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Search · four archives
15 papers · ranked by Valyu relevance
Johann Mourier, Marc Soria, Matthew Silk, Angélique Demichelis + 2 more
Animal movements are typically influenced by multiple environmental factors simultaneously and individuals vary in their response to this environmental heterogeneity. Therefore, understanding how environmental aspects, including biotic, abiotic and anthropogenic factors, influence the movements of wild animals is an…
Adam B. Rohrlach, Guido Alberto Gnecchi-Ruscone, Zuzana Hofmanová, Matthew Roughan + 2 more
Genetic relatedness between ancient humans can help to identify close and distant connections between groups and populations, uncovering signatures of demographic histories such as identifying mating networks or long-range migration. Critical to researchers are the characteristics that connected individuals, or groups…
Ruoyao Zhang, Gaurav Mitra, Souradeep Ghosh, Rohit V. Pappu
Multivalent biomacromolecules including multi-domain and intrinsically disordered proteins form biomolecular condensates via reversible phase transitions. Condensates are viscoelastic materials that display composition-specific rheological properties and responses to mechanical forces. Graph-based descriptions of…
Michael W. Reimann, Daniela Egas Santander, Lida Kanari, Natali Barros-Zulaica
Connectivity in neuronal networks is characterized by high complexity that is required for the correct function of the circuitry. Our attempts to capture it has thus far been limited to the addition of individual features of complexity to stochastic models, leading to limited insights into its origin. Based on the idea…
Jian Chen
Analysis of the sequential accumulation of genetic events, such as mutations and copy number alterations, is key to understanding disease dynamics and may provide insights into the design of targeted therapies. Oncogenetic graphical models are computational methods that use genetic event profiles from cross-sectional…
Raima Carol Appaw, Matthew J Silk, Julie Rushmore, Kimberly VanderWaal + 2 more
Detecting patterns in animal social behaviour and movement is complicated by the diversity of ecological, evolutionary, environmental, and biological drivers of these behaviours such as migration, foraging, assortative mixing, socio-ecological factors, and human influence. Addressing these complexities requires a…
Nicholas Christiansen, Ioanna Sandvig, Axel Sandvig
Biological neural networks are characterized by short average path lengths, high clustering, and modular and hierarchical architectures. These complex network topologies strike a balance between local specialization and global synchronization via long-range connections, resulting in highly efficient communication.…
Jordan D. A. Hart, Michael N. Weiss, Daniel W. Franks, Lauren J. N. Brent
Social networks are often constructed from point estimates of edge weights. In many contexts, edge weights are inferred from observational data, and the uncertainty around point estimates can be affected by various factors. Though this has been acknowledged in previous work, methods that explicitly quantify uncertainty…
Tobias Røikjer, Asger Hobolth, Kasper Munch
Phase-type distributions model the time until absorption in continuous or discrete-time Markov chains on a finite state space. The multivariate phase-type distributions have diverse and important applications by modeling rewards accumulated at visited states. However, even moderately-sized state spaces make the…
Fernando Alcalde Cuesta, Gustavo Guerberoff, Álvaro Lozano Rojo
In this paper, we study the absorption and fixation times for evolutionary processes on graphs, under different updating rules. While in Moran process a single neighbour is randomly chosen to be replaced, in proliferation processes other neighbours can be replaced using Bernoulli or binomial draws depending on 0 < p ≤…
Heather M. Shappell, Mark A. Kramer, Catherine J. Chu, Eric D. Kolaczyk
Stochastic Actor-Oriented Models (SAOMs) were designed in the social network setting to capture network dynamics representing a variety of influences on network change. The standard framework assumes the observed networks are free of false positive and false negative edges, which may be an unrealistic assumption. We…
Shuji Shinohara, Hiroshi Okamoto, Toru Moriyama, Yoshihiro Nakajima + 3 more
The Lévy walk, a type of random walk in which the frequency of linear step lengths follows a power-law distribution, can be observed in the migratory behavior of organisms at various levels, from bacteria and T cells to humans. Compared to the Brownian walk, which is also a type of random walk (characterized by an…
Liying Chen, Satwik Acharyya, Chunyu Luo, Yang Ni + 1 more
Probabilistic graphical models are powerful and widely used tools to quantify, visualize and interpret dependencies in complex biological systems such as highthroughput genomics and proteomics. However, most existing graphical modeling methods assume homogeneity within and across samples which restricts their broad…
Yu-Jyun Huang, Rajarshi Mukherjee, Chuhsing Kate Hsiao
Gaussian graphical models (GGMs), also known as Gaussian Markov random field (MRF) models, are commonly used for gene regulatory network construction. Most current approaches to estimating network structure via GGMs can be categorized into a binary decision that determines if an edge exists through penalized…
Thinh P. Ong, Anh T. Q. Phan, Lam M. Ha, Marc Choisy
Compartmental models are widely used for dynamical systems where states are discrete such as in infectious diseases epidemiology with the so-called SIR or Susceptible-Infectious-Recovered framework. For mathematical simplicity, rates of transition between compartments are generally assumed to be independent of the…