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A new type of experiment that aims to determine the optimal quantities of a sequence of factors is eliciting considerable attention in medical science, bioengineering, and many other disciplines. Such studies require the simultaneous…
Stochastic fluctuations of molecule numbers are ubiquitous in biological systems. Important examples include gene expression and enzymatic processes in living cells. Such systems are typically modelled as chemical reaction networks whose…
We describe a novel coarse-grained simulation method for modelling the dynamics of globular macromolecules, such as proteins. The macromolecule is treated as a continuum that is subject to thermal fluctuations. The model includes a…
Stochastic evolution of Chemical Reactions Networks (CRNs) over time is usually analysed through solving the Chemical Master Equation (CME) or performing extensive simulations. Analysing stochasticity is often needed, particularly when some…
Bosonic quantum devices offer a novel approach to realize quantum computations, where the quantum two-level system (qubit) is replaced with the quantum (an)harmonic oscillator (qumode) as the fundamental building block of the quantum…
A semiclassical simulation approach is presented for studying quantum noise in large-scale photonic circuits incorporating an ideal Kerr nonlinearity. A circuit solver is used to generate matrices defining a set of stochastic differential…
Glycosylation is a critical quality attribute for monoclonal antibody (mAb) production, influenced by both process conditions and cellular mechanisms. Multiscale mechanistic models, spanning from the bioreactor to the Golgi apparatus, have…
This paper studies the mitigation of intersymbol interference in a diffusive molecular communication system using enzymes that freely diffuse in the propagation environment. The enzymes form reaction intermediates with information molecules…
Quantum computers have rapidly improved in scale and fidelity, yet access to large systems remains limited for most researchers. This makes accurate and scalable noisy quantum simulation essential. While density matrix simulation provides…
This paper presents a noise-aware quantum-assisted framework for blockage prediction in reconfigurable intelligent surface (RIS)-enabled wireless networks. The proposed architecture integrates a Quantum Base Station (QBS), a Quantum RIS…
Simulating quantum physical processes has been one of the major motivations for quantum information science. Quantum channels, which are completely positive and trace preserving processes, are the standard mathematical language to describe…
In this article, we focus on two toy models : the Curie-Weiss model and the system of $N$ particles in linear interactions in a double well confining potential. Both models, which have been extensively studied, describe a large system of…
Variations of physical and chemical characteristics of biomass lead to an uneven flow of biomass in a biorefinery, which reduces equipment utilization and increases operational costs. Uncertainty of biomass supply and high processing costs…
Epigenetic cell memory, the inheritance of gene expression patterns across subsequent cell divisions, is a critical property of multi-cellular organisms. In recent work [10], a subset of the authors observed in a simulation study how the…
Background: Stochastic biochemical reaction networks are commonly modelled by the chemical master equation, and can be simulated as first order linear differential equations through a finite state projection. Due to the very high state…
Planar and linear arrays of SQUIDs (superconducting quantum interference devices), operate as nonlinear magnetic metamaterials in microwaves. Such {\em SQUID metamaterials} are paradigmatic systems that serve as a test-bed for simulating…
A fully bio-inspired apparatus to perform non-spectroscopic sensing to discriminate, and determine the constituent concentrations of a chemical mixture is proposed. Here, fully bio-inspired means that it is comprised of a biomimetic sensor…
This study investigates the application of quantum neural networks (QNNs) for propensity score estimation to address selection bias in comparing survival outcomes between laparoscopic and open surgical techniques in a cohort of 1177…
We propose Scalable Quantum Molecular Generation (SQMG), a variational quantum-circuit for sampling molecular graphs using chemical priors on atoms and bonds. SQMG assigns a fixed 3-qubit register to each heavy atom and reuses a single…
This paper considers the classical state machine replication (SMR) problem in a distributed system model inspired by cross-chain exchanges. We propose a novel SMR protocol adapted for this model. Each state machine transition takes $O(n)$…