{ "vercy": "1.0-draft", "publication": { "status": "research-draft", "adjudicationStatus": "unreviewed", "publishableCanonical": false, "generatedAt": "2026-09-12T11:33:41Z", "providers": [ "Codex" ], "breadth": "recalled by Codex without web access - no source was read", "missingProviders": [], "pass": 2, "cost": { "grok": { "seconds": 16.0, "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: 01a09564-1ec5-7060-983a-6adbb4b4ab7b\n--------\nuser\nDescribe what is already known about one registered thing. Answer as JSON only, no prose around it.\n\nThing: neohesperidose\nSense to describe: (none recorded)\nDomain code: PHY.MAT\nAlso known as: (none)\n\n\nContext for this batch of 1001 things:\n# Batch 044: 1001 ", "usd": 0.0, "recall": true }, "codex": { "seconds": 60.3, "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: 01a09564-1ed3-76c0-9e57-f441016b6b7c\n--------\nuser\nYou are drafting a Vercy meta-model for one registered thing. Answer as JSON only, no prose around it.\n\nThing: neohesperidose\nRegistry id: vr.tr.neohesperidose\nPlane / domain: PHY / PHY.MAT\nRegistry definition: (none recorded)\nNames folded into this entry: (no" } }, "enrichment": { "pass": 3, "engine": "claude", "producedAt": "2026-10-06T12:00:00Z", "ingestedAt": "2026-10-06T08:51:02+00:00", "fields": [ "agent_conduct", "ethics", "failure_modes_and_hazards", "owners" ] }, "gate": { "passed": true, "version": "1.0", "at": "2026-10-07T10:10:30+00:00", "evidence": [ "completeness 1.00", "sense: Wikidata description", "2 live sources", "review by codex: pass" ] } }, "metaModel": { "id": "THING-Q3347120", "registryId": "vr.tr.neohesperidose", "name": "neohesperidose", "version": "0.1.0-research.1", "entryKind": "thing", "family": "Thing Registry", "domain": [ "PHY.MAT" ], "status": "research-draft" }, "canonicalUrl": "https://ver.cy/models/thing/q3347120/", "model": { "registry_id": "vr.tr.neohesperidose", "name": "neohesperidose", "purpose": "Enable an agent to identify neohesperidose, assess a particular sample and determine its suitability for carbohydrate analysis or transformation.", "definition": "Neohesperidose is a reducing disaccharide composed of an α-L-rhamnopyranosyl residue linked through an α-(1→2) glycosidic bond to D-glucose.", "scope_statement": "This model owns vr.tr.neohesperidose in PHY / PHY.MAT: the free disaccharide, its defining linkage and stereochemistry, sample composition, condition-dependent properties and evidence supporting use.", "in_scope": [ "Molecular identity and differentiation from other rhamnose-glucose disaccharides", "Free reducing-end configuration and solution composition", "Sample purity, water content and related carbohydrate impurities", "Analytical identification and condition-dependent physical properties", "Provenance, transformation suitability and documented handling constraints" ], "out_of_scope": [ "Complete neohesperidoside molecules, including their aglycones", "Biological activity or taste of neohesperidose-containing glycosides", "Citrus tissues, extracts and formulated products containing related compounds", "Manufacturing equipment and complete synthesis processes", "Rutinose and other independently identified disaccharides" ], "distinguishing_features": [ "Establish α-L-rhamnopyranosyl attachment at glucose O-2; rutinose instead has attachment at O-6. [Primary synthesis study](https://www.tandfonline.com/doi/pdf/10.1080/00021369.1967.10858804)", "Confirm L-rhamnose and D-glucose stereochemistry; monosaccharide names without configuration are insufficient.", "Distinguish the free sugar from an aglycone-bound neohesperidosyl residue by examining substitution at the glucose anomeric position.", "Use linkage-sensitive evidence alongside composition: molecular formula C12H22O10 alone does not establish identity. [PubChem](https://pubchem.ncbi.nlm.nih.gov/compound/441426)" ], "characteristics": [ { "name": "Inter-residue linkage", "kind": "category", "unit_or_values": "α-L-rhamnopyranosyl-(1→2)-D-glucose; confirmed or unresolved", "why_it_matters": "Defines the intended disaccharide and separates positional linkage isomers." }, { "name": "Glucose reducing-end state", "kind": "state", "unit_or_values": "Free end with measured or unspecified anomer distribution; derivatized; aglycone-bound", "why_it_matters": "Controls whether the material belongs to the free-sugar model and how analytical results should be interpreted." }, { "name": "Identifier correspondence", "kind": "relation", "unit_or_values": "Registry id linked to verified database records, structures and stereochemical scope", "why_it_matters": "Prevents an anomer-specific database representation from silently narrowing the registry concept." }, { "name": "Neohesperidose assay", "kind": "measurement", "unit_or_values": "% mass fraction or molar fraction, with method and as-received or dry basis", "why_it_matters": "Supports preparation of known concentrations and comparison of lots." }, { "name": "Related carbohydrate profile", "kind": "measurement", "unit_or_values": "Individual concentrations of rhamnose, glucose, linkage isomers and residual glycosides", "why_it_matters": "Reveals incomplete purification, cleavage or misidentification." }, { "name": "Water and solvent content", "kind": "measurement", "unit_or_values": "% mass fraction, with analytical method", "why_it_matters": "Affects weighed concentration, apparent purity and storage assessment." }, { "name": "Solution condition", "kind": "state", "unit_or_values": "Solvent, concentration, pH where applicable, temperature and elapsed time since dissolution", "why_it_matters": "Makes anomer-sensitive and stability-sensitive measurements interpretable." }, { "name": "Physical-property evidence", "kind": "measurement", "unit_or_values": "Solubility in g/L; thermal events in °C; specific rotation with stated units and conditions", "why_it_matters": "Supports dissolution and identification without treating undocumented constants as established." }, { "name": "Handling classification", "kind": "category", "unit_or_values": "Source-backed classification by jurisdiction and sample form; unknown when unsupported", "why_it_matters": "Separates documented handling requirements from assumptions based on other sugars." } ], "affordances": [ "Compare a candidate structure or sample against the defining linkage and stereochemistry.", "Select complementary analytical evidence that distinguishes linkage isomers and residual glycosides.", "Calculate preparation quantities using measured assay and water content.", "Assess suitability as a carbohydrate reference material or reaction substrate.", "Track changes in anomer distribution and carbohydrate impurities during storage or treatment." ], "agent_conduct": { "may": [ "Describe neohesperidose and its occurrence in citrus flavonoid glycosides.", "Track samples in an authorized laboratory inventory with label and source." ], "must_not": [ "Confuse it with rutinose or other rhamnosyl glucose disaccharides in records.", "Report identity or purity of a sample without analysis.", "Present products containing it as having proven health effects without evidence." ], "requires_human": [ "Supplying it for use in food or tests on people." ] }, "ethics": { "considerations": [ "Research results depend on reagents being exactly what their labels say.", "Food and supplement claims should follow evidence." ], "affected_parties": [ "Researchers", "Consumers" ] }, "owners": { "steward": "Nobody owns the compound; the laboratory or supplier answers for each sample.", "master_systems": [] }, "failure_modes_and_hazards": [ "Mix-ups with isomeric disaccharides corrupt analytical results." ], "what_it_is_for": [ "Neohesperidose is encountered in carbohydrate chemistry and studies of glycosides containing its linked sugar residues.", "Isolated samples can support analytical comparisons and research on glycosidic linkage recognition or transformation." ], "standards_and_regulation": [ "Regulation (EC) No 1272/2008, adopted by the European Parliament and the Council of the European Union, governs classification, labelling and packaging when the substance is supplied within its scope." ], "facets_not_applicable": { "recognition": "Neohesperidose has no diagnostic visual appearance that reliably distinguishes it from other sugars, so identification requires chemical analysis." } }, "sources": [ { "id": "wikidata", "title": "Wikidata item Q3347120: neohesperidose", "url": "https://www.wikidata.org/wiki/Q3347120", "url_status": "live", "what_it_supports": "identity and sense of the item", "checked_by": "wikidata-api" }, { "id": "wikipedia-en", "title": "Wikipedia: Neohesperidose", "url": "https://en.wikipedia.org/wiki/Neohesperidose", "url_status": "live", "what_it_supports": "general description of the item", "checked_by": "wikidata-api sitelink" } ], "structure": { "bundles": [ { "id": "molecular-identity", "name": "Molecular identity", "description": "Defines which molecular structures belong to neohesperidose.", "rationale": "Rhamnose-glucose composition alone cannot resolve linkage, stereochemistry or free-sugar boundaries.", "layers": [ { "id": "linkage-and-stereochemistry", "name": "Linkage and stereochemistry", "description": "Captures the structural features that distinguish this disaccharide.", "findings": [ { "id": "defining-rhamnose-glucose-linkage", "name": "Defining rhamnose-glucose linkage", "description": "The identity anchor is 2-O-α-L-rhamnopyranosyl-D-glucose. [Primary structural synthesis study](https://www.tandfonline.com/doi/pdf/10.1080/00021369.1967.10858822)", "questions": [ { "text": "What evidence establishes rhamnose C-1 attachment to glucose O-2?", "kind": "definition", "id": "defining-rhamnose-glucose-linkage-q01" }, { "text": "Which measurements or reference comparisons establish the α linkage and L-rhamnose/D-glucose configurations?", "kind": "measurement", "id": "defining-rhamnose-glucose-linkage-q02" } ] } ] }, { "id": "free-sugar-and-record-boundaries", "name": "Free sugar and record boundaries", "description": "Separates the registry concept from anomer-specific records and bound residues.", "findings": [ { "id": "reducing-end-identity-scope", "name": "Reducing-end identity scope", "description": "Record glucose anomer specification explicitly; PubChem CID 441426 includes a β-D-glucopyranose representation that must be reconciled with the registry's unspecified name. [PubChem](https://pubchem.ncbi.nlm.nih.gov/compound/441426)", "questions": [ { "text": "Does each linked identifier describe an unspecified reducing end, a particular anomer or a derivative?", "kind": "boundary", "id": "reducing-end-identity-scope-q01" }, { "text": "Is the glucose anomeric position free or attached to an aglycone or other substituent?", "kind": "definition", "id": "reducing-end-identity-scope-q02" } ] } ] } ] }, { "id": "sample-composition-and-authentication", "name": "Sample composition and authentication", "description": "Determines what a supplied or isolated sample contains and how securely it is identified.", "rationale": "A nominal neohesperidose label does not establish linkage identity, assay or absence of related carbohydrates.", "layers": [ { "id": "structural-authentication", "name": "Structural authentication", "description": "Connects the identity assignment to discriminating analytical evidence.", "findings": [ { "id": "orthogonal-identity-evidence", "name": "Orthogonal identity evidence", "description": "Require evidence appropriate to composition, linkage and configuration rather than accepting a matching mass as complete identification.", "questions": [ { "text": "Which NMR assignments or validated reference comparisons discriminate the 1→2 linkage from alternatives?", "kind": "measurement", "id": "orthogonal-identity-evidence-q01" }, { "text": "What is the provenance and identity confidence of the reference material used?", "kind": "provenance", "id": "orthogonal-identity-evidence-q02" } ] } ] }, { "id": "assay-and-impurities", "name": "Assay and impurities", "description": "Describes usable sugar content and contaminants relevant to the preparation route.", "findings": [ { "id": "quantified-carbohydrate-composition", "name": "Quantified carbohydrate composition", "description": "Record assay basis, water content and measured related sugars; distinguish chromatographic area percentage from mass purity.", "questions": [ { "text": "What neohesperidose content is established on an as-received and, where available, dry basis?", "kind": "measurement", "id": "quantified-carbohydrate-composition-q01" }, { "text": "Does the method resolve and quantify glucose, rhamnose, linkage isomers and any residual parent glycosides?", "kind": "measurement", "id": "quantified-carbohydrate-composition-q02" } ] } ] } ] }, { "id": "physical-state-and-stability", "name": "Physical state and stability", "description": "Records the conditions under which the sample's physical and analytical properties apply.", "rationale": "Dissolution, reducing-end equilibration and degradation can change results without changing the intended registry identity.", "layers": [ { "id": "solid-and-solution-properties", "name": "Solid and solution properties", "description": "Captures measured sample form and preparation-relevant properties.", "findings": [ { "id": "conditioned-property-record", "name": "Conditioned property record", "description": "Attach solvent, temperature, sample form and method to solubility and thermal observations; do not supply unsupported constants.", "questions": [ { "text": "What solid form, water content and thermal events were actually observed for this lot?", "kind": "measurement", "id": "conditioned-property-record-q01" }, { "text": "At what solvent composition and temperature does the intended concentration dissolve completely?", "kind": "action", "id": "conditioned-property-record-q02" } ] } ] }, { "id": "solution-evolution", "name": "Solution evolution", "description": "Distinguishes reducing-end equilibration from loss of disaccharide integrity.", "findings": [ { "id": "anomer-and-degradation-tracking", "name": "Anomer and degradation tracking", "description": "Track time-dependent anomer-sensitive signals separately from formation of cleavage products or other impurities.", "questions": [ { "text": "How do measured anomer populations or optical rotation change after dissolution under the stated conditions?", "kind": "measurement", "id": "anomer-and-degradation-tracking-q01" }, { "text": "What evidence distinguishes equilibration from hydrolysis or other sample degradation?", "kind": "boundary", "id": "anomer-and-degradation-tracking-q02" } ] } ] } ] }, { "id": "provenance-and-use-decisions", "name": "Provenance and use decisions", "description": "Relates sample origin and documented constraints to proposed analytical or chemical use.", "rationale": "Preparation history affects impurity expectations, while suitability must be demonstrated for the free disaccharide.", "layers": [ { "id": "preparation-and-transformation", "name": "Preparation and transformation", "description": "Links the sample to its preparation route and intended carbohydrate chemistry.", "findings": [ { "id": "route-specific-suitability", "name": "Route-specific suitability", "description": "Record whether the sample was synthesized or released from a precursor and whether the intended treatment preserves or cleaves the inter-sugar linkage.", "questions": [ { "text": "Which precursor, preparation record and purification evidence account for this lot?", "kind": "provenance", "id": "route-specific-suitability-q01" }, { "text": "What evidence shows the proposed transformation has the required selectivity for this substrate?", "kind": "action", "id": "route-specific-suitability-q02" } ] } ] }, { "id": "documented-handling-and-qualification", "name": "Documented handling and qualification", "description": "Records evidence needed to handle and qualify the actual material.", "findings": [ { "id": "sample-specific-use-constraints", "name": "Sample-specific use constraints", "description": "Use applicable safety documentation and assay requirements; do not transfer food-use, sweetness or biological claims from related glycosides.", "questions": [ { "text": "Which safety document, jurisdiction and verified chemical identifiers apply to this sample?", "kind": "provenance", "id": "sample-specific-use-constraints-q01" }, { "text": "What assay, impurity, storage and stability criteria must this lot meet for the intended use?", "kind": "action", "id": "sample-specific-use-constraints-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 description is recalled knowledge, not a source-verified account.", "Verify registry identifiers, physical constants, commercial grades and hazard classifications before adding them.", "Distinguish the free reducing sugar from its glycosidically bound residue when interpreting analytical records." ], "questions": [ { "id": "evidence-confidence-notes-q01", "text": "Which of these check these first hold for the sense of neohesperidose 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": "Carbohydrate structural nomenclature", "value_or_pattern": "α-L-rhamnopyranosyl-(1→2)-D-glucose", "note": "Specifies the constituent sugars, their stereochemistry and the linkage position." }, { "scheme": "Molecular formula", "value_or_pattern": "C12H22O10", "note": "Describes composition but does not distinguish neohesperidose from structural isomers." } ], "questions": [ { "id": "evidence-identifiers-q01", "text": "Which of these identifiers and schemes hold for the sense of neohesperidose 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": [ "Its glycosyl residue occurs in flavonoid glycosides, including naringin and neohesperidin.", "Used in carbohydrate and glycoside research to investigate sugar linkages and enzymatic hydrolysis." ], "questions": [ { "id": "evidence-real-world-use-q01", "text": "Which of these real-world use hold for the sense of neohesperidose 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": "Molar mass", "typical_range": "326.30", "unit": "g/mol" } ], "questions": [ { "id": "evidence-measurements-q01", "text": "Which of these typical measurements hold for the sense of neohesperidose 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": [ "Hydrolysis cleaves the glycosidic bond, yielding rhamnose and glucose.", "Confusion with rutinose can cause incorrect assignment of a flavonoid glycoside's sugar linkage." ], "questions": [ { "id": "evidence-failure-modes-and-hazards-q01", "text": "Which of these failure modes and hazards hold for the sense of neohesperidose 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": "rutinose", "difference": "Contains the same constituent sugars, but rhamnose is linked to glucose at position 6 rather than position 2." }, { "name": "neohesperidin", "difference": "A flavonoid glycoside bearing a neohesperidose-derived sugar residue, rather than the free disaccharide." }, { "name": "naringin", "difference": "A glycoside of naringenin bearing a neohesperidose-derived sugar residue, rather than the free disaccharide." } ], "questions": [ { "id": "evidence-neighbours-q01", "text": "Which of these neighbouring kinds and how to tell them apart hold for the sense of neohesperidose this model covers, and on what evidence?", "kind": "provenance" } ] } ] } ] } ] }, "openQuestions": [ "Does the registry intend the free reducing sugar across anomeric states, and how should anomer-specific database records map to it?", "Which CAS and EC identifiers are authoritative for that scope rather than a particular representation or derivative?", "Which experimental sources establish solubility, thermal behavior and specific rotation under fully stated conditions?", "What validated methods and reference materials quantify neohesperidose while resolving linkage isomers and precursor residues?", "What substance-specific safety classifications, exposure limits if any, and storage-stability evidence are available?" ], "statistics": { "bundles": 5, "layers": 9, "findings": 14, "questions": 22 } }