questions we raise in this letter are as follows: What is the most general representation of a quantum state at a single point in time? Can we adapt the current formalisms to situations where the order of quantum operations is coherently or incoherently superposed? If so, what are the relations between the state at a given time and the uncertainty in the order of events before and after it? Establishing the relationship between two-state vector formalism and pseudo-density operators, we introduce the notion of a single-time pseudo-state. The tomographic construction of single-time pseudo-states is possible by ideal or weak measurements. We demonstrate that the eigenspectrum obtained from weak measurements enables us to discriminate between some coherent and incoherent superpositions of causal orders in pre- and post-selected systems before the process is completed. Finally, we discuss some possible experimental realizations in existing photonic setups.

quant-ph↗

arXiv2021

Quantum Correlations in Jahn-Teller Molecular Systems Simulated with Superconducting Circuits

We explore quantum correlations, in particular, quantum entanglement, among vibrational phonon modes as well as between electronic and vibrational degrees of freedom in molecular systems, described by Jahn-Teller mechanism. Specifically, to isolate and simplify the phonon-electron interactions in a complex molecular system, the basis of our discussions is taken to be the proposal of simulating two-frequency Jahn-Teller systems using superconducting circuit quantum electrodynamics systems (circuit QED) by Tekin Dereli and co-workers in 2012. We evaluate the quantum correlations, in particular entanglement between the vibrational phonon modes, and present analytical explanations using a single privileged Jahn-Teller mode picture. Furthermore, spin-orbit entanglement or quantum correlations between electronic and vibrational degrees of freedom are examined, too. We conclude by discussing experimental feasibility to detect such quantum correlations, considering the dephasing and decoherence in state-of-the-art superconducting two-level systems (qubits).

quant-ph↗

arXiv2021

Classical and Quantum Orbital Correlations in the Molecular Electronic States

The quantum superposition principle has been extensively utilized in the quantum mechanical description of the bonding phenomenon. It explains the emergence of delocalized molecular orbitals and provides a recipe for the construction of near-exact electronic wavefunctions. On the other hand, its existence in composite systems may give rise to nonclassical correlations that are regarded now as a resource in quantum technologies. Here, we approach the electronic ground states of three prototypical molecules from the point of view of fermionic information theory. For the first time in the literature, we properly decompose the pairwise orbital correlations into their classical and quantum parts in the presence of superselection rules. We observe that quantum orbital correlations can be stronger than classical orbital correlations though not often. Also, quantum orbital correlations can survive even in the absence of orbital entanglement depending on the symmetries of the constituent orbitals. Finally, we demonstrate that orbital entanglement would be underestimated if the orbital density matrices were treated as qubit states.

quant-ph↗