{ "vercy": "1.0-draft", "publication": { "status": "research-draft", "adjudicationStatus": "unreviewed", "publishableCanonical": false, "generatedAt": "2026-09-12T09:43:13Z", "providers": [ "Codex" ], "breadth": "recalled by Codex without web access - no source was read", "missingProviders": [], "pass": 2, "cost": { "grok": { "seconds": 18.2, "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: 01a094fe-be34-7b83-bc39-bb9baa44286d\n--------\nuser\nDescribe what is already known about one registered thing. Answer as JSON only, no prose around it.\n\nThing: fimbria\nSense to describe: (none recorded)\nDomain code: PHY.LIV\nAlso known as: (none)\n\n\nContext for this batch of 1001 things:\n# Batch 043: 1001 registe", "usd": 0.0, "recall": true }, "codex": { "seconds": 75.7, "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: 01a094fe-be43-7050-9734-57c343390c1c\n--------\nuser\nYou are drafting a Vercy meta-model for one registered thing. Answer as JSON only, no prose around it.\n\nThing: fimbria\nRegistry id: vr.tr.fimbria\nPlane / domain: PHY / PHY.LIV\nRegistry definition: (none recorded)\nNames folded into this entry: (none)\n\n\nContext " } }, "enrichment": { "pass": 3, "engine": "codex", "producedAt": "2026-10-08T12:00:00Z", "ingestedAt": "2026-10-08T18:55:14+00:00", "fields": [ "agent_conduct", "ethics", "failure_modes_and_hazards", "owners", "visual_identification" ] } }, "metaModel": { "id": "THING-Q1810775", "registryId": "vr.tr.fimbria", "name": "fimbria", "version": "0.1.0-research.1", "entryKind": "thing", "family": "Thing Registry", "domain": [ "PHY.LIV" ], "status": "research-draft" }, "canonicalUrl": "https://ver.cy/models/thing/q1810775/", "model": { "registry_id": "vr.tr.fimbria", "name": "fimbria", "purpose": "Enable an agent to identify an anatomical fimbria, describe its attachment and condition, and determine what further observation is needed to assess its local function.", "definition": "In bacteriology, a fimbria is a thin, filamentous, proteinaceous appendage on a bacterial cell surface, commonly involved in adhesion to cells or other surfaces, although usage overlaps with the term pilus.", "scope_statement": "This draft provisionally models fimbria as a tissue projection forming part of an anatomical fringe, especially at the ovarian end of the uterine tube; the local registry contains conflicting provenance for vr.tr.fimbria, so the intended sense requires confirmation.", "in_scope": [ "Individual fimbrial projections and their membership in a fringe", "Attachment to a named parent anatomical structure", "Projection shape, dimensions, arrangement and tissue continuity", "Observed surface, integrity and mobility", "Site-specific functional assessment, with uterine-tube details applied conditionally" ], "out_of_scope": [ "Whole organisms, species classifications and conservation assessments", "Bacterial fimbriae and their molecular assembly", "The bivalve genus Fimbria", "The hippocampal white-matter structure called the fimbria", "Whole uterine tubes, ovaries and reproductive-system function", "Diagnosis and treatment of diseases affecting fimbrial tissue" ], "distinguishing_features": [ "For the provisional anatomical sense, identify tissue projections arranged along a margin as a fringe; this agrees with the anatomical usage in [American Heritage Dictionary](https://www.ahdictionary.com/word/search.html?q=fimbria).", "Require a named tissue attachment and anatomical location before distinguishing an anatomical fimbria from a bacterial surface appendage.", "For a uterine-tube fimbria, establish continuity with the distal tubal fringe rather than identifying any nearby ovarian projection as fimbrial tissue.", "Distinguish the tissue projection from microscopic cilia on its surface and from the complete fringe containing multiple projections.", "Treat a taxonomic name or a hippocampal tract label as a different referent even when its recorded name is fimbria." ], "characteristics": [ { "name": "Anatomical sense", "kind": "category", "unit_or_values": "anatomical fringe projection; unresolved; other referent requiring reassignment", "why_it_matters": "The name alone does not establish which biological structure is intended." }, { "name": "Parent structure and attachment", "kind": "relation", "unit_or_values": "named organ or tissue, attachment margin and anatomical landmark", "why_it_matters": "Attachment anchors recognition and distinguishes adjacent structures." }, { "name": "Observation extent", "kind": "category", "unit_or_values": "single projection; partial fringe; complete fringe", "why_it_matters": "Counts and condition assessments depend on how much tissue was observed." }, { "name": "Projection dimensions", "kind": "measurement", "unit_or_values": "length, width and thickness in mm, with preparation and measurement method", "why_it_matters": "Dimensions describe the projection without treating preparation-dependent measurements as universal norms." }, { "name": "Fringe arrangement", "kind": "category", "unit_or_values": "separated; branching; overlapping; apparently fused; indeterminate", "why_it_matters": "Arrangement helps distinguish intrinsic shape from overlap or acquired attachment." }, { "name": "Tissue integrity", "kind": "state", "unit_or_values": "intact; disrupted; altered; not assessable, with observed features", "why_it_matters": "Visible changes should be recorded before assigning their cause." }, { "name": "Surface ciliation", "kind": "state", "unit_or_values": "observed; not detected; not assessed; not applicable", "why_it_matters": "Ciliation requires appropriate evidence and must not be inferred from the presence of a tissue fringe." }, { "name": "Movement relative to parent tissue", "kind": "measurement", "unit_or_values": "displacement in mm or qualitative mobility, with observation conditions", "why_it_matters": "Static appearance alone cannot establish mobility or functional performance." } ], "affordances": [ "Classify a candidate projection by anatomical location, tissue attachment and fringe arrangement", "Annotate individual projections within an image or specimen while preserving their parent-fringe relationship", "Measure fimbrial dimensions and compare observations made under compatible conditions", "Record visible disruption, adhesion or surface alteration without converting appearance into a diagnosis", "Identify missing observations needed to assess a proposed site-specific function" ], "agent_conduct": { "may": [ "Explain the role of bacterial fimbriae in adhesion while acknowledging overlap with pilus terminology.", "Describe documented surface appendages without inferring pathogenicity from their presence alone." ], "must_not": [ "Confuse bacterial fimbriae with anatomical structures that share the same name.", "Treat every filament on a bacterial surface as a confirmed fimbria.", "Assist in enhancing bacterial adhesion to promote infection or harmful contamination." ], "requires_human": [ "A qualified health or safety professional must decide whether findings about fimbriae warrant clinical or contamination control action." ] }, "ethics": { "considerations": [ "Unsupported claims linking fimbriae to infection can misdirect patient care or contamination responses.", "Applications involving bacterial adhesion can affect people who did not consent to exposure." ], "affected_parties": [ "Patients whose infection assessments depend on accurate bacterial characterization.", "Workers and facility users affected by adherent bacterial contamination." ] }, "owners": { "steward": "The investigator or curator responsible for the bacterial specimen and its characterization.", "master_systems": [] }, "visual_identification": [ "Documented micrographs may show numerous fine filaments projecting from a bacterial cell surface.", "Fimbriae are commonly shorter and finer than flagella, but appearance alone does not resolve overlapping appendage terminology.", "A reliable identification includes specimen provenance and supporting characterization rather than an image label alone." ], "failure_modes_and_hazards": [ "Fimbrial adhesion can contribute to host colonization in some pathogenic bacteria.", "Fimbrial attachment can support persistent surface colonization and associated contamination.", "Misidentifying surface filaments can produce unsupported conclusions about bacterial behavior or infection risk." ], "what_it_is_for": [ "Bacterial fimbriae are encountered in microbiology when studying cell surfaces, attachment and interactions with hosts or other materials.", "They are studied for their roles in adhesion and biofilm formation, with functions varying by organism and appendage type.", "Their description requires attention to local terminology because the terms fimbria and pilus overlap." ], "facets_not_applicable": { "interfaces": "No generally applicable standard, law or official classification governs the bacterial fimbria itself independently of the organism and research context." } }, "sources": [ { "id": "wikidata", "title": "Wikidata item Q1810775: fimbria", "url": "https://www.wikidata.org/wiki/Q1810775", "url_status": "live", "what_it_supports": "identity and sense of the item", "checked_by": "wikidata-api" }, { "id": "wikipedia-en", "title": "Wikipedia: Fimbria (bacteriology)", "url": "https://en.wikipedia.org/wiki/Fimbria_%28bacteriology%29", "url_status": "live", "what_it_supports": "general description of the item", "checked_by": "wikidata-api sitelink" } ], "structure": { "bundles": [ { "id": "fimbria-sense-and-boundaries", "name": "Fimbria sense and boundaries", "description": "Establish which meaning of fimbria is being modeled and what constitutes one observed unit.", "rationale": "An organism template or an unqualified name could conflate tissue projections, microbial appendages and a taxon.", "layers": [ { "id": "registry-sense-resolution", "name": "Registry sense resolution", "description": "Resolve the entry against its original lexical or entity reference.", "findings": [ { "id": "intended-anatomical-referent", "name": "Intended anatomical referent", "description": "The anatomical-fringe interpretation remains provisional until the conflicting local registry records are reconciled.", "questions": [ { "text": "Does the authoritative source for vr.tr.fimbria identify an anatomical fringe, a microbial appendage or a taxon?", "kind": "definition", "id": "intended-anatomical-referent-q01" }, { "text": "Which original entity identifier or lexical sense establishes the intended referent?", "kind": "provenance", "id": "intended-anatomical-referent-q02" } ] } ] }, { "id": "projection-and-fringe-units", "name": "Projection and fringe units", "description": "Separate one projection from the collective fringe and its supporting organ.", "findings": [ { "id": "fimbrial-observation-unit", "name": "Fimbrial observation unit", "description": "Every observation must indicate whether it concerns one projection or an identified extent of the fringe.", "questions": [ { "text": "Does fimbria denote one projection or the collective fringe in this source?", "kind": "boundary", "id": "fimbrial-observation-unit-q01" }, { "text": "Which visible attachment and free edges delimit the unit being described?", "kind": "definition", "id": "fimbrial-observation-unit-q02" } ] } ] } ] }, { "id": "attachment-and-fringe-architecture", "name": "Attachment and fringe architecture", "description": "Describe where the projection arises and how it contributes to the surrounding fringe.", "rationale": "A fringe-like appearance is insufficient without anatomical continuity and an explicit spatial relationship.", "layers": [ { "id": "anatomical-attachment", "name": "Anatomical attachment", "description": "Locate the projection on a parent structure using observable landmarks.", "findings": [ { "id": "parent-margin-continuity", "name": "Parent-margin continuity", "description": "Record the attachment base and distinguish continuity from simple contact with nearby tissue.", "questions": [ { "text": "Which organ margin is continuous with the projection's base?", "kind": "boundary", "id": "parent-margin-continuity-q01" }, { "text": "For a tubal observation, what establishes the projection's position relative to the distal opening and ovary?", "kind": "measurement", "id": "parent-margin-continuity-q02" } ] } ] }, { "id": "projection-geometry", "name": "Projection geometry", "description": "Describe individual projections and their arrangement without assuming a fixed normal count.", "findings": [ { "id": "shape-and-separation", "name": "Shape and separation", "description": "Measure shape and spacing while distinguishing branching, overlap and apparent fusion.", "questions": [ { "text": "What are the projection's length, width and branching pattern under the recorded preparation conditions?", "kind": "measurement", "id": "shape-and-separation-q01" }, { "text": "Can adjacent projections be resolved as separate structures, or could orientation explain their apparent fusion?", "kind": "boundary", "id": "shape-and-separation-q02" } ] } ] } ] }, { "id": "fimbrial-tissue-and-condition", "name": "Fimbrial tissue and condition", "description": "Characterize the projection's tissue surface and observed structural changes.", "rationale": "Gross fringe shape cannot establish microscopic surface properties or explain damaged tissue.", "layers": [ { "id": "surface-and-tissue-evidence", "name": "Surface and tissue evidence", "description": "Connect descriptions of the fimbrial surface to methods capable of observing them.", "findings": [ { "id": "surface-characterization", "name": "Surface characterization", "description": "Separate gross tissue morphology from microscopic findings such as ciliation.", "questions": [ { "text": "Which observed tissue features support identification as an anatomical projection?", "kind": "definition", "id": "surface-characterization-q01" }, { "text": "What observation method supports any claim that the fimbrial surface is ciliated or lacks detectable cilia?", "kind": "provenance", "id": "surface-characterization-q02" } ] } ] }, { "id": "integrity-and-acquired-attachments", "name": "Integrity and acquired attachments", "description": "Describe disruption and attachments that may alter the fringe's configuration.", "findings": [ { "id": "observed-fimbrial-alteration", "name": "Observed fimbrial alteration", "description": "Record the location and extent of visible alteration separately from causal interpretations.", "questions": [ { "text": "Which projections show tearing, thickening, discoloration or attachment to adjacent tissue, and how extensive is each observation?", "kind": "measurement", "id": "observed-fimbrial-alteration-q01" }, { "text": "Could handling, fixation or viewing angle account for the apparent alteration?", "kind": "provenance", "id": "observed-fimbrial-alteration-q02" } ] } ] } ] }, { "id": "local-function-and-assessment", "name": "Local function and assessment", "description": "Relate fimbrial observations to site-specific functional questions and proportionate follow-up.", "rationale": "Recognizing a fringe does not establish that it performs its proposed function or that the parent organ functions normally.", "layers": [ { "id": "movement-and-functional-evidence", "name": "Movement and functional evidence", "description": "Distinguish visible configuration, movement and demonstrated functional contribution.", "findings": [ { "id": "fimbrial-functional-support", "name": "Fimbrial functional support", "description": "Assess proposed function only within the identified anatomical site and observation conditions.", "questions": [ { "text": "What evidence connects this fringe's position, surface or movement to its proposed local function?", "kind": "provenance", "id": "fimbrial-functional-support-q01" }, { "text": "For tubal fimbriae, what supports an assessment of oocyte pickup beyond a static image of the fringe?", "kind": "measurement", "id": "fimbrial-functional-support-q02" } ] } ] }, { "id": "assessment-limits-and-follow-up", "name": "Assessment limits and follow-up", "description": "Identify what additional observation can resolve uncertainty without extrapolating to whole-organ performance.", "findings": [ { "id": "next-fimbrial-observation", "name": "Next fimbrial observation", "description": "Choose follow-up according to whether uncertainty concerns identity, morphology, surface tissue or movement.", "questions": [ { "text": "Would another viewing angle, calibrated microscopy or a suitable dynamic observation resolve the specific uncertainty?", "kind": "action", "id": "next-fimbrial-observation-q01" }, { "text": "Which conclusions about tubal patency or reproductive function require evidence outside this fimbria model?", "kind": "boundary", "id": "next-fimbrial-observation-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": [ "The registry supplies no sense. The bacterial interpretation used here is provisional; anatomical and taxonomic meanings must be checked against the original registry record.", "Fimbria and pilus are used inconsistently across organisms and publications; the listed kinds are examples, not an exhaustive or mutually exclusive classification.", "This account is based on recall without source consultation; dimensions, taxonomic identifiers and organism-specific claims have therefore been omitted." ], "questions": [ { "id": "evidence-confidence-notes-q01", "text": "Which of these check these first hold for the sense of fimbria 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": [ "Type 1 fimbriae", "P fimbriae", "Curli fimbriae" ], "questions": [ { "id": "evidence-kinds-q01", "text": "Which of these kinds and varieties hold for the sense of fimbria 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": [ "Attachment of bacteria to host tissues and environmental surfaces.", "Formation and maintenance of some bacterial biofilms.", "Research into bacterial colonization, virulence and strategies that inhibit adhesion." ], "questions": [ { "id": "evidence-real-world-use-q01", "text": "Which of these real-world use hold for the sense of fimbria 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": [ "Fimbria-mediated adhesion can contribute to colonization and infection by pathogenic bacteria.", "Fimbrial contributions to biofilm formation can promote bacterial persistence.", "Loss or altered expression of fimbriae can reduce adhesion in contexts where those structures are required." ], "questions": [ { "id": "evidence-failure-modes-and-hazards-q01", "text": "Which of these failure modes and hazards hold for the sense of fimbria 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": "Pilus", "difference": "Terminology overlaps: fimbria often emphasizes an adhesive filament, while pilus also covers structures involved in conjugation or motility; there is no universal structural boundary." }, { "name": "Flagellum", "difference": "A bacterial flagellum is typically a rotary propulsion organelle; a fimbria is generally an adhesive surface appendage." }, { "name": "Uterine tube fimbria", "difference": "An anatomical fingerlike projection at the infundibulum of the uterine tube, rather than a bacterial appendage." }, { "name": "Fimbria of the hippocampus", "difference": "A bundle of nerve fibers associated with the hippocampus, rather than a bacterial surface structure." }, { "name": "Fimbria (bivalve genus)", "difference": "A taxonomic name for a genus of bivalve molluscs, rather than the name of a cellular appendage." } ], "questions": [ { "id": "evidence-neighbours-q01", "text": "Which of these neighbouring kinds and how to tell them apart hold for the sense of fimbria this model covers, and on what evidence?", "kind": "provenance" } ] } ] } ] } ] }, "openQuestions": [ "Why does the local work registry associate vr.tr.fimbria with a WordNet anatomical-fringe definition while the backlog associates it with an undefined Wikidata-derived entry?", "Does the authoritative entry own anatomical fringes generally or specifically uterine-tube fimbriae?", "Which anatomical terminology source should govern projection names, attachment landmarks and the distinction between a single fimbria and the collective fringe?", "What site-, species- and preparation-specific reference observations support meaningful comparisons of fimbrial dimensions and condition?", "Which observations can establish local fimbrial function, and which apparent functional conclusions remain unsupported by morphology alone?" ], "statistics": { "bundles": 5, "layers": 9, "findings": 13, "questions": 21 } }