Related papers: Scaling effects in the Penna ageing model
We consider a stochastic individual-based model of adaptive dynamics for an asexually reproducing population with mutation, with linear birth and death rates, as well as a density-dependent competition. To depict repeating changes of the…
Evolutionary forces shape patterns of genetic diversity within populations and contribute to phenotypic variation. In particular, recurrent positive selection has attracted significant interest in both theoretical and empirical studies.…
We analyze the advantage of cell size control strategies in growing populations under mortality constraints. We demonstrate a general advantage of the adder control strategy in the presence of growth-dependent mortality, and for different…
We study the dynamics of an age-structured population in which the life expectancy of an offspring may be mutated with respect to that of its parent. When advantageous mutation is favored, the average fitness of the population grows…
In 1995 T.J.Penna introduced a simple model of biological aging. A modified Penna model has been demonstrated to exhibit behaviour of real-life systems including catastrophic senescence in salmon and a mortality plateau at advanced ages. We…
The ongoing explosion of genome sequence data is transforming how we reconstruct and understand the histories of biological systems. Across biological scales, from individual cells to populations and species, trees-based models provide a…
We study, both analytically and numerically, the interaction effects on the skewness of the size distribution of elements in a growth model. We incorporate two types of global interaction into the growth model, and develop analytic…
We use a simple model for biological ageing to study the mortality of the population, obtaining a good agreement with the Gompertz law. We also simulate the same model on a square lattice, considering different strategies of parental care.…
Using a lattice model based on Monte Carlo simulations, we study the role of the reproduction pattern on the fate of an evolving population. Each individual is under the selection pressure from the environment and random mutations. The…
How does scaling the number of parameters in large language models (LLMs) affect their core capabilities? We study two natural scaling techniques -- weight pruning and simply training a smaller or larger model, which we refer to as dense…
We study the effect of temperature shift on aging phenomena in the Random Energy Model (REM). From calculation on the correlation function and simulation on the Zero-Field-Cooled magnetization, we find that the REM satisfies a scaling…
Scaling the test-time compute of large language models has demonstrated impressive performance on reasoning benchmarks. However, existing evaluations of test-time scaling make the strong assumption that a reasoning system should always give…
We have previously reported that a 'universal' growth law with fixed scaling exponent p, as proposed by West and collaborators for all living organisms, appears to be able to describe also the growth of tumors in vivo. Here, we investigate…
Establishing a quantitative connection between the population growth rate and the generation times of single cells is a prerequisite for understanding evolutionary dynamics of microbes. However, existing theories fail to account for the…
Population-based evolutionary algorithms (EAs) have been widely applied to solve various optimization problems. The question of how the performance of a population-based EA depends on the population size arises naturally. The performance of…
Various genome evolutionary models have been proposed these last decades to predict the evolution of a DNA sequence over time, essentially described using a mutation matrix. By essence, all of these models relate the evolution of DNA…
The gradual accumulation of damage and dysregulation during the aging of living organisms can be quantified. Even so, the aging process is complex and has multiple interacting physiological scales -- from the molecular to cellular to whole…
In an evolutionary algorithm, the population has a very important role as its size has direct implications regarding solution quality, speed, and reliability. Theoretical studies have been done in the past to investigate the role of…
We introduce a family of models incorporating random segmental substitutions and point mutations and demonstrate that such models reproduce algebraic length distributions of exact matches with the slope $-4$ observed earlier in pairwise…
Evolving genomes increase a number of their genes by gene duplications. To escape degradation in a functionless pseudogene, any gene duplicate needs to be guarded by negative (purifying) selection from otherwise inevitable fixation of…