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Cytoscape (Network) templates
Biological / knowledge networks with force-directed, circular, breadth-first layouts. Edge styling, node colouring, large-graph rendering.
Gene Interaction Network
Interactive force-directed gene/protein interaction network.
Life SciencesCitation Network
Paper-to-paper citation graph.
Research & AcademicSocial Network
Concentric layout social/collaboration graph.
Data & SchemaEcological Food Web
Trophic network with producers, herbivores, and predators.
Life SciencesOntology Hierarchy
Concept hierarchy / ontology with concentric layout.
Data & SchemaSocial Network — Friendship Graph
Force-directed social network with degree-coloured nodes.
Research & AcademicFood Web — Temperate Forest
Producers, herbivores, omnivores, carnivores connected as a network.
Life SciencesSmall-World Network (Watts-Strogatz)
Ring lattice with a few rewired long-range edges — short paths, high clustering.
MathematicsScale-Free Network (Barabási-Albert)
Power-law-like graph with a few high-degree hubs and many low-degree nodes.
MathematicsTeam Collaboration Network
Internal team graph weighted by collaboration frequency.
Research & AcademicProtein-Protein Interactome (toy)
Small PPI subnetwork around a hub protein (TP53-like).
Life SciencesBiology — Gene Regulatory Network
Activators and repressors controlling gene expression.
Life SciencesBiology — Metabolic Network (Glycolysis)
Glycolytic intermediates linked by their enzymes.
Life SciencesBiology — Protein Interaction Network
DNA-damage response protein–protein interactions.
Life SciencesBiology — MAPK Signalling Cascade
Growth-factor signal relayed to the nucleus.
Life SciencesBiology — Food Web Network
An interactive predator–prey food web.
Life SciencesBiology — Neural Circuit Network
A simple sensory-to-motor neural circuit.
Life SciencesBiology — Ecosystem Nutrient Cycling
Carbon/nutrient flow among trophic compartments.
Life SciencesChemistry — Reaction Network
Reactants and products linked through a reaction node.
Chemistry & PhysicsBiology — Plant–Pollinator Network
A bipartite mutualistic network of plants and pollinators.
Life SciencesBiology — Disease Contact Network
A contact graph showing how an infection can spread.
Life SciencesBiology — Electron Transport Chain
Electron flow through the respiratory complexes to oxygen.
Life SciencesBiology — Endocrine Axes
Hypothalamic–pituitary control of peripheral glands.
Life SciencesChemistry — Multi-step Reaction Mechanism
Reactants through intermediates to products.
Chemistry & PhysicsBiology — Marine Food Web
An ocean food web from phytoplankton to apex predators.
Life SciencesBiology — Immune Cell Network
Interactions between innate and adaptive immune cells.
Life SciencesBiology — Nitrogen Cycle Network
Nitrogen transformations as an interactive network.
Life SciencesChemistry — Conjugate Acid–Base Network
Conjugate acid–base pairs linked by proton transfer.
Chemistry & PhysicsBiology — TCA (Krebs) Cycle Network
The citric-acid cycle drawn as a closed network.
Life SciencesBiology — Coagulation Cascade Network
Clotting factors converging on fibrin formation.
Life SciencesBiology — Blood Glucose Control Network
Insulin and glucagon antagonism around blood glucose.
Life SciencesBiology — Photosynthesis Pathway Network
Light reactions feeding the Calvin cycle.
Life SciencesBiology — lac Operon Regulation
Repressor and inducer control of the lac operon.
Life SciencesBiology — Trophic Cascade
How a top predator indirectly shapes vegetation.
Life SciencesBiology — Complement Activation
Pathways converging on the membrane attack complex.
Life SciencesChemistry — Drug–Target Network
Drugs linked to the protein targets they act on.
Chemistry & PhysicsBiology — Insulin Signalling
Insulin receptor cascade to glucose uptake.
Life SciencesBiology — Urea Cycle
The ornithine cycle that disposes of ammonia.
Life SciencesBiology — Competition Network
Resource competition among species.
Life SciencesBiology — Viral Replication Cycle
Stages of the lytic viral replication cycle.
Life SciencesBiology — Pentose Phosphate Pathway
The oxidative branch producing NADPH and ribose-5-P.
Life SciencesBiology — Blood Pressure Control (RAAS)
The renin–angiotensin–aldosterone system.
Life SciencesBiology — Carbon Cycle Network
Carbon reservoirs and the fluxes between them.
Life SciencesBiology — Cell Cycle Checkpoints
The phases of the cell cycle and their control checkpoints.
Life SciencesBiology — Apoptosis Pathways
Intrinsic and extrinsic routes to programmed cell death.
Life SciencesBiology — Respiration Overview Network
Glucose through the stages of aerobic respiration.
Life SciencesBiology — Synaptic Transmission
Events at a chemical synapse.
Life SciencesBiology — HIV Replication Cycle
Stages of the HIV life cycle and drug-target points.
Life SciencesBiology — Fatty Acid Synthesis
Building a fatty acid two carbons at a time.
Life SciencesBiology — Purine Biosynthesis (overview)
Building the purine ring on ribose-5-phosphate.
Life SciencesBiology — Catecholamine Synthesis
From tyrosine to adrenaline.
Life SciencesBiology — Cancer Signalling
Oncogenes and tumour suppressors around the cell cycle.
Life SciencesBiology — Phosphorus Cycle Network
Phosphorus movement through rocks, soil and organisms.
Life SciencesBiology — Water Cycle Network
The hydrological cycle as an interactive network.
Life SciencesBiology — Nephron Network
Flow of filtrate through the nephron.
Life SciencesBiology — Double Circulation Network
Pulmonary and systemic circuits through the heart.
Life SciencesBiology — Blood Cell Lineage
Differentiation from the haematopoietic stem cell.
Life SciencesBiology — Menstrual Cycle Hormones
Hormonal control across the menstrual cycle.
Life SciencesBiology — Circadian Clock
A transcription–translation feedback loop.
Life SciencesBiology — Ecosystem Energy Flow
Energy and matter through an ecosystem.
Life SciencesBiology — Species Interaction Network
Mutualism, predation and competition among species.
Life SciencesBiology — Photosynthetic Z-Scheme
Electron flow through the light reactions.
Life SciencesBiology — Cori Cycle
Lactate shuttling between muscle and liver.
Life SciencesBiology — Calvin Cycle Network
Carbon fixation, reduction and regeneration.
Life SciencesBiology — Thyroid Axis
Hypothalamic–pituitary–thyroid feedback.
Life SciencesBiology — Inflammation Network
Cellular cascade of acute inflammation.
Life SciencesBiology — Glutamate–Glutamine Cycle
Neurotransmitter recycling between neuron and astrocyte.
Life SciencesBiology — Ubiquitin–Proteasome System
Tagging and degrading proteins.
Life SciencesBiology — Pond Ecosystem Web
A freshwater pond food web.
Life SciencesBiology — Mycorrhizal Network
Nutrient exchange between plants and fungi.
Life SciencesBiology — Coral & Zooxanthellae
The mutualism that builds coral reefs.
Life SciencesBiology — Soil Food Web
Decomposers and detritivores in soil.
Life SciencesBiology — Gut Microbiome Interactions
Host–microbe and microbe–microbe interactions.
Life SciencesBiology — Ribosome & Translation
Components assembling at the ribosome.
Life SciencesBiology — Central Metabolism Map
How major pathways connect at acetyl-CoA.
Life SciencesChemistry — Synthesis Route Network
Functional-group interconversions in synthesis.
Chemistry & PhysicsMedicine — Stress Response (HPA Axis)
The hypothalamic–pituitary–adrenal stress axis.
Life SciencesMedicine — Baroreceptor Reflex
Short-term control of blood pressure.
Life SciencesMedicine — Drug Metabolism
Phase I and II hepatic drug processing.
Life SciencesMedicine — Pain Pathway
From nociceptor to perception.
Life SciencesBiology — Cholesterol Synthesis
The mevalonate pathway to cholesterol.
Life SciencesBiology — Heme Synthesis
Building the heme group of haemoglobin.
Life SciencesBiology — Amino Acid Metabolism
Fate of amino acids after a meal.
Life SciencesBiology — Vitamin D Activation
Sunlight to the active hormone.
Life SciencesBiology — MAPK / ERK Cascade
Growth-factor signalling from receptor to gene expression.
Life SciencesBiology — JAK-STAT Pathway
Cytokine signalling straight to the nucleus.
Life SciencesBiology — Wnt / β-catenin Pathway
Canonical Wnt signalling stabilising β-catenin.
Life SciencesBiology — Notch Signalling
Contact-dependent signalling between adjacent cells.
Life SciencesBiology — Hedgehog Pathway
Sonic hedgehog signalling through Smoothened to GLI.
Life SciencesBiology — PI3K-Akt-mTOR Pathway
Growth and nutrient signalling controlling cell growth.
Life SciencesBiology — NF-κB Pathway
Inflammatory signalling releasing NF-κB to the nucleus.
Life SciencesBiology — TGF-β / SMAD Pathway
TGF-β signalling through receptor SMADs to the nucleus.
Life SciencesBiology — Gluconeogenesis
Synthesis of glucose from pyruvate and precursors.
Life SciencesBiology — Fatty Acid β-Oxidation
Breaking fatty acids down to acetyl-CoA for energy.
Life SciencesBiology — Ketogenesis
Production of ketone bodies during fasting.
Life SciencesBiology — Bile Acid Synthesis
Conversion of cholesterol to bile acids in the liver.
Life SciencesBiology — Photorespiration
The C2 salvage pathway across chloroplast, peroxisome and mitochondrion.
Life SciencesBiology — Biological Nitrogen Fixation
Rhizobium–legume symbiosis converting N2 to ammonia.
Life SciencesBiology — C4 Photosynthesis
Spatial CO2 concentration between mesophyll and bundle-sheath cells.
Life SciencesBiology — CAM Photosynthesis
Temporal CO2 storage separating night uptake from day fixation.
Life Sciences