{ "model": { "rank": 7228, "code": "thing-q187126", "model_id": "vr.tr.glycoprotein", "name": "glycoprotein", "purpose": "Let an agent explain glycoproteins and glycosylation, relay structure, biosynthesis and functions from biochemistry references, describe cytokines as a glycoprotein subclass without conflating the terms, and distinguish glycoproteins from proteoglycans, glycolipids and unglycosylated proteins.", "family": "Thing Registry", "category": "Physical world and living systems", "status": "research-draft", "kind": "thing", "plane": "PHY", "domain": "PHY.MAT", "industry": "", "version": "", "url": "/models/thing/q187126/", "tier": 2, "score": 56, "payload": { "layer": "wikidata", "aliases": [ "cytokine", "type 2 cytokine", "inflammatory cytokine", "interleukin-1 family", "interleukins", "interleukin 23", "Leukemia inhibitory factor /oncostatin", "interferon beta", "interleukin-16", "tumour necrosis factor family protein, CD30 ligand type", "Secreted and transmembrane protein 1", "interleukin-10", "Interleukin-6/GCSF/MGF", "macrophage colony stimulating factor-1", "Interleukin-33", "Flt3 ligand", "Interleukin-23 alpha", "thymic stromal lymphopoietin", "thrombopoeitin", "Interleukin-10, additional helical", "Interferon lambda", "lymphokine", "interleukin-17 family", "proinflammatory cytokine", "tumor necrosis factor ligand superfamily member 4", "chemokine", "tumor necrosis factors", "monokine", "macrophage chemotactic factor", "interleukin", "hematopoietic cell growth factors", "myokine", "C-C motif chemokine 5", "CXC chemokine 16", "tumor necrosis factor ligand superfamily member 15", "ulinastatin", "Interleukin-1 receptor antagonist/Interleukin-36", "Interleukin-18", "interleukin-1 beta", "IL-10 family" ], "aliasCount": 152, "merged": 152, "knownIn": 56, "facets": null, "markers": [], "lexicalClass": "", "senseRank": null, "alsoRegisteredAs": null, "source": { "dataset": "wikidata", "item": "Q187126", "url": "https://www.wikidata.org/wiki/Q187126", "license": "CC0 1.0" } }, "research": { "vercy": "1.0-draft", "publication": { "status": "research-draft", "adjudicationStatus": "unreviewed", "publishableCanonical": false, "generatedAt": "2026-09-13T06:25:25Z", "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": 3, "engine": "claude" }, "metaModel": { "id": "THING-Q187126", "registryId": "vr.tr.glycoprotein", "name": "glycoprotein", "version": "0.2.0-wave.3", "entryKind": "thing", "family": "Thing Registry", "domain": [ "PHY.MAT" ], "status": "research-draft" }, "canonicalUrl": "https://ver.cy/models/thing/q187126/", "model": { "registry_id": "vr.tr.glycoprotein", "name": "glycoprotein", "purpose": "Let an agent explain glycoproteins and glycosylation, relay structure, biosynthesis and functions from biochemistry references, describe cytokines as a glycoprotein subclass without conflating the terms, and distinguish glycoproteins from proteoglycans, glycolipids and unglycosylated proteins.", "definition": "A protein to which carbohydrate chains are covalently attached through N-linked or O-linked glycosylation, forming a vast class that includes most secreted and cell-surface proteins, antibodies, mucins, hormones, blood group antigens and many cytokines such as the interleukins including interleukin-1 family members and interleukin 23, and inflammatory and type 2 cytokines; glycosylation affects folding, stability, recognition and signalling, and glycoproteins are central to immunology, virology and biotechnology.", "what_it_is_for": "Not applicable; a class of molecules.", "affordances": [ "explain structure and glycosylation", "relay biosynthesis and functions", "describe cytokines as a subclass", "distinguish related molecules" ], "distinguishing_features": [ "Covalent sugar chains", "Secreted and surface proteins", "Folding and recognition roles", "Heterogeneous glycoforms" ], "appearance": "Not a visible object; proteins with sugar chains.", "visual_identification": [ "Protein with attached carbohydrate", "Antibodies, mucins, hormones, cytokines and interleukins such as interleukin-1 and interleukin 23", "Proteoglycans carry long glycosaminoglycans; glycolipids are lipids; many cytokines are glycoproteins but the terms are not synonyms" ], "physical_properties": [ { "quantity": "glycosylation types", "typical_range": "N-linked, O-linked and others", "unit": "list", "note": "" }, { "quantity": "share of human proteins glycosylated", "typical_range": "over half", "unit": "note", "note": "estimates" }, { "quantity": "N-glycan attachment site", "typical_range": "asparagine in Asn-X-Ser/Thr", "unit": "note", "note": "" } ], "families_and_kinds": [ "N-linked glycoproteins", "O-linked glycoproteins and mucins", "glycoprotein hormones", "immunoglobulins", "cytokines and interleukins including the interleukin-1 family, interleukin 23, inflammatory and type 2 cytokines", "viral envelope glycoproteins", "blood group and cell adhesion glycoproteins" ], "related_models": [ { "relation": "is a kind of", "target": "conjugated protein", "why": "in registry terms" }, { "relation": "is a kind of", "target": "glycoconjugate", "why": "in registry terms" }, { "relation": "is formed by", "target": "glycosylation", "why": "in the ER and Golgi" }, { "relation": "includes", "target": "cytokine", "why": "as a functional subclass, listed as an alias" } ], "identifiers": [ { "scheme": "MeSH", "value_or_pattern": "D006023", "note": "glycoproteins" }, { "scheme": "ChEBI", "value_or_pattern": "CHEBI:17089", "note": "glycoprotein" } ], "standards_and_regulation": [ "Biologics regulation for glycoprotein drugs and biosimilars", "Glycan analysis standards" ], "failure_modes_and_hazards": [ "Conflating glycoproteins with cytokines", "Ignoring glycoform heterogeneity in biologics", "Confusing with proteoglycans" ], "in_scope": [], "out_of_scope": [], "characteristics": [] }, "sources": [], "structure": { "bundles": [ { "id": "understand", "name": "Understand", "description": "What glycoproteins are.", "rationale": "Science.", "layers": [ { "id": "definition", "name": "Definition", "description": "Definition.", "findings": [ { "id": "definition-finding", "name": "Definition", "description": "Definition.", "questions": [ { "text": "What is a glycoprotein, and how does it differ from proteoglycans, glycolipids and unglycosylated proteins?", "kind": "definition" }, { "text": "Is the question about glycoproteins in general, glycosylation, cytokines or a specific protein?", "kind": "boundary" } ] } ] }, { "id": "kinds", "name": "Kinds", "description": "Kinds.", "findings": [ { "id": "kinds-finding", "name": "Kinds", "description": "Kinds.", "questions": [ { "text": "What are N-linked and O-linked glycoproteins, mucins, glycoprotein hormones, antibodies and cytokines such as the interleukins?", "kind": "definition" }, { "text": "Which entry fits the specific kind?", "kind": "action" } ] } ] } ] }, { "id": "biology", "name": "Biology", "description": "Biosynthesis and function.", "rationale": "Science.", "layers": [ { "id": "glycosylation", "name": "Glycosylation", "description": "Glycosylation.", "findings": [ { "id": "glycosylation-finding", "name": "Glycosylation", "description": "Glycosylation.", "questions": [ { "text": "How are glycans attached and processed in the endoplasmic reticulum and Golgi?", "kind": "provenance" }, { "text": "Which references are standard?", "kind": "provenance" } ] } ] }, { "id": "function", "name": "Function", "description": "Functions.", "findings": [ { "id": "function-finding", "name": "Function", "description": "Function.", "questions": [ { "text": "How does glycosylation affect folding, stability, immune recognition and signalling?", "kind": "provenance" }, { "text": "Which sources are cited?", "kind": "provenance" } ] } ] } ] }, { "id": "medicine", "name": "Medicine", "description": "Medicine and biotechnology.", "rationale": "Clinical.", "layers": [ { "id": "cytokines", "name": "Cytokines", "description": "Cytokines.", "findings": [ { "id": "cytokines-finding", "name": "Cytokines", "description": "Cytokines.", "questions": [ { "text": "What are cytokines and interleukins such as the interleukin-1 family and interleukin 23, and what roles do they play in inflammation and immunity, in general terms?", "kind": "provenance" }, { "text": "Is the user asking about their own treatment with cytokine-targeting drugs, which needs a clinician?", "kind": "boundary" } ] } ] }, { "id": "drugs", "name": "Drugs", "description": "Glycoprotein drugs.", "findings": [ { "id": "drugs-finding", "name": "Drugs", "description": "Drugs.", "questions": [ { "text": "How are glycoprotein biologics such as antibodies and erythropoietin produced and regulated?", "kind": "provenance" }, { "text": "Which entry fits biopharmaceutical?", "kind": "action" } ] } ] } ] }, { "id": "context", "name": "Context", "description": "Analysis and history.", "rationale": "Context.", "layers": [ { "id": "analysis", "name": "Analysis", "description": "Glycoproteomics.", "findings": [ { "id": "analysis-finding", "name": "Analysis", "description": "Analysis.", "questions": [ { "text": "How are glycoproteins and their glycans analysed?", "kind": "provenance" }, { "text": "Which entry fits glycomics?", "kind": "action" } ] } ] }, { "id": "history", "name": "History", "description": "History.", "findings": [ { "id": "history-finding", "name": "History", "description": "History.", "questions": [ { "text": "How were glycoproteins and glycosylation discovered and understood?", "kind": "provenance" }, { "text": "Which entry fits the history of glycobiology?", "kind": "action" } ] } ] } ] } ] }, "openQuestions": [ "Should cytokine and interleukin be separate primary entries?", "How should biochemistry references be linked?", "The registry entry has merged cytokine aliases that name a subclass; should they be moved to a cytokine entry?" ], "statistics": { "bundles": 4, "layers": 8, "findings": 8, "questions": 16 } }, "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 glycoprotein, record what state it is in, and decide what may be done with it.", "whatItIs": "Let an agent explain glycoproteins and glycosylation, relay structure, biosynthesis and functions from biochemistry references, describe cytokines as a glycoprotein subclass without conflating the terms, and distinguish glycoproteins from proteoglycans, glycolipids and unglycosylated proteins.", "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: cytokine, type 2 cytokine, inflammatory cytokine, interleukin-1 family, interleukins, interleukin 23, Leukemia inhibitory factor /oncostatin, interferon beta, interleukin-16, tumour necrosis factor family protein, CD30 ligand type, Secreted and transmembrane protein 1, interleukin-10.", "152 finer distinctions are held as aliases rather than separate entries, because telling them apart needs a task that asks for it.", "Described in 56 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 glycoprotein, 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": [ "cytokine", "type 2 cytokine", "inflammatory cytokine", "interleukin-1 family", "interleukins", "interleukin 23", "Leukemia inhibitory factor /oncostatin", "interferon beta", "interleukin-16", "tumour necrosis factor family protein, CD30 ligand type", "Secreted and transmembrane protein 1", "interleukin-10" ] } ], "standing": "Described in 56 Wikipedia languages, which measures how widely it is written about rather than how important or how common it is. 152 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 glycoprotein from another, and a glycoprotein 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 glycoprotein, 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 glycoprotein, 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 glycoprotein 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 glycoprotein, 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 glycoprotein, 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 glycoprotein 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 glycoprotein 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 glycoprotein, 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 glycoprotein, 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 glycoprotein 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 glycoprotein from the things most often confused with it.", "questions": [ { "id": "distinguishing-features-q01", "text": "What identifies and describes what distinguishes a glycoprotein, 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 glycoprotein, 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 glycoprotein 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 glycoprotein 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 glycoprotein, 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 glycoprotein, 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 glycoprotein 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 glycoprotein is built from and which parts are replaceable.", "questions": [ { "id": "parts-and-materials-q01", "text": "What identifies and describes the composition of a glycoprotein, 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 glycoprotein, 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 glycoprotein 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 glycoprotein is judged and by whom.", "questions": [ { "id": "condition-assessment-q01", "text": "What identifies and describes the condition of a glycoprotein, 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 glycoprotein, 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 glycoprotein 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 glycoprotein 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 glycoprotein is, and what that position is measured against.", "questions": [ { "id": "position-and-frame-q01", "text": "What identifies and describes the location of a glycoprotein, 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 glycoprotein, 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 glycoprotein 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 glycoprotein 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 glycoprotein, 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 glycoprotein, 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 glycoprotein 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 glycoprotein 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 glycoprotein between them.", "questions": [ { "id": "stages-and-transitions-q01", "text": "What identifies and describes the lifecycle of a glycoprotein, 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 glycoprotein, 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 glycoprotein 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 glycoprotein, how often and by whom.", "findings": [ { "id": "observation-record", "name": "Observation record", "description": "How an observation of a glycoprotein 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 glycoprotein, 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 glycoprotein, 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 glycoprotein 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 glycoprotein 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 glycoprotein is for, and what it is used for anyway.", "findings": [ { "id": "function-and-purpose", "name": "Function, purpose and misuse", "description": "The function a glycoprotein performs and the uses that fall outside it.", "questions": [ { "id": "function-and-purpose-q01", "text": "What identifies and describes the use of a glycoprotein, 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 glycoprotein, 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 glycoprotein 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 glycoprotein.", "findings": [ { "id": "procedures-and-skills", "name": "Procedures, skills and required tools", "description": "What an agent needs before it can act on a glycoprotein at all.", "questions": [ { "id": "procedures-and-skills-q01", "text": "What identifies and describes handling a glycoprotein, 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 glycoprotein, 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 glycoprotein 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 glycoprotein there is and how fast it goes.", "questions": [ { "id": "consumption-and-stock-q01", "text": "What identifies and describes the supply of a glycoprotein, 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 glycoprotein, 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 glycoprotein 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 glycoprotein 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 glycoprotein 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 glycoprotein 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 glycoprotein 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 glycoprotein, 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 glycoprotein 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 glycoprotein 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 glycoprotein 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 glycoprotein, 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 glycoprotein 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 glycoprotein and how confident it is.", "questions": [ { "id": "claim-provenance-q01", "text": "What identifies and describes a claim about a glycoprotein, 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 glycoprotein, 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 glycoprotein 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 glycoprotein is retired without being erased.", "questions": [ { "id": "validity-and-supersession-q01", "text": "What identifies and describes the validity of a claim about a glycoprotein, 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 glycoprotein, 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 glycoprotein 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 } } } }