{ "model": { "rank": 8281, "code": "thing-q194520", "model_id": "vr.tr.atrophy", "name": "atrophy", "purpose": "Let an agent explain atrophy and its causes and kinds in general terms, distinguish it from hypertrophy and hypoplasia, relay assessment and management information from clinical sources, and route personal questions to clinicians.", "family": "Thing Registry", "category": "Cross-cutting context", "status": "research-draft", "kind": "thing", "plane": "XCT", "domain": "XCT.STA", "industry": "", "version": "", "url": "/models/thing/q194520/", "tier": 2, "score": 51, "payload": { "layer": "wikidata", "aliases": [ "disuse atrophy", "glaucomatous atrophy of optic disc", "early-onset X-linked optic atrophy", "optic atrophy 7", "cerebellar atrophy", "optic atrophy associated with retinal dystrophy", "optic atrophy", "optic atrophy 10", "optic atrophy 2", "optic atrophy 9", "primary optic atrophy", "partial optic atrophy", "hereditary optic atrophy", "Hagemoser–Weinstein–Bresnick syndrome", "muscle atrophy", "smooth muscle atrophy", "striated muscle atrophy", "villous atrophy", "brain atrophy" ], "aliasCount": 19, "merged": 19, "knownIn": 51, "facets": null, "markers": [], "lexicalClass": "", "senseRank": null, "alsoRegisteredAs": "vr.tr.atrophy", "source": { "dataset": "wikidata", "item": "Q194520", "url": "https://www.wikidata.org/wiki/Q194520", "license": "CC0 1.0" } }, "research": { "vercy": "1.0-draft", "publication": { "status": "research-draft", "adjudicationStatus": "unreviewed", "publishableCanonical": false, "generatedAt": "2026-09-12T20:42:23Z", "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-Q194520", "registryId": "vr.tr.atrophy", "name": "atrophy", "version": "0.2.0-wave.3", "entryKind": "thing", "family": "Thing Registry", "domain": [ "XCT.STA" ], "status": "research-draft" }, "canonicalUrl": "https://ver.cy/models/thing/q194520/", "model": { "registry_id": "vr.tr.atrophy", "name": "atrophy", "purpose": "Let an agent explain atrophy and its causes and kinds in general terms, distinguish it from hypertrophy and hypoplasia, relay assessment and management information from clinical sources, and route personal questions to clinicians.", "definition": "The wasting or shrinking of a tissue or organ through loss of cell size or number, caused by disuse, loss of nerve supply, poor blood supply, malnutrition, hormone changes, ageing or disease; atrophy affects muscle, brain, optic nerve and many organs, is sometimes reversible when the cause is removed, and is assessed by examination and imaging.", "what_it_is_for": "Not applicable; a tissue change.", "affordances": [ "explain causes and mechanisms", "distinguish atrophy from related terms", "relay examples and assessment in general terms", "route personal questions to clinicians" ], "distinguishing_features": [ "Loss of tissue mass", "Many causes", "Partly reversible in some cases", "Marker of disease or ageing" ], "appearance": "Not visible as a process; seen as shrinkage or wasting of a muscle or organ.", "visual_identification": [ "Reduction in size of a tissue or organ", "Caused by disuse, denervation, ischaemia or disease", "Hypoplasia is failure to develop; hypertrophy is enlargement" ], "physical_properties": [], "families_and_kinds": [ "disuse muscle atrophy", "neurogenic atrophy", "brain and cerebellar atrophy", "optic atrophy", "atrophy from ageing such as sarcopenia", "hormonal and pressure atrophy" ], "related_models": [ { "relation": "is a kind of", "target": "hypotrophy", "why": "a reduction in tissue" }, { "relation": "is the opposite of", "target": "hypertrophy", "why": "enlargement" }, { "relation": "is confused with", "target": "hypoplasia", "why": "underdevelopment" }, { "relation": "occurs in", "target": "muscle", "why": "a main example" } ], "identifiers": [ { "scheme": "MeSH", "value_or_pattern": "D001284", "note": "atrophy" }, { "scheme": "ICD-10", "value_or_pattern": "M62.5 and others", "note": "by site" } ], "standards_and_regulation": [ "Clinical guidelines on muscle wasting and sarcopenia", "Rehabilitation standards" ], "failure_modes_and_hazards": [ "Progressive disability", "Falls and frailty", "Missed treatable causes", "Agents giving personal medical advice" ], "in_scope": [], "out_of_scope": [], "characteristics": [] }, "sources": [], "structure": { "bundles": [ { "id": "concept", "name": "Concept", "description": "What atrophy is.", "rationale": "Definition.", "layers": [ { "id": "definition", "name": "Definition", "description": "Definition.", "findings": [ { "id": "definition-finding", "name": "Definition", "description": "Definition.", "questions": [ { "text": "What is atrophy, and how does it differ from hypoplasia and hypertrophy?", "kind": "definition" }, { "text": "Is the user asking about their own condition, which needs a clinician?", "kind": "boundary" } ] } ] }, { "id": "causes", "name": "Causes", "description": "Causes.", "findings": [ { "id": "causes-finding", "name": "Causes", "description": "Causes.", "questions": [ { "text": "What causes atrophy, and what mechanisms are involved?", "kind": "definition" }, { "text": "Which entry fits a specific cause?", "kind": "action" } ] } ] } ] }, { "id": "examples", "name": "Examples", "description": "Kinds and sites.", "rationale": "Examples.", "layers": [ { "id": "muscle", "name": "Muscle", "description": "Muscle atrophy.", "findings": [ { "id": "muscle-finding", "name": "Muscle", "description": "Muscle.", "questions": [ { "text": "How does muscle atrophy arise from disuse, denervation and ageing?", "kind": "provenance" }, { "text": "Which entry fits sarcopenia?", "kind": "action" } ] } ] }, { "id": "organs", "name": "Organs", "description": "Brain, nerve and organs.", "findings": [ { "id": "organs-finding", "name": "Organs", "description": "Organs.", "questions": [ { "text": "What are brain, optic and organ atrophy, in general terms?", "kind": "provenance" }, { "text": "Which entry fits a specific condition?", "kind": "action" } ] } ] } ] }, { "id": "assess", "name": "Assess", "description": "Assessment and management.", "rationale": "Clinical.", "layers": [ { "id": "assessment", "name": "Assessment", "description": "Assessment.", "findings": [ { "id": "assessment-finding", "name": "Assessment", "description": "Assessment.", "questions": [ { "text": "How is atrophy assessed by examination, imaging and function tests?", "kind": "measurement" }, { "text": "Which methods are standard?", "kind": "provenance" } ] } ] }, { "id": "management", "name": "Management", "description": "Management.", "findings": [ { "id": "management-finding", "name": "Management", "description": "Management.", "questions": [ { "text": "What management do guidelines describe, from rehabilitation to treating the cause?", "kind": "provenance" }, { "text": "Is the presentation free of personal treatment advice?", "kind": "boundary" } ] } ] } ] }, { "id": "study", "name": "Study", "description": "Research and teaching.", "rationale": "Study.", "layers": [ { "id": "research", "name": "Research", "description": "Research.", "findings": [ { "id": "research-finding", "name": "Research", "description": "Research.", "questions": [ { "text": "What is known about mechanisms and reversibility, with findings attributed?", "kind": "provenance" }, { "text": "Which references are standard?", "kind": "provenance" } ] } ] }, { "id": "teach", "name": "Teach", "description": "Teaching.", "findings": [ { "id": "teach-finding", "name": "Teach", "description": "Teaching.", "questions": [ { "text": "How is atrophy taught in pathology?", "kind": "action" }, { "text": "Which misconceptions arise?", "kind": "provenance" } ] } ] } ] } ] }, "openQuestions": [ "Should muscle and brain atrophy be separate entries?", "How should guidelines be linked?", "The registry entry has merged aliases for rare genetic optic atrophies; should they be split off?" ], "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 atrophy, record what state it is in, and decide what may be done with it.", "whatItIs": "Let an agent explain atrophy and its causes and kinds in general terms, distinguish it from hypertrophy and hypoplasia, relay assessment and management information from clinical sources, and route personal questions to clinicians.", "characteristics": { "substance": "abstract", "origin": "conceptual", "agency": "inert" }, "whatYouCanDoWithIt": [ "observed and measured" ], "distinguishingFeatures": [ "Names folded into this entry, which a task may need to split apart again: disuse atrophy, glaucomatous atrophy of optic disc, early-onset X-linked optic atrophy, optic atrophy 7, cerebellar atrophy, optic atrophy associated with retinal dystrophy, optic atrophy, optic atrophy 10, optic atrophy 2, optic atrophy 9, primary optic atrophy, partial optic atrophy.", "19 finer distinctions are held as aliases rather than separate entries, because telling them apart needs a task that asks for it.", "Described in 51 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 atrophy, and on what evidence are they told apart?" ], "whatItIsMadeOf": "an abstraction with no physical instance", "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": [ "disuse atrophy", "glaucomatous atrophy of optic disc", "early-onset X-linked optic atrophy", "optic atrophy 7", "cerebellar atrophy", "optic atrophy associated with retinal dystrophy", "optic atrophy", "optic atrophy 10", "optic atrophy 2", "optic atrophy 9", "primary optic atrophy", "partial optic atrophy" ] } ], "standing": "Described in 51 Wikipedia languages, which measures how widely it is written about rather than how important or how common it is. 19 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 atrophy from another, and a atrophy 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 atrophy, 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 atrophy, 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 atrophy 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 atrophy, 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 atrophy, 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 atrophy 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 atrophy 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 atrophy, 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 atrophy, 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 atrophy 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 atrophy from the things most often confused with it.", "questions": [ { "id": "distinguishing-features-q01", "text": "What identifies and describes what distinguishes a atrophy, 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 atrophy, 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 atrophy 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 atrophy 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 atrophy between them.", "questions": [ { "id": "stages-and-transitions-q01", "text": "What identifies and describes the lifecycle of a atrophy, 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 atrophy, 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 atrophy 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 atrophy, how often and by whom.", "findings": [ { "id": "observation-record", "name": "Observation record", "description": "How an observation of a atrophy 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 atrophy, 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 atrophy, 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 atrophy 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 atrophy 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 atrophy 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 atrophy 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 atrophy 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 atrophy?", "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 atrophy?", "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 atrophy 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 atrophy and how confident it is.", "questions": [ { "id": "claim-provenance-q01", "text": "What identifies and describes a claim about a atrophy, 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 atrophy, 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 atrophy 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 atrophy is retired without being erased.", "questions": [ { "id": "validity-and-supersession-q01", "text": "What identifies and describes the validity of a claim about a atrophy, 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 atrophy, 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 atrophy is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] } ] }, "statistics": { "bundles": 5, "layers": 10, "findings": 12, "questions": 32 } } } }