Modelling_biological_systems

# Modelling biological systems ## MicroSim spec - **Recommended sim type:** agent-based - **Microsimmability score:** 74/100 - **Layout:** drawing region (canvas) on top; control region (sliders/buttons) below. ### Parameters (tunable controls) - `Reaction rate` - `Diffusion rate` - `Initial concentration` ### What animates Concentrations in a model cell rise, fall, and spread as the reaction rates change. ### Learning objective Show how coupled rates model a [[Biological_system|biological system]]'s dynamics. ## Links (Wikipedia order)  `Amino_acid` · [[Atmospheric_model]] · `BioModels` · `BioPAX` · [[Bioinformatics]] · `Biological_data_visualization` · `Biological_organisation` · `Biomass` · `Biopsychosocial_model` · `Biosimulation` · `Biotechnology` · `Blue_Brain_Project` · `CASP` · [[Carbon]] · `Catastrophe_modeling` · `CellML` · `Cell_(biology)` · `Cell_cycle` · `Cell_membrane` · [[Cellular_model]] · [[Chemical_element]] · [[Chemical_process_modeling]] · `Chemical_species` · `Chemical_transport_model` · `Climate_model` · [[Complex_system]] · `Computational_anatomy` · [[Computational_archaeology]] · `Computational_astrophysics` · `Computational_biology` · `Computational_chemistry` · `Computational_cognition` · `Computational_economics` · `Computational_electromagnetics` · `Computational_engineering` · `Computational_finance` · `Computational_fluid_dynamics` · `Computational_genomics` · `Computational_geophysics` · `Computational_lexicology` · `Computational_linguistics` · `Computational_materials_science` · `Computational_mathematics` · `Computational_mechanics` · `Computational_neuroscience` · `Computational_particle_physics` · `Computational_phylogenetics` · `Computational_physics` · `Computational_politics` · `Computational_science` · `Computational_semantics` · `Computational_semiotics` · `Computational_social_science` · `Computational_sociology` · `Computational_statistics` · `Computational_thermodynamics` · `Computational_transportation_science` · `Computer_simulation` · `Concentration` · `Consciousness` · `Construction_and_management_simulation` · `Crime_mapping` · `Drug_design` · `Economic_model` · [[Ecosystem]] · [[Ecosystem_model]] · `Ecotoxicology` · [[Energy_modeling]] · `Enzyme` · `Epidemic` · `Food_web` · `Gene_regulatory_network` · `Gillespie_algorithm` · `Groundwater_model` · `Hydrological_model` · `Hydrological_transport_model` · `Input–output_model` · [[Integrated_assessment_modelling]] · `Inventory` · `L-system` · `Lausanne` · `Limit_cycle` · `List_of_computer_simulation_software` · `Mathematical_physiology` · `Mathematics` · [[Medicine]] · `Membrane_computing` · `Metabolic_network` · [[Metabolic_network_modelling]] · `Metabolism` · `Modular_Ocean_Model` · `Molecular_mechanics` · `Mycoplasma_genitalium` · `National_Science_Foundation` · `Neuron` · `Neuron_(software)` · [[Nitrogen]] · `Numerical_relativity` · `Nutrient` · `OpenWorm` · `Organism` · `Parameter` · [[Phosphorus]] · [[Population_model]] · `Predictive_modelling` · `Protein` · `Protein_structure_prediction` · [[Quantum_mechanics]] · `Reverse_engineering` · `Scientific_modelling` · `Signal_transduction` · `Simulated_growth_of_plants` · `Stochastic_simulation` · `Supercomputer` · `Supercomputing_and_Visualization_Center_of_Madrid` · [[Systems_biology]] · [[Systems_theory]] · [[Systems_thinking]] · `Theoretical_chemistry` · [[Time_series]] · `Transcription_(biology)` · `Translation_(biology)` · `Trophic_level` · `Vaccination` · `Visual_analytics` · [[Wayback_Machine]] · `Wildfire_modeling` > p5.js MicroSim stub · part of Systems Thinking · [Wikipedia source](https://en.wikipedia.org/wiki/Modelling_biological_systems) > Relation: subfield of systems thinking. ## Concept summary Modelling biological systems is a significant task of [[Systems_biology|systems biology]] and mathematical biology.[a] Computational systems biology[b] aims to develop and use efficient algorithms, data structures, visualization and communication tools with the goal of computer modelling of biological systems. It ... ## Build checklist - [ ] Claim it: set `status: in-progress` + `lease` + `leased_at` - [ ] Write the child page explaining the concept (tie it back to systems thinking) - [ ] Finalize parameter ranges and defaults - [ ] Implement the p5.js sketch (drawing + control regions) - [ ] Add caption + the learning objective on the page - [ ] Set `status: done` ## p5.js sketch ```javascript // MicroSim: Modelling biological systems let controls = {}; function setup() { // createCanvas(...); create sliders for the parameters above. } function draw() { // background(...); read controls; render agent-based; respond live. } ``` --- Back to Systems Thinking · Wikipedia: [Modelling biological systems](https://en.wikipedia.org/wiki/Modelling_biological_systems) ---  ## Semiotic profile > *The semiotic universals this article invokes, machine-derived from the crossref — **unverified** (born so). Populated 2026-07-06 for the Systems room.* **Universals (4):** 🟡 system (14) · 🟡 visualization (2) · 🟢 diffusion (1) · 🟡 structure (1) **Enter by sign:** Systems Semiotic Gateway · Alphabetum · Icon Registry · ← Systems Portal  ## Wikipedia : Wikitube **Strict pair:** [Wikipedia](https://en.wikipedia.org/wiki/Modelling_biological_systems) : [Wikitube](https://en.wikitube.io/wiki/Modelling_biological_systems) ## Previous hub tags Tree parents: [[Systems_science]] · [[Systems_theory]]. Legacy hubs: none. --- *Sources: 1 legacy note. Minted wave 1, 2026-07-30 (v1.6 order).*