Research
Research
Research
Research
503+ open-access research outputs.
Genome-Scale Metabolic Models (GEMs) describe the interactions between genes, proteins, and the biochemical reactions that underpin an organism's metabolism aiming to computationally simulate function…
Understanding how biochemical systems settle into stable states, such as how protein concentrations reach equilibrium, is central to explaining cellular behavior and designing synthetic biological cir…
Air Traffic Flow Management (ATFM) traffic regulations are being increasingly used as rising demand meets persistent workforce shortages. This operational strain has amplified a critical phenomenon th…
Alzheimer's disease is the most common neurodegenerative disorder. Its pathological development is connected with the misfolding and accumulation of two toxic proteins: amyloid-beta and tau proteins. …
Recently, the statistical properties of empirical Entropic Optimal Transport (EOT) have attracted great interest, as this quantity has been shown to be useful for complex data analysis, among other re…
Despite hydrogen being central to Europe's decarbonisation strategy, only a small share of renewable hydrogen projects reached final investment decision. A key barrier is uncertainty about how future …
Robust oscillations play crucial roles in a wide variety of biological processes and are often generated by deterministic mechanisms. However, stochastic fluctuations often generate complex perturbati…
We study population dynamics through a general growth/degrowth-fragmentation process, with resource consumption and unbounded growth/degrowth, birth and death rates. Our model is structured in a posit…
We present a systematic classification of uncolored bonded knots with singularity number at most seven. Bonded knots provide a topological model for closed protein chains with intramolecular bridges, …
Mathematical modeling offers a valuable approach to understanding Alzheimers disease (AD) given its complexity, unknown causes, and lack of effective treatments. Models, once validated, offer a powerf…
We present a deterministic framework for proton therapy dose calculation based on finite element discretizations of the energy-dependent $M_1$ moment model. The nonlinear $M_1$ system is derived from …
Classical approximation and learning methods are typically optimized for interpolation over a sampled domain {\Omega}, with no guarantees on their behavior in an extrapolation region {\Xi}, where smal…
Ion transport through narrow channels is described by the coupled Poisson--Nernst--Planck--Stokes equations (PNPS) on a continuum scale. However, direct numerical simulations in two or three dimension…
We present a complete classification of spherical knotoids with up to six crossings and conjecture that our classification up to seven crossings is complete. Our work extends the tradition of knot tab…
Robust Markov decision processes (MDPs) have attracted significant interest due to their ability to protect MDPs from poor out-of-sample performance in the presence of ambiguity. In contrast to classi…
Universal algebraic geometry allows considering of geometric properties of every universal algebra. When two algebras have same algebraic geometry? We must consider the categories of algebraic closed …
Genetic mutations frequently disrupt protein structure, stability, and solubility, acting as primary drivers for a wide spectrum of diseases. Despite the critical importance of these molecular alterat…
Accumulation of amyloid beta proteins is a defining feature of Alzheimer's disease, and is usually accompanied by cerebrovascular pathology. Evidence suggests that amyloid beta and cerebrovascular pat…
Rare events in molecular dynamics are often related to noise-induced transitions between different macroscopic states (e.g., in protein folding). A common feature of these rare transitions is that the…
Motivated by the use of Taylor-Couette flow in extracorporeal circulation devices [K$\ddot{\rm o}$rfer et al., 2003, 26(4): 331-338], where it leads to an accumulation of platelets and plasma proteins…
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