{ "model": { "rank": 4561, "code": "thing-q174936", "model_id": "vr.tr.glycogen", "name": "glycogen", "purpose": "Enable an agent to recognise glycogen, assess its structural and material state, and determine suitable measurement, storage and experimental actions.", "family": "Thing Registry", "category": "Physical world and living systems", "status": "research-draft", "kind": "thing", "plane": "PHY", "domain": "PHY.MAT", "industry": "", "version": "", "url": "/models/thing/q174936/", "tier": 2, "score": 74, "payload": { "layer": "wikidata", "aliases": [ "liver glycogen" ], "aliasCount": 1, "merged": 1, "knownIn": 74, "facets": null, "markers": [], "lexicalClass": "", "senseRank": null, "alsoRegisteredAs": null, "source": { "dataset": "wikidata", "item": "Q174936", "url": "https://www.wikidata.org/wiki/Q174936", "license": "CC0 1.0" } }, "research": { "vercy": "1.0-draft", "publication": { "status": "research-draft", "adjudicationStatus": "unreviewed", "publishableCanonical": false, "generatedAt": "2026-09-09T20:30:37Z", "providers": [ "Codex" ], "breadth": "recalled by Codex without web access - no source was read", "missingProviders": [], "pass": 2, "cost": { "grok": { "seconds": 18.6, "error": "Reading additional input from stdin...\nOpenAI Codex v0.153.4\n--------\nworkdir: R:\\02_PROJECTS\\02_Meta_Models_Platforms\\Ver.cy\\current\\thing-registry-backlog\nmodel: gpt-6-astra\nprovider: openai\napproval: never\nsandbox: read-only\nreasoning effort: none\nreasoning summaries: none\nsession id: 01a087dc-95a9-7811-97e6-d2ba510988ae\n--------\nuser\nDescribe what is already known about one registered thing. Answer as JSON only, no prose around it.\n\nThing: glycogen\nSense to describe: (none recorded)\nDomain code: PHY.MAT\nAlso known as: (none)\n\n\nContext for this batch of 1001 things:\n# Batch 005: 1001 regist", "usd": 0, "recall": true }, "codex": { "seconds": 62.8, "error": "Reading additional input from stdin...\nOpenAI Codex v0.153.4\n--------\nworkdir: R:\\02_PROJECTS\\02_Meta_Models_Platforms\\Ver.cy\\current\\thing-registry-backlog\nmodel: gpt-6-astra\nprovider: openai\napproval: never\nsandbox: read-only\nreasoning effort: none\nreasoning summaries: none\nsession id: 01a087dc-95a7-72e2-bd20-18d265c8b02b\n--------\nuser\nYou are drafting a Vercy meta-model for one registered thing. Answer as JSON only, no prose around it.\n\nThing: glycogen\nRegistry id: vr.tr.glycogen\nPlane / domain: PHY / PHY.MAT\nRegistry definition: (none recorded)\nNames folded into this entry: (none)\n\n\nContex" } } }, "metaModel": { "id": "THING-Q174936", "registryId": "vr.tr.glycogen", "name": "glycogen", "version": "0.1.0-research.1", "entryKind": "thing", "family": "Thing Registry", "domain": [ "PHY.MAT" ], "status": "research-draft" }, "canonicalUrl": "https://ver.cy/models/thing/q174936/", "model": { "registry_id": "vr.tr.glycogen", "name": "glycogen", "purpose": "Enable an agent to recognise glycogen, assess its structural and material state, and determine suitable measurement, storage and experimental actions.", "definition": "Glycogen is a highly branched polysaccharide of α-D-glucose residues joined mainly by α(1→4) glycosidic bonds with α(1→6) branch points, serving as an intracellular carbohydrate reserve in animals, fungi and many bacteria.", "scope_statement": "This model owns glycogen as a branched glucose storage polysaccharide, including its molecular architecture, biological provenance, native or isolated state, sample quality and accessibility to enzymatic mobilisation; it distinguishes the polymer from the organism, metabolic pathway or product containing it.", "in_scope": [ "Glucose composition, glycosidic linkages, branching and chain-length distributions", "Glycogen particle organisation and associated material", "Organism, tissue or cellular provenance and isolation history", "Native, extracted, dissolved or dried material state and stability", "Glycogen quantity, analytical specificity, purity and fitness for an intended use", "Susceptibility to synthesis, mobilisation and experimental enzymatic digestion" ], "out_of_scope": [ "Whole-organism energy balance, nutrition and exercise prescriptions", "Complete glycogenesis and glycogenolysis pathway models", "Glycogen storage diseases, diagnosis and treatment", "Independent models of glucose, starch, cellulose and metabolic enzymes", "Finished reagents, foods or pharmaceutical formulations containing glycogen" ], "distinguishing_features": [ "Establish a glucose polymer with predominantly alpha-1,4-linked chains and alpha-1,6 branch points; glucose content alone does not establish glycogen identity.", "Distinguish glycogen from amylopectin using branching and chain-length distributions together with provenance; their shared linkage types make a single linkage test insufficient.", "Distinguish it from cellulose through glycosidic linkage configuration and architecture rather than elemental composition.", "Distinguish polymeric glycogen from free glucose and short breakdown products by molecular-size separation and appropriately controlled digestion measurements.", "Distinguish glycogen itself from a cellular granule or commercial preparation by recording associated proteins, water, salts and other constituents separately." ], "characteristics": [ { "name": "Biological and preparation provenance", "kind": "relation", "unit_or_values": "Source organism, tissue or cell type; specimen or supplier lot; extraction method", "why_it_matters": "Provenance and preparation can affect architecture, associated material and interpretation of measurements." }, { "name": "Linkage composition and branch frequency", "kind": "measurement", "unit_or_values": "Mole fractions of linkage types or branch points per 100 glucosyl residues; method specified", "why_it_matters": "Supports glycogen identification and comparison with related glucans." }, { "name": "Chain-length distribution", "kind": "measurement", "unit_or_values": "Distribution of degree of polymerisation after a specified debranching procedure", "why_it_matters": "Describes architecture more meaningfully than a single nominal chain length." }, { "name": "Molar-mass distribution", "kind": "measurement", "unit_or_values": "g/mol; distribution, averaging convention and analytical method", "why_it_matters": "Glycogen is heterogeneous, so one molecular formula or fixed molecular mass cannot adequately describe a preparation." }, { "name": "Particle size and organisation", "kind": "measurement", "unit_or_values": "Size distribution in nm; particle or aggregate classification; observation conditions", "why_it_matters": "Helps distinguish native organisation, extraction effects and aggregation." }, { "name": "Amount and reporting basis", "kind": "measurement", "unit_or_values": "mg glycogen, mg/mL, mg/g tissue, or micromol glucosyl equivalents/g; wet or dry basis and conversion stated", "why_it_matters": "Prevents confusion between polymer mass, released glucose and tissue-normalised content." }, { "name": "Material presentation", "kind": "state", "unit_or_values": "Intracellular, isolated hydrated particles, aqueous preparation or dried preparation; temperature and medium recorded", "why_it_matters": "Determines which measurements and handling actions are meaningful." }, { "name": "Purity and associated constituents", "kind": "measurement", "unit_or_values": "Mass fractions or assay-specific concentrations of glycogen, water, protein, free sugars, salts and other relevant constituents", "why_it_matters": "Separates polymer properties from contamination and intentional formulation components." }, { "name": "Enzymatic accessibility", "kind": "measurement", "unit_or_values": "Fraction converted or glucosyl equivalents released per unit time under specified enzyme and assay conditions", "why_it_matters": "Indicates how the observed material responds to a particular mobilisation or analytical procedure." } ], "affordances": [ "Assess glycogen identity using complementary composition, linkage, architecture and provenance evidence.", "Quantify glycogen while separating free-glucose background and documenting the reporting basis.", "Compare preparations for structural integrity, associated constituents and suitability for a specified assay.", "Select and interpret enzymatic digestion or debranching experiments under recorded conditions.", "Track changes in particle organisation, polymer size and recoverable glycogen during extraction or storage.", "Choose handling and storage actions using preparation-specific stability evidence and supplier documentation." ] }, "sources": [], "structure": { "bundles": [ { "id": "glucan-identity", "name": "Glucan identity", "description": "Establish whether the material is glycogen and resolve boundaries with related carbohydrates.", "rationale": "Glucose composition and shared alpha-glucan linkages do not independently distinguish glycogen from every neighbouring substance.", "layers": [ { "id": "composition-and-linkages", "name": "Composition and linkages", "description": "Examine the carbohydrate building units and their connections.", "findings": [ { "id": "glycogen-identity-evidence", "name": "Glycogen identity evidence", "description": "Record evidence for a branched glucose polymer with the linkage configuration expected of glycogen.", "questions": [ { "text": "Which measurements establish glucose composition and alpha-1,4 and alpha-1,6 linkages in this material?", "kind": "measurement", "id": "glycogen-identity-evidence-q01" }, { "text": "What combination of evidence is sufficient to identify this preparation as glycogen?", "kind": "definition", "id": "glycogen-identity-evidence-q02" } ] } ] }, { "id": "related-glucan-boundaries", "name": "Related glucan boundaries", "description": "Resolve confusion with amylopectin, other glucans and breakdown products.", "findings": [ { "id": "differential-identification", "name": "Differential identification", "description": "Make explicit which competing identities the available evidence excludes.", "questions": [ { "text": "How do branching, chain-length distribution and provenance distinguish this sample from amylopectin or another alpha-glucan?", "kind": "boundary", "id": "differential-identification-q01" }, { "text": "Which controls distinguish polymeric glycogen from free glucose and partially degraded carbohydrate?", "kind": "measurement", "id": "differential-identification-q02" } ] } ] } ] }, { "id": "branching-and-particles", "name": "Branching and particles", "description": "Describe glycogen architecture across chains, macromolecules and observed particles.", "rationale": "Glycogen behaviour depends on distributed structural properties that a nominal molecular mass cannot capture.", "layers": [ { "id": "chain-architecture", "name": "Chain architecture", "description": "Characterise branch frequency and chain-length heterogeneity.", "findings": [ { "id": "branch-and-chain-profile", "name": "Branch and chain profile", "description": "Record measured architectural distributions and how sample preparation affects them.", "questions": [ { "text": "What branch frequency and debranched chain-length distribution were measured, using which methods?", "kind": "measurement", "id": "branch-and-chain-profile-q01" }, { "text": "Could extraction, debranching or prior degradation have altered the architecture being reported?", "kind": "provenance", "id": "branch-and-chain-profile-q02" } ] } ] }, { "id": "particle-organisation", "name": "Particle organisation", "description": "Describe particle populations and distinguish intrinsic structure from aggregation.", "findings": [ { "id": "particle-population", "name": "Particle population", "description": "Connect observed sizes and assemblies to the conditions under which they were measured.", "questions": [ { "text": "What particle-size and molar-mass distributions are observed under the stated medium and measurement conditions?", "kind": "measurement", "id": "particle-population-q01" }, { "text": "Which evidence distinguishes native particle organisation from aggregates or fragments produced during preparation?", "kind": "boundary", "id": "particle-population-q02" } ] } ] } ] }, { "id": "origin-and-associations", "name": "Origin and associations", "description": "Connect glycogen to its biological source and distinguish the polymer from accompanying material.", "rationale": "Native glycogen and isolated commercial material cannot be interpreted without their biological and processing histories.", "layers": [ { "id": "biological-context", "name": "Biological context", "description": "Record the source and sampling context relevant to the glycogen specimen.", "findings": [ { "id": "source-and-sampling", "name": "Source and sampling", "description": "Establish where the glycogen came from and how its sampled state was preserved.", "questions": [ { "text": "Which organism, tissue, cell type and cellular location supplied this glycogen?", "kind": "provenance", "id": "source-and-sampling-q01" }, { "text": "How were collection and stabilisation timed to limit changes in glycogen after sampling?", "kind": "provenance", "id": "source-and-sampling-q02" } ] } ] }, { "id": "associated-constituents", "name": "Associated constituents", "description": "Separate glycogen from proteins and other substances accompanying it.", "findings": [ { "id": "polymer-versus-preparation", "name": "Polymer versus preparation", "description": "Identify native associations, processing residues and intentional additives without treating them all as part of the polymer.", "questions": [ { "text": "Which associated proteins, including glycogenin where applicable, are demonstrated in this preparation?", "kind": "measurement", "id": "polymer-versus-preparation-q01" }, { "text": "Which measured constituents belong to glycogen-associated material, contaminants or formulation ingredients?", "kind": "boundary", "id": "polymer-versus-preparation-q02" } ] } ] } ] }, { "id": "quantity-and-mobilisation", "name": "Quantity and mobilisation", "description": "Measure glycogen abundance and its conversion under specified biological or experimental conditions.", "rationale": "An assay signal can reflect free sugars, incomplete digestion or changing accessibility as well as glycogen amount.", "layers": [ { "id": "quantification", "name": "Quantification", "description": "Make abundance measurements comparable and traceable.", "findings": [ { "id": "specific-glycogen-amount", "name": "Specific glycogen amount", "description": "Record assay specificity, recovery and conversion between reported quantities.", "questions": [ { "text": "How does the assay correct for free glucose, interfering carbohydrates and incomplete glycogen recovery?", "kind": "measurement", "id": "specific-glycogen-amount-q01" }, { "text": "Is the result polymer mass or glucosyl equivalents, and what calibration, conversion and normalisation were used?", "kind": "measurement", "id": "specific-glycogen-amount-q02" } ] } ] }, { "id": "enzymatic-conversion", "name": "Enzymatic conversion", "description": "Assess glycogen breakdown or modification without expanding into a complete metabolic pathway model.", "findings": [ { "id": "conversion-and-accessibility", "name": "Conversion and accessibility", "description": "Relate an observed conversion to enzyme specificity, branching and experimental conditions.", "questions": [ { "text": "Which enzymes, products, reaction conditions and endpoint establish the extent of glycogen conversion?", "kind": "measurement", "id": "conversion-and-accessibility-q01" }, { "text": "What digestion or debranching step is appropriate for the intended measurement, and how will completeness be checked?", "kind": "action", "id": "conversion-and-accessibility-q02" } ] } ] } ] }, { "id": "preparation-and-use", "name": "Preparation and use", "description": "Assess the physical state, stability and suitability of a glycogen preparation.", "rationale": "Extraction, hydration, storage and grade can change the material or invalidate an intended use.", "layers": [ { "id": "state-and-stability", "name": "State and stability", "description": "Track handling conditions and evidence of structural or compositional change.", "findings": [ { "id": "preserved-material-state", "name": "Preserved material state", "description": "Connect storage and preparation history to recoverable amount and structural integrity.", "questions": [ { "text": "What temperature, pH, medium, hydration state and freeze-thaw history describe this preparation?", "kind": "provenance", "id": "preserved-material-state-q01" }, { "text": "Which storage and reconstitution conditions preserve the glycogen properties required for the intended use?", "kind": "action", "id": "preserved-material-state-q02" } ] } ] }, { "id": "grade-and-documentation", "name": "Grade and documentation", "description": "Determine whether a particular preparation meets its proposed use requirements.", "findings": [ { "id": "use-specific-acceptance", "name": "Use-specific acceptance", "description": "Tie identity documentation, impurities and handling requirements to the actual material and application.", "questions": [ { "text": "Which substance identifiers, lot certificate and safety documentation apply to this glycogen preparation and its additives?", "kind": "provenance", "id": "use-specific-acceptance-q01" }, { "text": "Which acceptance limits for free sugars, proteins, salts or other relevant contaminants must be met before this use?", "kind": "action", "id": "use-specific-acceptance-q02" } ] } ] } ] }, { "id": "evidence-and-external-alignment", "name": "Evidence and external alignment", "description": "What the world already says about this thing, gathered so the model can be checked against it.", "rationale": "A model that cannot be lined up against existing standards, identifiers and practice cannot be adopted by anyone who already uses them.", "layers": [ { "id": "reported-evidence", "name": "Reported evidence", "description": "Findings from the breadth pass, kept separate from the structural claims.", "findings": [ { "id": "evidence-confidence-notes", "name": "Check these first", "description": "Recalled without web access and unsourced; every item is a lead to verify.", "evidence": [ "This account is based on recall, without source verification.", "Glycogen is heterogeneous: molecular mass, particle size and branching depend on biological source and extraction, so a single molecular formula or fixed physical constant can mislead.", "Verify preparation-specific purity, safety classification and any applicable product standards; physiological storage disorders are not evidence that purified glycogen is intrinsically hazardous." ], "questions": [ { "id": "evidence-confidence-notes-q01", "text": "Which of these check these first hold for the sense of glycogen this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-kinds", "name": "Kinds and varieties", "description": "Recalled without web access and unsourced; every item is a lead to verify.", "evidence": [ "β-particles: individual branched glycogen particles", "α-particles: larger assemblies of glycogen β-particles, particularly associated with liver" ], "questions": [ { "id": "evidence-kinds-q01", "text": "Which of these kinds and varieties hold for the sense of glycogen this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-identifiers", "name": "Identifiers and schemes", "description": "Recalled without web access and unsourced; every item is a lead to verify.", "evidence": [ { "scheme": "CAS Registry Number", "value_or_pattern": "9005-79-2", "note": "Identifies glycogen generally; it does not specify biological origin, molecular size, branching, purity or preparation grade." } ], "questions": [ { "id": "evidence-identifiers-q01", "text": "Which of these identifiers and schemes hold for the sense of glycogen this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-real-world-use", "name": "Real-world use", "description": "Recalled without web access and unsourced; every item is a lead to verify.", "evidence": [ "Stores glucose in the liver for supporting blood glucose between meals.", "Provides a local carbohydrate reserve in skeletal muscle for energy production.", "Serves as a substrate in biochemical studies of carbohydrate metabolism.", "Used as a carrier to improve recovery of small amounts of nucleic acids during precipitation." ], "questions": [ { "id": "evidence-real-world-use-q01", "text": "Which of these real-world use hold for the sense of glycogen this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-measurements", "name": "Typical measurements", "description": "Recalled without web access and unsourced; every item is a lead to verify.", "evidence": [ { "quantity": "Average chain length between branch points", "typical_range": "Approximately 8-12; varies with organism, tissue and measurement convention", "unit": "glucose residues" } ], "questions": [ { "id": "evidence-measurements-q01", "text": "Which of these typical measurements hold for the sense of glycogen this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-failure-modes-and-hazards", "name": "Failure modes and hazards", "description": "Recalled without web access and unsourced; every item is a lead to verify.", "evidence": [ "Defects in glycogen synthesis or degradation can cause glycogen storage diseases, with effects depending on the enzyme and tissues involved.", "Abnormally sparse branching can produce poorly soluble polyglucosan deposits associated with tissue dysfunction.", "Depletion of muscle glycogen can limit sustained exercise performance.", "Laboratory preparations may contain nucleic acids, proteins or other contaminants that interfere with sensitive assays." ], "questions": [ { "id": "evidence-failure-modes-and-hazards-q01", "text": "Which of these failure modes and hazards hold for the sense of glycogen this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-neighbours", "name": "Neighbouring kinds and how to tell them apart", "description": "Recalled without web access and unsourced; every item is a lead to verify.", "evidence": [ { "name": "Amylopectin", "difference": "Also contains α(1→4) chains and α(1→6) branches, but is a component of plant starch and generally has longer chains and less frequent branching." }, { "name": "Amylose", "difference": "A predominantly linear α(1→4)-linked glucose polymer, unlike extensively branched glycogen." }, { "name": "Cellulose", "difference": "Has β(1→4)-linked glucose chains and primarily provides structural support rather than a readily mobilized carbohydrate reserve." }, { "name": "Glucose", "difference": "A monosaccharide that forms glycogen's repeating units; glycogen is the polymeric storage material." }, { "name": "Glycogenin", "difference": "A protein involved in initiating glycogen synthesis, rather than the glucose polymer itself." } ], "questions": [ { "id": "evidence-neighbours-q01", "text": "Which of these neighbouring kinds and how to tell them apart hold for the sense of glycogen this model covers, and on what evidence?", "kind": "provenance" } ] } ] } ] } ] }, "openQuestions": [ "Which validated combinations of architecture measurements and provenance best distinguish glycogen from closely related alpha-glucans across different biological sources?", "Which particle organisations and protein associations are established for each source, and which observations are sensitive to extraction or measurement artefacts?", "Which reference materials and analytical procedures support comparable glycogen quantities and structural distributions across laboratories?", "Which substance identifiers, grade-specific hazard classifications and regulatory records apply to the preparations this registry model will cover?", "What evidence supports storage limits and physical-property reporting for different glycogen preparations, including whether thermal observations describe decomposition rather than a meaningful melting or boiling point?" ], "statistics": { "bundles": 6, "layers": 11, "findings": 17, "questions": 27 } }, "draft": { "generator": "vr.draft.v3", "status": "draft-generated", "researched": false, "archetype": "chemical substance or material", "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 glycogen, record what state it is in, and decide what may be done with it.", "whatItIs": "Enable an agent to recognise glycogen, assess its structural and material state, and determine suitable measurement, storage and experimental actions.", "characteristics": { "substance": "material", "origin": "natural", "agency": "inert", "mobility": "varies" }, "whatYouCanDoWithIt": [ "observed and measured", "consumed or used up" ], "distinguishingFeatures": [ "Names folded into this entry, which a task may need to split apart again: liver glycogen.", "1 finer distinctions are held as aliases rather than separate entries, because telling them apart needs a task that asks for it.", "Described in 74 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 glycogen, and on what evidence are they told apart?" ], "whatItIsMadeOf": "matter you can touch", "physicalCharacter": [ "Mobility varies between examples.", "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", "use it up, and then need more of it" ], "howItIsRecognised": [ "Not recognisable by sight in any reliable way. Appearance varies with grade, form and additives; identification is by label, by documentation, or by assay." ], "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": [ "liver glycogen" ] } ], "standing": "Described in 74 Wikipedia languages, which measures how widely it is written about rather than how important or how common it is. 1 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 glycogen from another, and a glycogen 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 glycogen, 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 glycogen, 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 glycogen 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 glycogen, 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 glycogen, 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 glycogen 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 glycogen 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 glycogen, 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 glycogen, 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 glycogen 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 glycogen from the things most often confused with it.", "questions": [ { "id": "distinguishing-features-q01", "text": "What identifies and describes what distinguishes a glycogen, 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 glycogen, 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 glycogen is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] }, { "id": "form-and-composition", "name": "Form, composition and condition", "description": "What a glycogen is made of, what shape and size it takes, and what state it is in.", "rationale": "A physical thing can be measured, and a model that cannot record its measurements cannot support any decision that depends on them.", "layers": [ { "id": "form-and-dimensions", "name": "Form and dimensions", "description": "Shape, size, mass and the ranges these take across examples.", "findings": [ { "id": "measurable-dimensions", "name": "Measurable dimensions and their units", "description": "The quantities worth recording and the units they are recorded in.", "questions": [ { "id": "measurable-dimensions-q01", "text": "What identifies and describes the dimensions of a glycogen, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "measurable-dimensions-q02", "text": "Who or what asserted this about the dimensions of a glycogen, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "measurable-dimensions-q03", "text": "What may an agent decide or do once the dimensions of a glycogen is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "material-and-composition", "name": "Material and composition", "description": "Materials, parts and how they are put together.", "findings": [ { "id": "parts-and-materials", "name": "Parts and materials", "description": "What a glycogen is built from and which parts are replaceable.", "questions": [ { "id": "parts-and-materials-q01", "text": "What identifies and describes the composition of a glycogen, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "parts-and-materials-q02", "text": "Who or what asserted this about the composition of a glycogen, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "parts-and-materials-q03", "text": "What may an agent decide or do once the composition of a glycogen is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "condition-and-integrity", "name": "Condition and integrity", "description": "Wear, damage, health and the difference between working and broken.", "findings": [ { "id": "condition-assessment", "name": "Condition, damage and health", "description": "How the condition of a glycogen is judged and by whom.", "questions": [ { "id": "condition-assessment-q01", "text": "What identifies and describes the condition of a glycogen, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "condition-assessment-q02", "text": "Who or what asserted this about the condition of a glycogen, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "condition-assessment-q03", "text": "What may an agent decide or do once the condition of a glycogen is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] }, { "id": "place-and-movement", "name": "Place and movement", "description": "Where a glycogen is, how it got there and where it may go (varies).", "rationale": "A thing that can move needs its position recorded with a time, or every later claim about it is about a place it has left.", "layers": [ { "id": "location-and-placement", "name": "Location and placement", "description": "Position, containment and the reference frame the position is given in.", "findings": [ { "id": "position-and-frame", "name": "Position, container and reference frame", "description": "Where a glycogen is, and what that position is measured against.", "questions": [ { "id": "position-and-frame-q01", "text": "What identifies and describes the location of a glycogen, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "position-and-frame-q02", "text": "Who or what asserted this about the location of a glycogen, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "position-and-frame-q03", "text": "What may an agent decide or do once the location of a glycogen is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "movement-and-transfer", "name": "Movement and transfer", "description": "How a glycogen is carried, installed or relocated.", "findings": [ { "id": "movement-events", "name": "Movement events and constraints", "description": "What counts as a movement, what records it and what limits it.", "questions": [ { "id": "movement-events-q01", "text": "What identifies and describes the movement of a glycogen, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "movement-events-q02", "text": "Who or what asserted this about the movement of a glycogen, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "movement-events-q03", "text": "What may an agent decide or do once the movement of a glycogen 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 glycogen 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 glycogen between them.", "questions": [ { "id": "stages-and-transitions-q01", "text": "What identifies and describes the lifecycle of a glycogen, 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 glycogen, 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 glycogen 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 glycogen, how often and by whom.", "findings": [ { "id": "observation-record", "name": "Observation record", "description": "How an observation of a glycogen 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 glycogen, 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 glycogen, 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 glycogen is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] }, { "id": "use-and-operation", "name": "Use and operation", "description": "What can be done with a glycogen and what it takes to do it.", "rationale": "An agent that can recognise a thing but not act on it has only half a model.", "layers": [ { "id": "intended-use", "name": "Intended use and function", "description": "What a glycogen is for, and what it is used for anyway.", "findings": [ { "id": "function-and-purpose", "name": "Function, purpose and misuse", "description": "The function a glycogen performs and the uses that fall outside it.", "questions": [ { "id": "function-and-purpose-q01", "text": "What identifies and describes the use of a glycogen, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "function-and-purpose-q02", "text": "Who or what asserted this about the use of a glycogen, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "function-and-purpose-q03", "text": "What may an agent decide or do once the use of a glycogen is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "handling-and-procedure", "name": "Handling and procedure", "description": "The steps, skills and tools involved in using a glycogen.", "findings": [ { "id": "procedures-and-skills", "name": "Procedures, skills and required tools", "description": "What an agent needs before it can act on a glycogen at all.", "questions": [ { "id": "procedures-and-skills-q01", "text": "What identifies and describes handling a glycogen, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "procedures-and-skills-q02", "text": "Who or what asserted this about handling a glycogen, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "procedures-and-skills-q03", "text": "What may an agent decide or do once handling a glycogen is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "supply-and-consumption", "name": "Supply and consumption", "description": "Quantities, rates and what running out means.", "findings": [ { "id": "consumption-and-stock", "name": "Consumption, stock and replenishment", "description": "How much of a glycogen there is and how fast it goes.", "questions": [ { "id": "consumption-and-stock-q01", "text": "What identifies and describes the supply of a glycogen, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "consumption-and-stock-q02", "text": "Who or what asserted this about the supply of a glycogen, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "consumption-and-stock-q03", "text": "What may an agent decide or do once the supply of a glycogen is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] }, { "id": "composition-and-identity", "name": "Composition, grade and chemical identity", "description": "What glycogen is made of and how pure the thing in hand is.", "rationale": "Grade decides what a substance may be used for, so a model that records only the name cannot support any decision about use.", "layers": [ { "id": "chemical-identity", "name": "Chemical identity", "description": "Formula, structure and the registry numbers that name it unambiguously.", "findings": [ { "id": "identity-record", "name": "Identity and registry numbers", "description": "What identifies this substance across suppliers and regulators.", "questions": [ { "id": "identity-record-q01", "text": "What formula, structure and registry identifiers name glycogen unambiguously?", "kind": "definition" }, { "id": "identity-record-q02", "text": "Which related substances share a name in common use but not an identifier?", "kind": "boundary" } ] } ] }, { "id": "grade-and-impurities", "name": "Grade, purity and impurities", "description": "The specification a batch meets and what else is in it.", "findings": [ { "id": "specification", "name": "Specification and assay", "description": "How purity is stated and measured, and which impurities matter.", "questions": [ { "id": "specification-q01", "text": "What grades of glycogen exist, how is purity assayed, and which impurities are limited?", "kind": "measurement" }, { "id": "specification-q02", "text": "Which use requires which grade, and what happens when a lower grade is substituted?", "kind": "action" } ] } ] } ] }, { "id": "properties-and-behaviour", "name": "Properties and behaviour", "description": "How glycogen behaves under conditions an agent can measure or change.", "rationale": "Physical constants are the part of a substance model that transfers between contexts, and each needs its unit and its conditions.", "layers": [ { "id": "physical-constants", "name": "Physical constants", "description": "Values that hold for the pure substance, with their conditions.", "findings": [ { "id": "constants-record", "name": "Constants and conditions", "description": "The quantities worth recording and the state they apply in.", "questions": [ { "id": "constants-record-q01", "text": "What are the defining physical constants of glycogen, in what units and under what conditions?", "kind": "measurement" }, { "id": "constants-record-q02", "text": "Which of these values change with grade or form rather than being fixed?", "kind": "boundary" } ] } ] }, { "id": "stability-and-reactivity", "name": "Stability and reactivity", "description": "What it reacts with, degrades into, and how it is stored.", "findings": [ { "id": "incompatibilities", "name": "Incompatibilities and degradation", "description": "What must not meet it, and what it becomes over time.", "questions": [ { "id": "incompatibilities-q01", "text": "What is glycogen incompatible with, and what does it degrade into under storage?", "kind": "definition" }, { "id": "incompatibilities-q02", "text": "What storage and handling does that require, and who is competent to do it?", "kind": "action" } ] } ] } ] }, { "id": "hazard-and-regulation", "name": "Hazard classification and regulation", "description": "How glycogen can harm, and what the law says about holding and moving it.", "rationale": "A substance model without its hazard class and its regulatory identity is unusable in exactly the situations that matter.", "layers": [ { "id": "hazard-class", "name": "Hazard classification", "description": "Classified hazards, exposure limits and protective measures.", "findings": [ { "id": "classified-hazards", "name": "Classified hazards and limits", "description": "The classification, the scheme it belongs to, and the limits set.", "questions": [ { "id": "classified-hazards-q01", "text": "How is glycogen classified for hazard, under which scheme, and what exposure limits apply?", "kind": "definition" }, { "id": "classified-hazards-q02", "text": "What protection does handling require, and what must an agent refuse to do without it?", "kind": "action" } ] } ] }, { "id": "regulatory-identity", "name": "Regulatory identity and control", "description": "Registration, restriction and transport rules by jurisdiction.", "findings": [ { "id": "controls", "name": "Controls and jurisdiction", "description": "Where it is restricted and what the restriction attaches to.", "questions": [ { "id": "controls-q01", "text": "Which registrations, restrictions or transport rules cover glycogen, and where?", "kind": "provenance" }, { "id": "controls-q02", "text": "Does the control attach to the substance, its concentration, or its intended use?", "kind": "boundary" } ] } ] } ] }, { "id": "provenance-and-evidence", "name": "Provenance, evidence and time", "description": "Where every claim about a glycogen 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 glycogen and how confident it is.", "questions": [ { "id": "claim-provenance-q01", "text": "What identifies and describes a claim about a glycogen, 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 glycogen, 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 glycogen 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 glycogen is retired without being erased.", "questions": [ { "id": "validity-and-supersession-q01", "text": "What identifies and describes the validity of a claim about a glycogen, 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 glycogen, 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 glycogen is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] } ] }, "statistics": { "bundles": 9, "layers": 20, "findings": 22, "questions": 60 } } } }