种群与进化
Let x and y be two length n DNA sequences, and suppose we would like to estimate the divergence time T. A well known simple but crude estimate of T is p := d(x,y)/n, the fraction of mutated sites (the p-distance). We establish a posterior…
Recurrence plots and their associated quantifiers provide a robust framework for detecting and characterising complex patterns in non-linear time-series. In this paper, we employ recurrence quantification analysis to investigate the…
Analysing and understanding the transmission and evolution of the COVID-19 pandemic is mandatory to be able to design the best social and medical policies, foresee their outcomes and deal with all the subsequent socio-economic effects. We…
Probabilistic modeling over the combinatorially large space of tree topologies remains a central challenge in phylogenetic inference. Previous approaches often necessitate pre-sampled tree topologies, limiting their modeling capability to a…
This work explores the relationship between altruism and the genetic system of arrhenotoky through an evolutionary game theory (EGT)-inspired lens, using a dynamic model of beehive populations consisting of three castes: workers, drones,…
Semi-directed networks are partially directed graphs that model evolution where the directed edges represent reticulate evolutionary events. We present an algorithm that reconstructs binary $n$-leaf semi-directed level-1 networks in $O(…
This study proposes a new method for computing transpiration across an eddy covariance footprint using field observations of plant sap flow, phytomorphology sampling, uncrewed aerial system (UAS), deep learning-based digital image…
A major locus of musicological activity-increasingly in the digital domain-is the cataloguing of sources, which requires large-scale and long-lasting research collaborations. Yet, the databases aiming at covering and representing musical…
Mobile genetic elements (e.g., endogenous viruses, LINEs, SINEs) can transfer between genomes, even between species, triggering dramatic genetic changes. Endogenous viral elements (EVEs) arise when infectious viruses integrate into the host…
Sterile Insect Technique (SIT) is a promising control method against insect pests and insect vectors. It consists in releasing males previously sterilized in laboratory, in order to reduce or eliminate a specific wild population. We study…
Here we demonstrate the first biochemistry-agnostic approach to map evolutionary relationships at the molecular scale, allowing the construction of phylogenetic models using mass spectrometry (MS) and Assembly Theory (AT) without…
The myriad microscopic interactions among the individual organisms that constitute an ecological system collectively give rise, at the macroscopic scale, to evolutionary trends. The ability to detect the directionality of such trends is…
Recently, Sturma, Drton, and Leung proposed a general-purpose stochastic method for hypothesis testing in models defined by polynomial equality and inequality constraints. Notably, the method remains theoretically valid even near irregular…
The population biology model holds a significant position within ecosystems. Introducing stochastic perturbations into the model can more accurately depict real biological processes. In this paper, we primarily investigate the most probable…
An ordinary differential model is proposed to understand the role of egg quiescence on the efficacy of releasing Wolbachia-infected mosquitoes to control arbovirus transmission. The model admits up to five equilibrium points and four…
Sudden changes in environmental conditions can lead to evolutionary shifts not only in the optimal trait value, but also in the diffusion variance under the Ornstein-Uhlenbeck (OU) model. While several methods have been developed to detect…
Ordered leaf attachment, Phylo2Vec, and HOP are three recently introduced vector representations for rooted phylogenetic trees where the representation is determined by an ordering of the underlying leaf set X. Comparing the vectors of two…
Understanding functional diversity, the range and variability of species' roles and actions within their communities, is key to predicting and preserving the functions that sustain both nature and human well-being. In this paper, we provide…
This study presents a seasonally forced cholera model that incorporates imperfect vaccination as a control strategy. The model captures the temporal dynamics of susceptible, vaccinated, infected, and recovered individuals, as well as the…
We study how environmental stochasticity influences the long-term population size in certain one- and two-species models. The difficulty is that even when one can prove that there is persistence, it is usually impossible to say anything…