{ "model": { "rank": 5148, "code": "thing-q912751", "model_id": "vr.tr.cellular-respiration", "name": "cellular respiration", "purpose": "Let an agent explain cellular respiration by stage, location, yield, variants and relevance to health and ecology in general terms.", "family": "Thing Registry", "category": "Activities and processes", "status": "research-draft", "kind": "thing", "plane": "ACT", "domain": "ACT.PRC", "industry": "", "version": "", "url": "/models/thing/q912751/", "tier": 2, "score": 69, "payload": { "layer": "wikidata", "aliases": [ "methanogenesis", "methanogenesis, from methanol", "methane biosynthetic process from methylamine", "methane biosynthetic process from dimethylamine", "methane biosynthetic process from trimethylamine", "methane biosynthetic process from formic acid", "methane biosynthetic process from carbon monoxide", "methane biosynthetic process from dimethyl sulfide", "methane biosynthetic process from 3-(methylthio)propionic acid", "methane biosynthetic process from methanethiol", "methanogenesis, from carbon dioxide", "methanogenesis, from acetate", "aerobic respiration, using nitrite as electron donor", "anaerobic respiration, using ammonium as electron donor", "aerobic respiration, using ammonia as electron donor", "aerobic respiration, using arsenite as electron donor", "aerobic respiration, using sulfur or sulfate as electron donor", "aerobic respiration, using hydrogen as electron donor", "aerobic respiration, using ferrous ions as electron donor", "aerobic respiration, using carbon monoxide as electron donor", "aerobic electron transport chain", "aerobic dissimilation", "anaerobic respiration", "alternative respiration", "sulfur respiration", "fumarate respiration", "dissimilatory sulfate reduction" ], "aliasCount": 27, "merged": 27, "knownIn": 69, "facets": null, "markers": [], "lexicalClass": "", "senseRank": null, "alsoRegisteredAs": null, "source": { "dataset": "wikidata", "item": "Q912751", "url": "https://www.wikidata.org/wiki/Q912751", "license": "CC0 1.0" } }, "research": { "vercy": "1.0-draft", "publication": { "status": "research-draft", "adjudicationStatus": "unreviewed", "publishableCanonical": false, "generatedAt": "2026-09-11T13:03:36Z", "providers": [ "Claude" ], "breadth": "written by Claude from model knowledge without web access - no source was read, every claim is a lead to verify", "pass": 2, "wave": 1, "engine": "claude" }, "metaModel": { "id": "THING-Q912751", "registryId": "vr.tr.cellular-respiration", "name": "cellular respiration", "version": "0.2.0-wave.1", "entryKind": "thing", "family": "Thing Registry", "domain": [ "ACT.PRC" ], "status": "research-draft" }, "canonicalUrl": "https://ver.cy/models/thing/q912751/", "model": { "registry_id": "vr.tr.cellular-respiration", "name": "cellular respiration", "purpose": "Let an agent explain cellular respiration by stage, location, yield, variants and relevance to health and ecology in general terms.", "definition": "The set of metabolic processes by which cells convert nutrients into usable energy, mainly as ATP, including glycolysis, the citric acid cycle and oxidative phosphorylation in aerobic respiration, and anaerobic pathways such as fermentation and forms of energy metabolism in archaea such as methanogenesis.", "what_it_is_for": "Biology education and research.", "affordances": [ "explain the stages of respiration", "compare aerobic and anaerobic pathways", "estimate ATP yield", "relate respiration to exercise, disease and ecosystems in general terms" ], "distinguishing_features": [ "Produces ATP", "Aerobic or anaerobic", "Uses electron transport", "Releases carbon dioxide in aerobic respiration" ], "appearance": "Not visible; shown in pathway diagrams of cells and mitochondria.", "visual_identification": [ "Glycolysis, Krebs cycle and electron transport chain", "Mitochondria in eukaryotes", "Breathing is the separate process of ventilation" ], "physical_properties": [], "families_and_kinds": [ "aerobic respiration", "anaerobic respiration with other acceptors", "fermentation", "methanogenesis in archaea", "photorespiration (related plant process)" ], "related_models": [ { "relation": "is a kind of", "target": "energy metabolism", "why": "category" }, { "relation": "takes place in", "target": "mitochondrion", "why": "organelle" }, { "relation": "produces", "target": "ATP", "why": "product" }, { "relation": "is contrasted with", "target": "photosynthesis", "why": "related process" } ], "identifiers": [], "standards_and_regulation": [ "No specific regulation" ], "failure_modes_and_hazards": [ "Confusing respiration with breathing", "Oversimplified ATP yields" ], "in_scope": [], "out_of_scope": [], "characteristics": [] }, "sources": [], "structure": { "bundles": [ { "id": "stages", "name": "Stages", "description": "Pathway.", "rationale": "Stages build on each other.", "layers": [ { "id": "glycolysis", "name": "Glycolysis", "description": "First stage.", "findings": [ { "id": "glycolysis-finding", "name": "Glycolysis", "description": "Glycolysis.", "questions": [ { "text": "What happens in glycolysis, and where does it occur?", "kind": "definition" }, { "text": "What are its products?", "kind": "definition" } ] } ] }, { "id": "mitochondria", "name": "Mitochondria", "description": "Krebs and ETC.", "findings": [ { "id": "mitochondria-finding", "name": "Mitochondria", "description": "Mitochondrial stages.", "questions": [ { "text": "How do the citric acid cycle and electron transport chain produce ATP?", "kind": "definition" }, { "text": "What role does oxygen play?", "kind": "definition" } ] } ] } ] }, { "id": "variants", "name": "Variants", "description": "Anaerobic pathways.", "rationale": "Organisms differ.", "layers": [ { "id": "anaerobic", "name": "Anaerobic", "description": "Without oxygen.", "findings": [ { "id": "anaerobic-finding", "name": "Anaerobic", "description": "Anaerobic pathways.", "questions": [ { "text": "How do fermentation and anaerobic respiration differ?", "kind": "definition" }, { "text": "Which organisms use them?", "kind": "provenance" } ] } ] }, { "id": "methanogenesis", "name": "Methanogenesis", "description": "Archaea.", "findings": [ { "id": "methanogenesis-finding", "name": "Methanogenesis", "description": "Methanogenesis.", "questions": [ { "text": "How do methanogenic archaea derive energy, according to microbiology sources?", "kind": "provenance" }, { "text": "Why does it matter for methane emissions?", "kind": "definition" } ] } ] } ] }, { "id": "quantity", "name": "Quantity", "description": "Yield.", "rationale": "Yields are estimates.", "layers": [ { "id": "atp", "name": "ATP", "description": "Yield per glucose.", "findings": [ { "id": "atp-finding", "name": "ATP", "description": "ATP yield.", "questions": [ { "text": "How much ATP is produced per glucose, and why do textbooks give different numbers?", "kind": "measurement" }, { "text": "What assumptions are made?", "kind": "boundary" } ] } ] }, { "id": "measure", "name": "Measure", "description": "Respirometry.", "findings": [ { "id": "measure-finding", "name": "Measure", "description": "Measuring respiration.", "questions": [ { "text": "How is respiration rate measured in the lab?", "kind": "definition" }, { "text": "What units are used?", "kind": "measurement" } ] } ] } ] }, { "id": "context", "name": "Context", "description": "Health and ecology.", "rationale": "General information only.", "layers": [ { "id": "exercise", "name": "Exercise", "description": "Muscles.", "findings": [ { "id": "exercise-finding", "name": "Exercise", "description": "Exercise.", "questions": [ { "text": "How does respiration change during intense exercise, in general terms?", "kind": "definition" }, { "text": "Is the user asking about their own health?", "kind": "boundary" } ] } ] }, { "id": "ecology", "name": "Ecology", "description": "Carbon cycle.", "findings": [ { "id": "ecology-finding", "name": "Ecology", "description": "Carbon cycle.", "questions": [ { "text": "How does respiration fit into the global carbon cycle?", "kind": "definition" }, { "text": "Which sources quantify it?", "kind": "provenance" } ] } ] } ] } ] }, "openQuestions": [ "Should stages be separate entries?", "How should pathway databases be linked?", "How should archaeal pathways be linked?" ], "statistics": { "bundles": 4, "layers": 8, "findings": 8, "questions": 16 } }, "draft": { "generator": "vr.draft.v3", "status": "draft-generated", "researched": false, "archetype": "abstract concept", "method": "Written from the archetype playbook - what this kind of thing needs beyond identity and provenance - and from the structure that recurred across 6,333 models already researched by two engines. Applied to this entry by rule. No source was read for this thing and no claim here is researched. This entry carries no facets of its own, so they were inferred from its domain - a guess about a whole domain applied to one thing.", "facetsInferred": true, "nextPass": "A researcher replaces this draft with a sourced specification. Treat every sentence below as a proposal to argue with.", "purpose": "Give an agent a durable, checkable way to recognise a cellular respiration, record what state it is in, and decide what may be done with it.", "whatItIs": "Let an agent explain cellular respiration by stage, location, yield, variants and relevance to health and ecology in general terms.", "characteristics": { "substance": "activity", "origin": "conceptual", "agency": "inert" }, "whatYouCanDoWithIt": [ "observed and measured" ], "distinguishingFeatures": [ "Names folded into this entry, which a task may need to split apart again: methanogenesis, methanogenesis, from methanol, methane biosynthetic process from methylamine, methane biosynthetic process from dimethylamine, methane biosynthetic process from trimethylamine, methane biosynthetic process from formic acid, methane biosynthetic process from carbon monoxide, methane biosynthetic process from dimethyl sulfide, methane biosynthetic process from 3-(methylthio)propionic acid, methane biosynthetic process from methanethiol, methanogenesis, from carbon dioxide, methanogenesis, from acetate.", "27 finer distinctions are held as aliases rather than separate entries, because telling them apart needs a task that asks for it.", "Described in 69 Wikipedia languages, which is a measure of how widely the thing is known, not of how important it is." ], "openQuestionsForResearch": [ "Which of the bundles below does a real task actually need, and which are ceremony?", "What does this thing have that the facets do not capture at all?", "Which neighbouring kind is most often confused with a cellular respiration, and on what evidence are they told apart?" ], "whatItIsMadeOf": "something that happens over time", "physicalCharacter": [ "Does nothing on its own; everything it does, something else did to it.", "These come from the domain this entry sits in rather than from the entry itself, so treat them as a first guess about the whole domain applied to one thing." ], "whatCanBeDoneWithIt": [ "observe it, measure it, record its state" ], "howItIsRecognised": [ "Nothing to see. What is recognised is an instance of it, and which instances count is exactly what is argued about." ], "relatedModels": [ { "relation": "covers", "note": "Finer kinds folded into this entry because telling them apart needs a task that asks for it. Each is a model waiting to be split out when one does.", "targets": [ "methanogenesis", "methanogenesis, from methanol", "methane biosynthetic process from methylamine", "methane biosynthetic process from dimethylamine", "methane biosynthetic process from trimethylamine", "methane biosynthetic process from formic acid", "methane biosynthetic process from carbon monoxide", "methane biosynthetic process from dimethyl sulfide", "methane biosynthetic process from 3-(methylthio)propionic acid", "methane biosynthetic process from methanethiol", "methanogenesis, from carbon dioxide", "methanogenesis, from acetate" ] } ], "standing": "Described in 69 Wikipedia languages, which measures how widely it is written about rather than how important or how common it is. 27 finer distinctions are held inside this entry as names rather than as separate models.", "structure": { "bundles": [ { "id": "identity-and-classification", "name": "Identity, naming and classification", "description": "How an agent tells one cellular respiration from another, and a cellular respiration from things that resemble it.", "rationale": "Recognition comes before every other claim. Without stable identity nothing else in the model can be trusted to be about the same thing twice.", "layers": [ { "id": "naming-and-identifiers", "name": "Names and identifiers", "description": "The names this thing goes by and the identifiers that survive translation and time.", "findings": [ { "id": "preferred-name-and-aliases", "name": "Preferred name, aliases and local names", "description": "Which name to use, which names mean the same thing, and which merely sound similar.", "questions": [ { "id": "preferred-name-and-aliases-q01", "text": "What identifies and describes the name of a cellular respiration, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "preferred-name-and-aliases-q02", "text": "Who or what asserted this about the name of a cellular respiration, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "preferred-name-and-aliases-q03", "text": "What may an agent decide or do once the name of a cellular respiration is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] }, { "id": "stable-identifiers", "name": "Stable identifiers and external keys", "description": "Identifiers that keep pointing at this kind of thing across systems and languages.", "questions": [ { "id": "stable-identifiers-q01", "text": "What identifies and describes an identifier for a cellular respiration, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "stable-identifiers-q02", "text": "Who or what asserted this about an identifier for a cellular respiration, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "stable-identifiers-q03", "text": "What may an agent decide or do once an identifier for a cellular respiration is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "classification-and-granularity", "name": "Classification and granularity", "description": "Where a cellular respiration sits among kinds, and how finely a task needs to cut it.", "findings": [ { "id": "kind-and-parents", "name": "Kind, parents and neighbouring kinds", "description": "The classes this thing belongs to and the ones it is next to.", "questions": [ { "id": "kind-and-parents-q01", "text": "What identifies and describes the kind of a cellular respiration, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "kind-and-parents-q02", "text": "Who or what asserted this about the kind of a cellular respiration, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "kind-and-parents-q03", "text": "What may an agent decide or do once the kind of a cellular respiration is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] }, { "id": "distinguishing-features", "name": "Distinguishing features", "description": "What separates a cellular respiration from the things most often confused with it.", "questions": [ { "id": "distinguishing-features-q01", "text": "What identifies and describes what distinguishes a cellular respiration, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "distinguishing-features-q02", "text": "Who or what asserted this about what distinguishes a cellular respiration, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "distinguishing-features-q03", "text": "What may an agent decide or do once what distinguishes a cellular respiration is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] }, { "id": "state-and-lifecycle", "name": "State and lifecycle", "description": "The states a cellular respiration passes through and the events that move it between them.", "rationale": "Most decisions about a thing depend on what state it is in now, which is a claim with a time on it, not a property.", "layers": [ { "id": "lifecycle-stages", "name": "Lifecycle stages", "description": "From coming into existence to ceasing to be one of these.", "findings": [ { "id": "stages-and-transitions", "name": "Stages and transitions", "description": "The stages worth naming and what moves a cellular respiration between them.", "questions": [ { "id": "stages-and-transitions-q01", "text": "What identifies and describes the lifecycle of a cellular respiration, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "stages-and-transitions-q02", "text": "Who or what asserted this about the lifecycle of a cellular respiration, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "stages-and-transitions-q03", "text": "What may an agent decide or do once the lifecycle of a cellular respiration is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "observations-and-status", "name": "Observations and current status", "description": "What is observed about a cellular respiration, how often and by whom.", "findings": [ { "id": "observation-record", "name": "Observation record", "description": "How an observation of a cellular respiration is recorded so that it can be superseded rather than overwritten.", "questions": [ { "id": "observation-record-q01", "text": "What identifies and describes an observation of a cellular respiration, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "observation-record-q02", "text": "Who or what asserted this about an observation of a cellular respiration, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "observation-record-q03", "text": "What may an agent decide or do once an observation of a cellular respiration is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] }, { "id": "process-and-outcome", "name": "Process, inputs and outcome", "description": "How a cellular respiration proceeds, what it needs and what it leaves behind.", "rationale": "An activity is known by its steps and its results, and both have to be recordable while it is still running.", "layers": [ { "id": "steps-and-sequence", "name": "Steps and sequence", "description": "The steps of a cellular respiration, their order and what may run in parallel.", "findings": [ { "id": "steps-and-preconditions", "name": "Steps, preconditions and completion", "description": "What has to be true before each step of a cellular respiration and what marks it done.", "questions": [ { "id": "steps-and-preconditions-q01", "text": "What identifies and describes a step of a cellular respiration, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "steps-and-preconditions-q02", "text": "Who or what asserted this about a step of a cellular respiration, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "steps-and-preconditions-q03", "text": "What may an agent decide or do once a step of a cellular respiration is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "inputs-and-results", "name": "Inputs, resources and results", "description": "What a cellular respiration consumes and what it produces.", "findings": [ { "id": "inputs-and-outputs", "name": "Inputs, outputs and side effects", "description": "The resources a cellular respiration takes and the results it leaves, wanted or not.", "questions": [ { "id": "inputs-and-outputs-q01", "text": "What identifies and describes the inputs and results of a cellular respiration, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "inputs-and-outputs-q02", "text": "Who or what asserted this about the inputs and results of a cellular respiration, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "inputs-and-outputs-q03", "text": "What may an agent decide or do once the inputs and results of a cellular respiration is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] }, { "id": "definitions-in-contest", "name": "Definitions and who holds them", "description": "What cellular respiration is taken to mean, and by whom.", "rationale": "When a field disagrees about a concept, the disagreement is the content. A model that picks one definition silently destroys the information.", "layers": [ { "id": "competing-definitions", "name": "Competing definitions", "description": "The main readings and the traditions behind them.", "findings": [ { "id": "definition-map", "name": "Definitions and their holders", "description": "Each definition with the school or body that holds it.", "questions": [ { "id": "definition-map-q01", "text": "Which definitions of cellular respiration are in use, and which tradition or body holds each?", "kind": "definition" }, { "id": "definition-map-q02", "text": "What turns on the difference between them in practice?", "kind": "boundary" } ] } ] }, { "id": "operationalisation", "name": "Operationalisation", "description": "How it is measured or applied when it has to be.", "findings": [ { "id": "operational-record", "name": "Measures and proxies", "description": "Instruments and indicators used to stand in for it.", "questions": [ { "id": "operational-record-q01", "text": "How is cellular respiration operationalised or measured in practice, and by what instrument?", "kind": "measurement" }, { "id": "operational-record-q02", "text": "What does that operationalisation leave out, and when does that matter?", "kind": "boundary" } ] } ] } ] }, { "id": "instances-and-use", "name": "Instances, use and consequence", "description": "What counts as an instance of cellular respiration and what follows from calling something that.", "rationale": "Applying a concept is an act with consequences, so a model must say what the label licenses and what it does not.", "layers": [ { "id": "instances", "name": "What counts as an instance", "description": "Clear cases, borderline cases and non-cases.", "findings": [ { "id": "instance-tests", "name": "Tests for an instance", "description": "What would settle whether something falls under it.", "questions": [ { "id": "instance-tests-q01", "text": "What would settle whether something is an instance of cellular respiration?", "kind": "boundary" }, { "id": "instance-tests-q02", "text": "Which borderline cases are argued about, and on what grounds?", "kind": "definition" } ] } ] }, { "id": "consequence", "name": "Consequence of application", "description": "Rights, duties or decisions that follow from the label.", "findings": [ { "id": "consequence-record", "name": "What the label licenses", "description": "What an agent may do once something is classified this way.", "questions": [ { "id": "consequence-record-q01", "text": "What follows practically once something is treated as cellular respiration?", "kind": "action" }, { "id": "consequence-record-q02", "text": "What must an agent not infer from the label alone?", "kind": "action" } ] } ] } ] }, { "id": "provenance-and-evidence", "name": "Provenance, evidence and time", "description": "Where every claim about a cellular respiration came from and when it held.", "rationale": "A claim without a source and a time cannot be superseded, only overwritten, and an agent that overwrites loses the ability to explain itself.", "layers": [ { "id": "source-and-authority", "name": "Source and authority", "description": "Who said it, on what evidence, and how strongly.", "findings": [ { "id": "claim-provenance", "name": "Claim provenance and confidence", "description": "The authority behind each claim about a cellular respiration and how confident it is.", "questions": [ { "id": "claim-provenance-q01", "text": "What identifies and describes a claim about a cellular respiration, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "claim-provenance-q02", "text": "Who or what asserted this about a claim about a cellular respiration, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "claim-provenance-q03", "text": "What may an agent decide or do once a claim about a cellular respiration is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "time-and-versions", "name": "Time, versions and supersession", "description": "When a claim was true, when it was learnt, and what replaced it.", "findings": [ { "id": "validity-and-supersession", "name": "Validity period and supersession", "description": "How an old claim about a cellular respiration is retired without being erased.", "questions": [ { "id": "validity-and-supersession-q01", "text": "What identifies and describes the validity of a claim about a cellular respiration, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "validity-and-supersession-q02", "text": "Who or what asserted this about the validity of a claim about a cellular respiration, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "validity-and-supersession-q03", "text": "What may an agent decide or do once the validity of a claim about a cellular respiration is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] } ] }, "statistics": { "bundles": 6, "layers": 12, "findings": 14, "questions": 38 } } } }