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Molecular phenotypes are important links between genomic information and organismic functions, fitness, and evolution. Complex phenotypes, which are also called quantitative traits, often depend on multiple genomic loci. Their evolution…

Populations and Evolution · Quantitative Biology 2015-06-12 Armita Nourmohammad , Stephan Schiffels , Michael Laessig

Social networks tend to disproportionally favor connections between individuals with either similar or dissimilar characteristics. This propensity, referred to as assortative mixing or homophily, is expressed as the correlation between…

Social and Information Networks · Computer Science 2011-08-10 Johan Bollen , Bruno Goncalves , Guangchen Ruan , Huina Mao

We introduce a new model of evolution on a fitness landscape possessing a tunable degree of neutrality. The model allows us to study the general properties of molecular species undergoing neutral evolution. We find that a number of…

adap-org · Physics 2007-05-23 M. E. J. Newman , Robin Engelhardt

Understanding the forces governing human behavior and social dynamics is a challenging problem. Individuals' decisions and actions are affected by interlaced factors, such as physical location, homophily, and social ties. In this paper, we…

Social and Information Networks · Computer Science 2018-01-30 Luca Luceri , Alberto Vancheri , Torsten Braun , Silvia Giordano

We investigate how the pattern of contacts between species in mutualistic ecosystems is affected by the phylogenetic proximity between the species of each guild. We develop a dynamical model geared to establish the role of such proximity in…

Populations and Evolution · Quantitative Biology 2011-10-18 R. P. J. Perazzo , Laura Hernández , Horacio Ceva , Enrique Burgos , José Ignacio Alvarez-Hamelin

We model network formation when heterogeneous nodes enter sequentially and form connections through both random meetings and network-based search, but with type-dependent biases. We show that there is "long-run integration," whereby the…

Physics and Society · Physics 2012-04-10 Yann Bramoullé , Sergio Currarini , Matthew O. Jackson , Paolo Pin , Brian W. Rogers

Genotype networks are a method used in systems biology to study the "innovability" of a set of genotypes having the same phenotype. In the past they have been applied to determine the genetic heterogeneity, and stability to mutations, of…

Populations and Evolution · Quantitative Biology 2015-06-17 Giovanni Marco Dall'Olio , Jaume Bertranpetit , Andreas Wagner , Hafid Laayouni

We study the task of node classification for graph neural networks (GNNs) and establish a connection between group fairness, as measured by statistical parity and equal opportunity, and local assortativity, i.e., the tendency of linked…

Social and Information Networks · Computer Science 2022-11-16 Donald Loveland , Jiong Zhu , Mark Heimann , Ben Fish , Michael T. Schaub , Danai Koutra

Is homophily in social and economic networks driven by a taste for homogeneity (preferences) or by a higher probability of meeting individuals with similar attributes (opportunity)? This paper studies identification and estimation of an…

Econometrics · Economics 2026-03-20 Luis Alvarez , Cristine Pinto , Vladimir Ponczek

We consider a spatial model of the emergence of cooperation with synchronous births and deaths. Agents bear a tag and interact with their neighbors by playing the prisoner's dilemma game with strategies depending on their own and opponent's…

Populations and Evolution · Quantitative Biology 2020-05-04 Julien Flaig , Nicolas Houy

Modern biological tools have made it possible to unequivocally demonstrate the deep relationship among species in terms of genes and basic molecular mechanisms. In addition, results from genetic, physical and physiological approaches…

Populations and Evolution · Quantitative Biology 2019-03-11 Jacques H. Daniel

Microbiome-based stratification of healthy individuals into compositional categories, referred to as "community types", holds promise for drastically improving personalized medicine. Despite this potential, the existence of community types…

Quantitative Methods · Quantitative Biology 2016-04-27 Travis E. Gibson , Amir Bashan , Hong-Tai Cao , Scott T. Weiss , Yang-Yu Liu

Although geographic isolation has been shown to play a key role in promoting reproductive isolation, it is now believed that speciation can also happen in sympatry and with considerable gene flow. Here we present a model of sympatric…

Populations and Evolution · Quantitative Biology 2020-05-20 Rodrigo A. Caetano , Sergio Sanchez , Carolina L. N. Costa , Marcus A. M. de Aguiar

Mutational neighbourhoods in genotype-phenotype (GP) maps are widely believed to be more likely to share characteristics than expected from random chance. Such genetic correlations should, as John Maynard Smith famously pointed out,…

Populations and Evolution · Quantitative Biology 2016-03-08 Sam F. Greenbury , Steffen Schaper , Sebastian E. Ahnert , Ard A. Louis

In this work we present a model for evolving networks, where the driven force is related to the social affinity between individuals in a population. In the model, a set of individuals initially arranged on a regular ordered network and thus…

Adaptation and Self-Organizing Systems · Physics 2009-11-13 B. Ruyu , M. N. Kuperman

We model a social-encounter network where linked nodes match for reproduction in a manner depending probabilistically on each node`s attractiveness. The developed model reveals that increasing either the network`s mean degree or the…

Physics and Society · Physics 2017-06-22 S. Dipple , T. Jia , T. Caraco , G. Korniss , B. K. Szymanski

The evolution of cooperation often depends upon population structure, yet nearly all models of cooperation implicitly assume that this structure remains static. This is a simplifying assumption, because most organisms possess genetic traits…

Populations and Evolution · Quantitative Biology 2012-08-03 Simon T. Powers , Alexandra S. Penn , Richard A. Watson

Nature (one's genes) and nurture (one's environment) jointly contribute to the formation and evolution of health and human capital over the life cycle. This complex interplay between genes and environment can be estimated and quantified…

We introduce a model for the formation of social networks, which takes into account the homophily or the tendency of individuals to associate and bond with similar others, and the mechanisms of global and local attachment as well as tie…

Physics and Society · Physics 2019-03-28 Yohsuke Murase , Hang-Hyun Jo , János Török , János Kertész , Kimmo Kaski

Genetic information and environmental factors determine the path of an individuals life and therefore, the evolution of its entire species. We have succeeded in proposing and studying a model that captures this idea. In our model, a…

Populations and Evolution · Quantitative Biology 2021-07-28 N. Abadi , G. Abramson