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An agent-based model of triple-negative breast cancer: the interplay between chemokine receptor CCR5 expression, cancer stem cells, and hypoxia
Published on: 2017
Published by: BMC SYSTEMS BIOLOGY
Sponsored by: United States National Institutes of Health (NIH)
Platforms: MATLAB
Related Files: Paper:
Documentation: Other Narrative Flow charts
Authored by: Kerri-Ann Norton, Aleksander S Popel, Travis Wallace, Niranjan B Pandey
Tags

Migration systems biology Metastasis breast cancer computational model tumor heterogeneity growth Carcinoma in-situ Epithelial acini Intratumor heterogeneity Lymphatic endothelial-cells Inducible factors Tumor microenvironment

Extinction phase transitions in a model of ecological and evolutionary dynamics
Published on: 2017
Published by: EUROPEAN PHYSICAL JOURNAL B
Sponsored by: United States National Science Foundation (NSF)
Platforms: Unknown
Related Files: Paper:
Documentation: Other Narrative Mathematical description
Authored by: Hatem Barghathi, Skye Tackkett, Thomas Vojta
Tags

Simulations population systems Critical-behavior Lattice Directed percolation Ising-models Defects

Dynamic spectrum leasing and retail pricing using an experimental economy
Published on: 2017
Published by: COMPUTER NETWORKS
Sponsored by: European Union Slovak Research and Development Agency
Platforms: NetLogo
Related Files: Paper:
Documentation: Other Narrative Flow charts Mathematical description
Authored by: Vladimir Gazda, Juraj Gazda, Denis Horvath, Gabriel Bugar, Marcel Volosin, Peter Drotar
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Competition Agent-based modeling coordination networks Dynamic spectrum distribution Experimental economy Retail pricing Roth-erev algorithm Access markets

The Influence of Spatial Configuration of Residential Area and Vector Populations on Dengue Incidence Patterns in an Individual-Level Transmission Model
Published on: 2017
Published by: INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH
Sponsored by: United States National Institutes of Health (NIH)
Platforms: Unknown
Related Files: Paper:
Documentation: ODD Flow charts
Authored by: Jeon-Young Kang, Jared Aldstadt
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Agent-based model Thailand disease Culicidae Virus Survival Risk-factors Puerto-rico Village Aedes-aegypti diptera Dengue Spatial configuration Mosquito population Serotype dominance Ecuador

Stochastic user equilibrium traffic assignment with equilibrated parking search routes
Published on: 2017
Published by: TRANSPORTATION RESEARCH PART B-METHODOLOGICAL
Sponsored by: Unknown
Platforms: Unknown
Related Files: Paper:
Documentation: Other Narrative Pseudocode Mathematical description
Authored by: Adam J Pel, Emmanouil Chaniotakis
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Agent-based model behavior Parking networks Queuing theory Choice Policies Traffic assignment Morning commute Facilities Service Stochastic user equilibrium Choice modeling Cruising-for-parking Space constraints

Exploring the connection between emergent animal personality and fitness using a novel individual-based model and decision tree approach
Published on: 2017
Published by: ECOL INFORM
Sponsored by: Unknown
Platforms: Unknown
Related Files: Paper:
Documentation: Other Narrative Flow charts Pseudocode
Authored by: Morteza Mashayekhi, Brian MacPherson, Robin Gras, Ryan Scott
Tags

Animal behavior fitness Climate-change Consequences Ecological models Reproduction Trade-offs Antipredator behavior Extra-pair Animal personality Rule extraction Internal states Energy acquisition rates Lifetime fitness Intrinsic growth Menidia-menidia

Disentangling the relative merits and disadvantages of parentage analysis and assignment tests for inferring population connectivity
Published on: 2017
Published by: ICES JOURNAL OF MARINE SCIENCE
Sponsored by: United States National Science Foundation (NSF)
Platforms: R
Related Files: Code: Paper:
Documentation: Other Narrative
Authored by: Mark R Christie, Patrick G Meirmans, Oscar E Gaggiotti, Robert J Toonen, Crow White
Tags

Marine protected areas Dispersal Reproductive success Coral-reef fish Larval dispersal Natural-populations Local adaptation Gene-flow Parentage analysis Multilocus genotypes Genetic assignment tests Larval connectivity Marine meta-populations Single-nucleotide polymorphisms Empirical-evaluation

Simbiotics: A Multiscale Integrative Platform for 3D Modeling of Bacterial Populations
Published on: 2017
Published by: ACS SYNTHETIC BIOLOGY
Sponsored by: United Kingdom Engineering and Physical Sciences Research Council (EPSRC)
Platforms: Java
Related Files: Code: Paper:
Documentation: Other Narrative Mathematical description
Authored by: Jonathan Naylor, Harold Fellermann, Yuchun Ding, Waleed K Mohammed, Nicholas S Jakubovics, Joy Mukherjee, Catherine A Biggs, Phillip C Wright, Natalio Krasnogor
Tags

Simulation Communication interaction chemotaxis Multiscale systems synthetic biology Escherichia-coli Agent-based model Biofilm formation Adhesion Bacterial population Biofilm Cell-growth Dlvo theory

Closing the gaps for animal seed dispersal: Separating the effects of habitat loss on dispersal distances and seed aggregation
Published on: 2017
Published by: ECOLOGY AND EVOLUTION
Sponsored by: Unknown
Platforms: Unknown
Related Files: Paper:
Documentation: Other Narrative
Authored by: Landon R Jones, Scott M Duke-Sylvester, Paul L Leberg, Derek M Johnson
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Individual-based model behavior spatial pattern fragmented landscapes birds mechanistic model Long-distance dispersal Recruitment Consequences Tree Spatial-patterns Long Temperate forest Forest fragmentation Fragment entrapment Spatially contagious dispersal

Adapting Axelrod's cultural dissemination model for simulating peer effects
Published on: 2017
Published by: METHODSX
Sponsored by: Austrian Climate Research Program
Platforms: Unknown
Related Files: Paper:
Documentation: Other Narrative Flow charts
Authored by: Manfred Fuellsack, Christian Hofer, Gernot Lechner, Thomas Brudermann
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Agent-based modeling diffusion Peer effects cultural dissemination Incomplete data Diffusion processes Photovoltaics