Related papers: Second-Order Catalytic Quasispecies Yields First-O…
A quasispecies is the stationary state of a set of interrelated genotypes that evolve according to the usual principles of selection and mutation. Quasispecies studies have invariably concentrated on the possibility of errors during…
The quasi-species equation describes the evolution of the probability that a random individual in a population carries a given genome. Here we map the quasi-species equation for individuals of a self-reproducing population to an ensemble of…
Systems with quasiperiodic disorder are known to exhibit localization transition in low dimension. After a critical strength of disorder all the states of the system become localized, thereby ceasing the particle motion in the system.…
The activity of catalytic materials is reduced during operation by several mechanisms, one of them being poisoning of catalytic sites by chemisorbed impurities or products. Here we study the effects of poisoning in two reaction-diffusion…
A cyclically dominating three-species ecosystem, modeled within the framework of rock-paper-scissor game, is studied in presence of natural death and an effect of the environment. The environmental impact is parameterized along with the…
The dynamics of weak vs. strong first order phase transitions is investigated numerically for 2+1 dimensional scalar field models. It is argued that the change from a weak to a strong transition is itself a (second order) phase transition,…
This paper extends the semiconservative quasispecies equations to account for arbitrary post-replication lesion repair efficiency. Such an extension could be an important tool for understanding processes such as cancer development and stem…
The non-Hermitian extension of quasicrystals (QC) are highly tunable system for exploring novel material phases. While extended-localized phase transitions have been observed in one dimension, quantum phase transition in higher dimensions…
The presence of one or more species at some spatial locations but not others is a central matter in ecology. This phenomenon is related to ecological pattern formation. Nonlocal interactions can be considered as one of the mechanisms…
We study a model for the denaturation transition of DNA in which the molecules are considered as composed of a sequence of alternating bound segments and denaturated loops. We take into account the excluded-volume interactions between…
Key traits of unicellular species, like cell size, often follow scale-free or self-similar distributions, hinting at the possibility of an underlying critical process. However, linking such empirical scaling laws to the critical regime of…
The concept of (auto)catalytic systems has become a cornerstone in understanding evolutionary processes in various fields. The common ground is the observation that for the production of new species/goods/ideas/elements etc. the…
In real-world systems, phase transitions often materialize abruptly, making it difficult to design appropriate controls that help uncover underlying processes. Some agent-based computational models display transformations similar to phase…
The pattern of isentropes in the vicinity of a first-order phase transition is proposed as a key for a sub-classification. While the confinement--deconfinement transition, conjectured to set in beyond a critical end point in the QCD phase…
The origin of the non commutativity of the limits $t \to \infty$ and $N \to \infty$ in the dynamics of first order transitions is investigated. In the large-N model, i.e. $N \to \infty$ taken first, the low temperature phase is…
The quasispecies model was introduced in 1971 by Manfred Eigen to discuss the first stages of life on Earth. It provides an appealing mathematical framework to study the evolution of populations in biology, for instance viruses. We present…
We study a continuous-time nearest-neighbor branching random walk on the $d$-dimensional $b$-ary hypercube $\{0,1,\dots,b-1\}^d$ as a model for viral quasispecies evolution under mutation and replication. Motivated by mutagenic antiviral…
We study analytically and numerically a model metabolic cycle composed of an arbitrary number of species of catalytically active particles. Each species converts a substrate into a product, the latter being used as the substrate by the next…
In multi-agent environments in which coordination is desirable, the history of play often causes lock-in at sub-optimal outcomes. Notoriously, technologies with a significant environmental footprint or high social cost persist despite the…
Self-organized criticality elucidates the conditions under which physical and biological systems tune themselves to the edge of a second-order phase transition, with scale invariance. Motivated by the empirical observation of bimodal…