Literature DB >> 31624268

A unified framework for analysis of individual-based models in ecology and beyond.

Stephen J Cornell1, Yevhen F Suprunenko2,3, Dmitri Finkelshtein4, Panu Somervuo5, Otso Ovaskainen5,6.   

Abstract

Individual-based models, 'IBMs', describe naturally the dynamics of interacting organisms or social or financial agents. They are considered too complex for mathematical analysis, but computer simulations of them cannot give the general insights required. Here, we resolve this problem with a general mathematical framework for IBMs containing interactions of an unlimited level of complexity, and derive equations that reliably approximate the effects of space and stochasticity. We provide software, specified in an accessible and intuitive graphical way, so any researcher can obtain analytical and simulation results for any particular IBM without algebraic manipulation. We illustrate the framework with examples from movement ecology, conservation biology, and evolutionary ecology. This framework will provide unprecedented insights into a hitherto intractable panoply of complex models across many scientific fields.

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Year:  2019        PMID: 31624268      PMCID: PMC6797757          DOI: 10.1038/s41467-019-12172-y

Source DB:  PubMed          Journal:  Nat Commun        ISSN: 2041-1723            Impact factor:   14.919


  14 in total

1.  Neutral evolution in spatially continuous populations.

Authors:  Nick H Barton; Frantz Depaulis; Alison M Etheridge
Journal:  Theor Popul Biol       Date:  2002-02       Impact factor: 1.570

2.  COMPETITION, HABITAT SELECTION, AND CHARACTER DISPLACEMENT IN A PATCHY ENVIRONMENT.

Authors:  R MACARTHUR; R LEVINS
Journal:  Proc Natl Acad Sci U S A       Date:  1964-06       Impact factor: 11.205

3.  A new model for extinction and recolonization in two dimensions: quantifying phylogeography.

Authors:  Nicholas H Barton; Jerome Kelleher; Alison M Etheridge
Journal:  Evolution       Date:  2010-09       Impact factor: 3.694

4.  The Stepping Stone Model of Population Structure and the Decrease of Genetic Correlation with Distance.

Authors:  M Kimura; G H Weiss
Journal:  Genetics       Date:  1964-04       Impact factor: 4.562

5.  Space and stochasticity in population dynamics.

Authors:  Otso Ovaskainen; Stephen J Cornell
Journal:  Proc Natl Acad Sci U S A       Date:  2006-08-15       Impact factor: 11.205

6.  Scaling laws of marine predator search behaviour.

Authors:  David W Sims; Emily J Southall; Nicolas E Humphries; Graeme C Hays; Corey J A Bradshaw; Jonathan W Pitchford; Alex James; Mohammed Z Ahmed; Andrew S Brierley; Mark A Hindell; David Morritt; Michael K Musyl; David Righton; Emily L C Shepard; Victoria J Wearmouth; Rory P Wilson; Matthew J Witt; Julian D Metcalfe
Journal:  Nature       Date:  2008-02-28       Impact factor: 49.962

7.  Multiple movement modes by large herbivores at multiple spatiotemporal scales.

Authors:  John M Fryxell; Megan Hazell; Luca Börger; Ben D Dalziel; Daniel T Haydon; Juan M Morales; Therese McIntosh; Rick C Rosatte
Journal:  Proc Natl Acad Sci U S A       Date:  2008-12-05       Impact factor: 11.205

8.  Metapopulation responses to patch connectivity and quality are masked by successional habitat dynamics.

Authors:  Jenny A Hodgson; Atte Moilanen; Chris D Thomas
Journal:  Ecology       Date:  2009-06       Impact factor: 5.499

9.  Lost in presumption: stochastic reactions in spatial models.

Authors:  Anel Mahmutovic; David Fange; Otto G Berg; Johan Elf
Journal:  Nat Methods       Date:  2012-12       Impact factor: 28.547

10.  Spatial point processes and moment dynamics in the life sciences: a parsimonious derivation and some extensions.

Authors:  Michael J Plank; Richard Law
Journal:  Bull Math Biol       Date:  2014-09-13       Impact factor: 1.758

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  5 in total

1.  Comparative assessment of immune evasion mechanisms in human whole-blood infection assays by a systems biology approach.

Authors:  Teresa Lehnert; Maria T E Prauße; Kerstin Hünniger; Jan-Philipp Praetorius; Oliver Kurzai; Marc Thilo Figge
Journal:  PLoS One       Date:  2021-04-01       Impact factor: 3.240

2.  Analytical approximation for invasion and endemic thresholds, and the optimal control of epidemics in spatially explicit individual-based models.

Authors:  Yevhen F Suprunenko; Stephen J Cornell; Christopher A Gilligan
Journal:  J R Soc Interface       Date:  2021-03-31       Impact factor: 4.118

3.  Consilience of methods for phylogenetic analysis of variance.

Authors:  Dean C Adams; Michael L Collyer
Journal:  Evolution       Date:  2022-05-19       Impact factor: 4.171

4.  Habitat fragmentation and species diversity in competitive communities.

Authors:  Joel Rybicki; Nerea Abrego; Otso Ovaskainen
Journal:  Ecol Lett       Date:  2019-12-20       Impact factor: 9.492

5.  A general mathematical method for predicting spatio-temporal correlations emerging from agent-based models.

Authors:  Otso Ovaskainen; Panu Somervuo; Dmitri Finkelshtein
Journal:  J R Soc Interface       Date:  2020-10-28       Impact factor: 4.118

  5 in total

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