{ "model": { "rank": 6303, "code": "thing-q183290", "model_id": "vr.tr.l-serine", "name": "L-serine", "purpose": "Enable an AI agent to recognise L-serine, assess the identity and condition of a particular material, and determine which handling or use decisions its evidence supports.", "family": "Thing Registry", "category": "Physical world and living systems", "status": "research-draft", "kind": "thing", "plane": "PHY", "domain": "PHY.MAT", "industry": "", "version": "", "url": "/models/thing/q183290/", "tier": 2, "score": 61, "payload": { "layer": "wikidata", "aliases": [], "aliasCount": 0, "merged": 0, "knownIn": 61, "facets": null, "markers": [], "lexicalClass": "", "senseRank": null, "alsoRegisteredAs": null, "source": { "dataset": "wikidata", "item": "Q183290", "url": "https://www.wikidata.org/wiki/Q183290", "license": "CC0 1.0" } }, "research": { "vercy": "1.0-draft", "publication": { "status": "research-draft", "adjudicationStatus": "unreviewed", "publishableCanonical": false, "generatedAt": "2026-09-07T13:42:55Z", "providers": [ "Codex", "Grok" ], "missingProviders": [], "pass": 2, "cost": { "grok": { "usd": 0.04179166, "turns": 2, "seconds": 136.7, "error": null }, "codex": { "seconds": 83.7, "error": "Reading additional input from stdin...\nOpenAI Codex v0.153.3\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: 01a07c19-77a2-75d3-b34d-37163208d457\n--------\nuser\nYou are drafting a Vercy meta-model for one registered thing. Answer as JSON only, no prose around it.\n\nThing: L-serine\nRegistry id: vr.tr.l-serine\nPlane / domain: PHY / PHY.MAT\nRegistry definition: (none recorded)\nNames folded into this entry: (none)\n\nA Vercy" } } }, "metaModel": { "id": "THING-Q183290", "registryId": "vr.tr.l-serine", "name": "L-serine", "version": "0.1.0-research.1", "entryKind": "thing", "family": "Thing Registry", "domain": [ "PHY.MAT" ], "status": "research-draft" }, "canonicalUrl": "https://ver.cy/models/thing/q183290/", "model": { "registry_id": "vr.tr.l-serine", "name": "L-serine", "purpose": "Enable an AI agent to recognise L-serine, assess the identity and condition of a particular material, and determine which handling or use decisions its evidence supports.", "definition": "L-serine is the proteinogenic (2S)-2-amino-3-hydroxypropanoic acid: a polar, non-essential α-amino acid whose hydroxymethyl side chain is encoded by UCU/C/A/G and AGU/C and which is the biosynthetic precursor of glycine, cysteine, sphingolipids, phosphatidylserine, and one-carbon units.", "scope_statement": "This model owns vr.tr.l-serine in PHY / PHY.MAT: its chemical identity, stereochemical specificity, material state, analytical evidence and suitability for a stated operation, with explicit boundaries to mixtures, derivatives and biological systems.", "in_scope": [ "Identification of free L-serine and discrimination from unspecified serine, D-serine and DL-serine", "Chemical assay, enantiomeric composition and relevant impurities in L-serine material", "Solid or dissolved state, water content and solution conditions", "Lot origin, processing history and evidence supporting grade claims", "Condition-dependent handling, preparation and fitness for a specified use" ], "out_of_scope": [ "Independent models of D-serine and racemic DL-serine", "Serine residues within peptides and proteins", "Covalently modified serine derivatives and separately identified salt products", "Complete formulations, culture media and biological specimens containing L-serine", "Organism-level serine metabolism, clinical interpretation and treatment decisions" ], "distinguishing_features": [ "Match molecular connectivity to (S)-2-amino-3-hydroxypropanoic acid; formula C3H7NO3 alone cannot establish L-serine identity. [PubChem](https://pubchem.ncbi.nlm.nih.gov/compound/5951)", "Require evidence resolving the L and D enantiomers before distinguishing L-serine from D-serine or a DL mixture. [ChEBI](https://www.ebi.ac.uk/chebi/CHEBI%3A17115)", "Check for the hydroxymethyl side chain in the reference structure rather than accepting a generic amino-acid identification. [PubChem](https://pubchem.ncbi.nlm.nih.gov/compound/5951)", "Establish whether the observation concerns free serine or a peptide-bound or covalently modified entity; a functional-parent relationship does not establish identical material identity. [ChEBI](https://www.ebi.ac.uk/chebi/CHEBI%3A17115)", "Distinguish protonation representations from separately formulated salts: L-serine, its zwitterion, L-serinium and L-serinate have explicit chemical relationships that must remain visible. [ChEBI](https://www.ebi.ac.uk/chebi/CHEBI%3A17115)" ], "characteristics": [ { "name": "Chemical identity evidence", "kind": "relation", "unit_or_values": "Structure-specific reference linked to an observed identity test", "why_it_matters": "Connects the name L-serine to evidence about the material actually present." }, { "name": "Stereochemical assignment", "kind": "category", "unit_or_values": "L confirmed; L claimed; mixed enantiomers; unresolved; conflicting", "why_it_matters": "Prevents an unspecified serine result from being accepted as L-serine." }, { "name": "Enantiomeric composition", "kind": "measurement", "unit_or_values": "L and D mole fractions or percentages, with method and quantification limits", "why_it_matters": "Makes D-serine content visible independently of total serine assay." }, { "name": "Serine assay", "kind": "measurement", "unit_or_values": "Mass %, specifying as-received or dry basis and whether the method resolves enantiomers", "why_it_matters": "Avoids treating total serine content as a measurement of L-serine alone." }, { "name": "Water content", "kind": "measurement", "unit_or_values": "Mass %, with method and sampling date", "why_it_matters": "Supports correct weighing and comparison of assay bases." }, { "name": "Material presentation", "kind": "state", "unit_or_values": "Solid; solution; suspension; other documented state", "why_it_matters": "Determines which sampling, concentration and handling observations are needed." }, { "name": "Solution concentration", "kind": "measurement", "unit_or_values": "mol/L or g/L, with solvent, temperature and preparation basis", "why_it_matters": "Supports preparation and transfer of a known amount of dissolved L-serine." }, { "name": "Solution acidity", "kind": "measurement", "unit_or_values": "pH, with temperature, solvent system and measurement method", "why_it_matters": "Provides context for protonation, compatibility and analytical interpretation." }, { "name": "Non-serine impurity profile", "kind": "measurement", "unit_or_values": "Named analytes in mass %, mg/kg or method-specific units, including reporting limits", "why_it_matters": "Allows impurity acceptance to follow the intended use rather than a single purity label." }, { "name": "Lot and processing lineage", "kind": "relation", "unit_or_values": "Supplier lot, documented production route, certificate and subsequent preparation events", "why_it_matters": "Connects observations to the correct material and directs route-specific verification." }, { "name": "Use-specific disposition", "kind": "state", "unit_or_values": "Unassessed; supported for named use; restricted; quarantined; rejected", "why_it_matters": "Expresses an actionable conclusion without treating suitability as a universal property." } ], "affordances": [ "Compare identity and chiral evidence to accept, question or reject an L-serine assignment", "Calculate a weighed quantity or dilution using the relevant assay, water content and concentration basis", "Select further analyses when D-serine, other impurities or the measurement basis remain unresolved", "Prepare, dissolve or aliquot material under a documented procedure with traceable composition", "Release, restrict or quarantine a lot against requirements for a named application", "Link a chemical transformation or biological experiment to its consumed L-serine material and separately modelled products or system" ] }, "sources": [ { "id": "wikipedia-serine", "title": "Serine", "url": "https://en.wikipedia.org/wiki/Serine", "what_it_supports": "Definition, stereochemistry, biosynthesis, proteinogenic role, identifiers, physical constants, D- versus L-serine biology, serine-deficiency disorders, industrial preparation from glycine and methanol.", "url_status": "live" }, { "id": "pubchem-5951", "title": "L-Serine | C3H7NO3 | CID 5951", "url": "https://pubchem.ncbi.nlm.nih.gov/compound/5951", "what_it_supports": "IUPAC name (2S)-2-amino-3-hydroxypropanoic acid, formula, mass, PubChem CID, InChIKey, MeSH, food-additive and drug database crosswalks.", "url_status": "live" }, { "id": "chebi-17115", "title": "L-serine (CHEBI:17115)", "url": "https://www.ebi.ac.uk/chebi/searchId.do?chebiId=CHEBI:17115", "what_it_supports": "ChEBI definition as the L-enantiomer of serine; roles as proteinogenic amino acid and human metabolite; KEGG, DrugBank, HMDB cross-references.", "url_status": "live" }, { "id": "usp-nf-serine", "title": "USP-NF monograph: Serine", "url": "https://doi.org/10.31003/USPNF_M75070_05_01", "what_it_supports": "Pharmacopeial identity of Serine as l-serine CAS 56-45-1; assay 98.5-101.5% on the dried basis; specific rotation, loss on drying, residue on ignition, iron and related-compound limits.", "url_status": "live" }, { "id": "21cfr-172-320", "title": "21 CFR § 172.320 - Amino acids", "url": "https://www.law.cornell.edu/cfr/text/21/172.320", "what_it_supports": "US food-additive listing of L-serine as a nutrient amino acid, FCC specification pointer, and maximum 8.4% of total protein as free L-serine.", "url_status": "live" }, { "id": "fda-eafus-l-serine", "title": "Substances Added to Food: L-SERINE", "url": "https://www.hfpappexternal.fda.gov/scripts/fdcc/index.cfm?set=FoodSubstances&id=SERINE", "what_it_supports": "FDA technical effects: flavour enhancer, flavouring agent or adjuvant, nutrient supplement; CAS 56-45-1; citation of 21 CFR 172.320.", "url_status": "live" }, { "id": "usp-sds-l-serine", "title": "Safety Data Sheet: L-Serine (USP Reference Standard 1612506)", "url": "https://static.cymitquimica.com/products/45/pdf/sds-1612506.pdf", "what_it_supports": "CAS 56-45-1, not GHS-classified as a physical or health hazard, rat oral LD50 >2000 mg/kg (also reported 14000 mg/kg).", "url_status": "live" } ], "structure": { "bundles": [ { "id": "serine-identity-and-boundaries", "name": "Serine identity and boundaries", "description": "Establish what the L-serine designation refers to in the observed material.", "rationale": "Serine names can conceal unresolved stereochemistry, bound residues or distinct chemical products.", "layers": [ { "id": "molecular-and-chiral-identity", "name": "Molecular and chiral identity", "description": "Separate evidence for serine connectivity from evidence for the L configuration.", "findings": [ { "id": "supported-l-serine-assignment", "name": "Supported L-serine assignment", "description": "Record the reference identity, observed analytical agreement and strength of stereochemical assignment.", "questions": [ { "text": "Which structure-specific reference defines the material called L-serine?", "kind": "definition", "id": "supported-l-serine-assignment-q01" }, { "text": "Which observations establish serine connectivity and which independently resolve L from D?", "kind": "measurement", "id": "supported-l-serine-assignment-q02" }, { "text": "Does the identification describe this sample or only repeat its supplier label?", "kind": "provenance", "id": "supported-l-serine-assignment-q03" } ] } ] }, { "id": "free-serine-and-related-entities", "name": "Free serine and related entities", "description": "Locate the boundary between L-serine material and related chemical or composite entities.", "findings": [ { "id": "entity-boundary-assignment", "name": "Entity boundary assignment", "description": "State whether the record concerns free L-serine, its solution speciation or a neighbouring entity requiring a relationship.", "questions": [ { "text": "Is the measured serine free, peptide-bound or released by sample hydrolysis?", "kind": "boundary", "id": "entity-boundary-assignment-q01" }, { "text": "Are counterions or covalent modifications present that require a separate product identity?", "kind": "boundary", "id": "entity-boundary-assignment-q02" }, { "text": "Which protonation representations belong within this registry entry and which require linked entities?", "kind": "definition", "id": "entity-boundary-assignment-q03" } ] } ] } ] }, { "id": "serine-content-and-selectivity", "name": "Serine content and selectivity", "description": "Determine how much L-serine is present and what the analytical results actually distinguish.", "rationale": "Total serine, L-serine content and enantiomeric purity answer different acceptance questions.", "layers": [ { "id": "chemical-assay-and-mass-basis", "name": "Chemical assay and mass basis", "description": "Make assay values interpretable for weighing and comparison.", "findings": [ { "id": "interpretable-serine-assay", "name": "Interpretable serine assay", "description": "Record analyte definition, reporting basis, calibration and uncertainty before using an assay quantitatively.", "questions": [ { "text": "Does the reported assay quantify L-serine specifically, total serine or a less selective response?", "kind": "measurement", "id": "interpretable-serine-assay-q01" }, { "text": "Is the value a mass fraction, chromatographic area percentage or another quantity, and is it corrected for water?", "kind": "measurement", "id": "interpretable-serine-assay-q02" }, { "text": "What reference standard and uncertainty support conversion from weighed material to L-serine amount?", "kind": "provenance", "id": "interpretable-serine-assay-q03" } ] } ] }, { "id": "enantiomer-and-impurity-resolution", "name": "Enantiomer and impurity resolution", "description": "Assess D-serine and other constituents separately from the main assay.", "findings": [ { "id": "resolved-enantiomeric-composition", "name": "Resolved enantiomeric composition", "description": "Determine whether the chiral result supports the required L-serine fraction.", "questions": [ { "text": "What L-to-D composition was measured, with what separation performance and quantification limit?", "kind": "measurement", "id": "resolved-enantiomeric-composition-q01" }, { "text": "If optical rotation supports identification, what solvent, concentration, temperature and reference conditions were used?", "kind": "measurement", "id": "resolved-enantiomeric-composition-q02" } ] }, { "id": "use-relevant-impurities", "name": "Use-relevant impurities", "description": "Connect impurity coverage to the production route and proposed application.", "questions": [ { "text": "Which other amino acids, residual reagents, solvents, inorganic constituents or biological contaminants require investigation for this lot?", "kind": "provenance", "id": "use-relevant-impurities-q01" }, { "text": "Which impurity results and reporting limits satisfy the named application's acceptance criteria?", "kind": "action", "id": "use-relevant-impurities-q02" } ] } ] } ] }, { "id": "solid-and-solution-behaviour", "name": "Solid and solution behaviour", "description": "Describe the material conditions needed to sample, weigh and prepare L-serine reliably.", "rationale": "A solid lot and a prepared solution require different evidence about amount, homogeneity and chemical environment.", "layers": [ { "id": "solid-material-condition", "name": "Solid material condition", "description": "Assess water, physical presentation and sampling representativeness.", "findings": [ { "id": "representative-solid-quantity", "name": "Representative solid quantity", "description": "Establish whether the sampled solid and its measured mass support the intended preparation.", "questions": [ { "text": "What water content and visible heterogeneity were observed in the solid at sampling?", "kind": "measurement", "id": "representative-solid-quantity-q01" }, { "text": "Do particle form, caking or segregation require a different sampling or dissolution procedure?", "kind": "action", "id": "representative-solid-quantity-q02" } ] } ] }, { "id": "dissolution-and-solution-speciation", "name": "Dissolution and solution speciation", "description": "Capture the conditions defining dissolved L-serine and the evidence for a homogeneous preparation.", "findings": [ { "id": "defined-serine-solution", "name": "Defined serine solution", "description": "Record solvent, concentration, pH, temperature and additions that determine the usable preparation.", "questions": [ { "text": "At the intended concentration, solvent composition and temperature, was complete dissolution demonstrated?", "kind": "measurement", "id": "defined-serine-solution-q01" }, { "text": "What pH and acid, base or buffer additions define the solution environment?", "kind": "measurement", "id": "defined-serine-solution-q02" }, { "text": "Does the preparation now require a linked mixture record to preserve its full composition?", "kind": "boundary", "id": "defined-serine-solution-q03" } ] } ] } ] }, { "id": "lot-history-and-condition-retention", "name": "Lot history and condition retention", "description": "Connect present L-serine condition to its origin and subsequent handling.", "rationale": "A certificate supports a particular lot and time; later preparation or exposure can require renewed evidence.", "layers": [ { "id": "production-and-certificate-lineage", "name": "Production and certificate lineage", "description": "Identify the origin and evidence behind claims about L-serine grade and composition.", "findings": [ { "id": "traceable-l-serine-lot", "name": "Traceable L-serine lot", "description": "Associate the material with its actual certificate, production information and verification gaps.", "questions": [ { "text": "Which supplier lot and certificate apply to the container or aliquot being assessed?", "kind": "provenance", "id": "traceable-l-serine-lot-q01" }, { "text": "What production or purification route is documented, and which claimed attributes remain unverified?", "kind": "provenance", "id": "traceable-l-serine-lot-q02" } ] } ] }, { "id": "storage-and-preparation-history", "name": "Storage and preparation history", "description": "Evaluate whether handling history affects continued reliance on previous results.", "findings": [ { "id": "continued-condition-support", "name": "Continued condition support", "description": "Record relevant exposures and determine whether assay, chiral composition or contamination controls need reassessment.", "questions": [ { "text": "What storage, opening, heating, dissolution, pH adjustment or sterilisation events occurred after the last accepted analysis?", "kind": "provenance", "id": "continued-condition-support-q01" }, { "text": "What evidence supports retained L-serine content, stereochemical composition and required cleanliness after those events?", "kind": "measurement", "id": "continued-condition-support-q02" }, { "text": "Which observed change or elapsed interval requires retesting or quarantine under the applicable procedure?", "kind": "action", "id": "continued-condition-support-q03" } ] } ] } ] }, { "id": "l-serine-use-decisions", "name": "L-serine use decisions", "description": "Translate the material evidence into a justified decision for a specified operation.", "rationale": "L-serine identity alone does not establish fitness as a synthesis input, analytical reference, culture ingredient or other material.", "layers": [ { "id": "application-specific-acceptance", "name": "Application-specific acceptance", "description": "Bind acceptance to concrete requirements for the proposed use.", "findings": [ { "id": "supported-use-disposition", "name": "Supported use disposition", "description": "Compare the lot's evidence with the required assay, stereochemical, impurity and handling criteria.", "questions": [ { "text": "What operation requires this L-serine, and which specification or protocol governs acceptance?", "kind": "action", "id": "supported-use-disposition-q01" }, { "text": "Which requirements for D-serine content, other impurities or biological cleanliness are met, failed or unmeasured?", "kind": "measurement", "id": "supported-use-disposition-q02" }, { "text": "Do the remaining evidence gaps permit use, require restrictions or require quarantine?", "kind": "action", "id": "supported-use-disposition-q03" } ] } ] }, { "id": "preparation-and-transformation-boundaries", "name": "Preparation and transformation boundaries", "description": "Define the next permitted operation and preserve identity through preparation or chemical consumption.", "findings": [ { "id": "justified-material-operation", "name": "Justified material operation", "description": "Specify the evidence and procedure needed to weigh, dissolve, transfer or consume the material.", "questions": [ { "text": "What assay and water corrections are needed to deliver the requested amount of L-serine?", "kind": "action", "id": "justified-material-operation-q01" }, { "text": "Which handling and compatibility instructions apply to this supplied form and planned operation?", "kind": "action", "id": "justified-material-operation-q02" }, { "text": "Will the operation preserve free L-serine, create a mixture or form a distinct product requiring its own model?", "kind": "boundary", "id": "justified-material-operation-q03" } ] } ] } ] }, { "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-kinds", "name": "Kinds and varieties", "description": "Reported by the breadth pass; each item needs checking against its source before it becomes normative.", "evidence": [ "Free crystalline L-serine (commodity amino acid)", "Protein residue Ser/S, including O-phosphoserine sites", "Physiological zwitterion (dominant near pH 7.4)", "Fermentation-derived L-serine", "Protein-hydrolysis-derived L-serine", "Pharmacopeial (USP / Ph. Eur. / JP) grade", "Cell-culture / non-animal-source grade", "Food-additive nutrient and flavouring grade" ], "questions": [ { "id": "evidence-kinds-q01", "text": "Which of these kinds and varieties hold for the sense of L-serine this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-identifiers", "name": "Identifiers and schemes", "description": "Reported by the breadth pass; each item needs checking against its source before it becomes normative.", "evidence": [ { "scheme": "CAS Registry Number", "value_or_pattern": "56-45-1", "note": "L-serine specifically; racemate is 302-84-1 and D-serine is 312-84-5." }, { "scheme": "PubChem CID", "value_or_pattern": "5951", "note": "L-Serine." }, { "scheme": "ChEBI", "value_or_pattern": "CHEBI:17115", "note": "L-serine (the L-enantiomer of serine)." }, { "scheme": "Wikidata", "value_or_pattern": "Q183290", "note": "Serine item; the proteinogenic default is the L-form." }, { "scheme": "UNII (FDA SRS)", "value_or_pattern": "452VLY9402", "note": "L-serine; racemate UNII is 00PAR1C66F." }, { "scheme": "EC / EINECS", "value_or_pattern": "200-274-3", "note": "Also ECHA InfoCard 100.000.250." }, { "scheme": "InChIKey", "value_or_pattern": "MTCFGRXMJLQNBG-REOHCLBHSA-N", "note": "Stereospecific key for the L-enantiomer." }, { "scheme": "IUPAC-IUB residue symbols", "value_or_pattern": "Ser or S", "note": "Three- and one-letter codes for the protein residue." }, { "scheme": "DrugBank", "value_or_pattern": "DB00133", "note": "L-serine drug record." }, { "scheme": "KEGG", "value_or_pattern": "C00065", "note": "Compound; KEGG DRUG D00016 also applies." } ], "questions": [ { "id": "evidence-identifiers-q01", "text": "Which of these identifiers and schemes hold for the sense of L-serine this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-standards-and-regulation", "name": "Standards and regulation", "description": "Reported by the breadth pass; each item needs checking against its source before it becomes normative.", "evidence": [ "USP-NF monograph Serine (l-serine) - United States Pharmacopeial Convention", "European Pharmacopoeia serine monograph, (2S)-2-amino-3-hydroxypropanoic acid, product of fermentation or protein hydrolysis - EDQM", "Japanese Pharmacopoeia listing of serine as a drug substance - PMDA / JP", "21 CFR 172.320 Amino acids, including L-serine as a food-additive nutrient (max 8.4% of total protein as free amino acid) - US FDA", "Food Chemicals Codex L-Serine specifications, incorporated by reference in 21 CFR 172.320 - USP/FCC", "IUPAC-IUB Recommendations 1983 on amino-acid nomenclature and Ser/S symbols - IUPAC-IUB Joint Commission on Biochemical Nomenclature", "REACH/CLP identity EC 200-274-3; typical SDS does not classify L-serine as a GHS hazard - ECHA" ], "questions": [ { "id": "evidence-standards-and-regulation-q01", "text": "Which of these standards and regulation hold for the sense of L-serine this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-real-world-use", "name": "Real-world use", "description": "Reported by the breadth pass; each item needs checking against its source before it becomes normative.", "evidence": [ "Incorporated into proteins as Ser/S; the side-chain hydroxyl is the nucleophile of serine proteases such as trypsin.", "Component of mammalian cell-culture media and of crystalline amino-acid blends for parenteral nutrition.", "US food additive used as a nutrient supplement and as a flavour enhancer/adjuvant under 21 CFR 172.320.", "Industrial manufacture from glycine and methanol using serine hydroxymethyltransferase; sold as USP, Ph. Eur., and non-animal-source grades.", "Oral supplement and investigational agent in L-serine biosynthesis defects and in ALS safety trials (e.g. NCT01835782).", "Metabolic precursor of phosphatidylserine, sphingolipids, glycine, cysteine, and folate one-carbon units.", "Historically isolated from silk protein (sericin) by Emil Cramer in 1865, which gave the compound its name." ], "questions": [ { "id": "evidence-real-world-use-q01", "text": "Which of these real-world use hold for the sense of L-serine this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-measurements", "name": "Typical measurements", "description": "Reported by the breadth pass; each item needs checking against its source before it becomes normative.", "evidence": [ { "quantity": "Molar mass", "typical_range": "105.09", "unit": "g·mol−1" }, { "quantity": "Pharmacopeial assay (USP, dried basis)", "typical_range": "98.5-101.5", "unit": "%" }, { "quantity": "Specific rotation (USP, 2 N HCl)", "typical_range": "+14.0 to +15.6", "unit": "°" }, { "quantity": "Loss on drying (105 °C, 3 h, USP)", "typical_range": "≤0.2", "unit": "%" }, { "quantity": "Residue on ignition (USP)", "typical_range": "≤0.1", "unit": "%" }, { "quantity": "Melting / decomposition temperature", "typical_range": "246 (decomposes)", "unit": "°C" }, { "quantity": "Density (22 °C)", "typical_range": "1.603", "unit": "g·cm−3" }, { "quantity": "pKa (carboxyl; amino)", "typical_range": "2.21; 9.15", "unit": "pKa units" }, { "quantity": "Food-use cap as free L-serine in protein (21 CFR 172.320)", "typical_range": "≤8.4", "unit": "% of total protein by weight" }, { "quantity": "Acute oral LD50 (rat)", "typical_range": ">2000 (also reported 14000)", "unit": "mg·kg−1" } ], "questions": [ { "id": "evidence-measurements-q01", "text": "Which of these typical measurements hold for the sense of L-serine this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-failure-modes-and-hazards", "name": "Failure modes and hazards", "description": "Reported by the breadth pass; each item needs checking against its source before it becomes normative.", "evidence": [ "Inherited defects of PHGDH, PSAT or PSPH collapse endogenous L-serine synthesis and present with congenital microcephaly, seizures and severe psychomotor delay.", "Neutral-amino-acid transporter defects similarly starve the CNS of L-serine.", "Enantiomeric contamination with D-serine changes NMDA-receptor pharmacology and fails the pharmacopeial optical-rotation window.", "Related amino-acid impurities, chloride, sulfate, iron and moisture push material out of USP/Ph. Eur. limits.", "The solid decomposes rather than melting cleanly near 246 °C.", "High oral supplemental doses have caused mild, dose-dependent gastrointestinal upset.", "Research reports that the cyanobacterial amino acid BMAA can be misincorporated in place of L-serine, producing misfolded protein; this is a hypothesized, not established, clinical hazard.", "Typical GHS classification is 'not classified'; irritation data on SDS remain incomplete, so handling still follows ordinary laboratory dust and hygiene controls." ], "questions": [ { "id": "evidence-failure-modes-and-hazards-q01", "text": "Which of these failure modes and hazards hold for the sense of L-serine this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-regional-variation", "name": "Regional variation", "description": "Reported by the breadth pass; each item needs checking against its source before it becomes normative.", "evidence": [ "USP titles the monograph 'Serine' but defines it as l-serine; Ph. Eur. uses the systematic name (2S)-2-amino-3-hydroxypropanoic acid and states origin as fermentation or protein hydrolysis.", "US food use is a listed additive under 21 CFR 172.320; other jurisdictions regulate crystalline amino acids mainly as foods, supplements or pharmaceutical starting materials rather than as a numbered flavouring.", "INN/USAN is serine; Spanish serina and Latin serinum appear in older pharmacopoeial and ChemIDplus synonym lists.", "French Sérine is also a wine-grape name and is not the amino acid." ], "questions": [ { "id": "evidence-regional-variation-q01", "text": "Which of these regional variation hold for the sense of L-serine this model covers, and on what evidence?", "kind": "provenance" } ] }, { "id": "evidence-neighbours", "name": "Neighbouring kinds and how to tell them apart", "description": "Reported by the breadth pass; each item needs checking against its source before it becomes normative.", "evidence": [ { "name": "D-serine", "difference": "Opposite configuration (CAS 312-84-5; InChIKey MTCFGRXMJLQNBG-UWTATZPHSA-N). Separated by specific rotation (L is dextro-rotatory in acid) or chiral HPLC; D-serine is the NMDA co-agonist, not the proteinogenic residue." }, { "name": "DL-serine (racemate)", "difference": "CAS 302-84-1; near-zero net optical rotation and a distinct InChIKey (MTCFGRXMJLQNBG-UHFFFAOYSA-N)." }, { "name": "L-threonine", "difference": "Has a 3-methyl substituent on the hydroxy-bearing carbon; different CAS (72-19-5) and is resolved by amino-acid chromatography or NMR." }, { "name": "Homoserine", "difference": "Hydroxy group is on the γ-carbon (HOCH2CH2-) rather than the β-carbon; mass and retention time differ from serine." }, { "name": "Isoserine", "difference": "Amino group is on the β-carbon (3-amino-2-hydroxypropanoic acid), not the α-carbon; distinguished by connectivity (NMR/MS) and by not being proteinogenic." }, { "name": "Glycine", "difference": "Lacks the hydroxymethyl side chain (C2 vs C3); serine hydroxymethyltransferase interconverts the two, but they separate cleanly on standard amino-acid analysers." }, { "name": "Sarin", "difference": "Organophosphorus nerve agent, not an amino acid; Wikipedia disambiguation only. Elemental analysis, IR and mass spectrum are unrelated." } ], "questions": [ { "id": "evidence-neighbours-q01", "text": "Which of these neighbouring kinds and how to tell them apart hold for the sense of L-serine this model covers, and on what evidence?", "kind": "provenance" } ] } ] } ] } ] }, "openQuestions": [ "Does an existing Vercy world model already own L-serine, and what registry boundary should apply to its protonation forms and salt products?", "Which authoritative analytical procedures adequately distinguish L-serine content, total serine assay and low-level D-serine for each intended application?", "What measured solubility and solution-stability evidence applies across the solvents, concentrations, pH values and temperatures actually required?", "Which storage and processing conditions measurably change water content, assay, stereochemical composition or contamination status, and what retest intervals are justified?", "Which current application-specific specifications establish acceptable impurity limits, grade claims and handling requirements for the supplied material?" ], "statistics": { "bundles": 6, "layers": 11, "findings": 19, "questions": 37 } }, "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 L-serine, record what state it is in, and decide what may be done with it.", "whatItIs": "Enable an AI agent to recognise L-serine, assess the identity and condition of a particular material, and determine which handling or use decisions its evidence supports.", "characteristics": { "substance": "material", "origin": "natural", "agency": "inert", "mobility": "varies" }, "whatYouCanDoWithIt": [ "observed and measured", "consumed or used up" ], "distinguishingFeatures": [ "Described in 61 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 L-serine, 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": [], "standing": "Described in 61 Wikipedia languages, which measures how widely it is written about rather than how important or how common it is.", "structure": { "bundles": [ { "id": "identity-and-classification", "name": "Identity, naming and classification", "description": "How an agent tells one L-serine from another, and a L-serine 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 L-serine, 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 L-serine, 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 L-serine 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 L-serine, 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 L-serine, 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 L-serine 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 L-serine 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 L-serine, 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 L-serine, 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 L-serine 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 L-serine from the things most often confused with it.", "questions": [ { "id": "distinguishing-features-q01", "text": "What identifies and describes what distinguishes a L-serine, 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 L-serine, 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 L-serine 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 L-serine 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 L-serine, 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 L-serine, 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 L-serine 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 L-serine is built from and which parts are replaceable.", "questions": [ { "id": "parts-and-materials-q01", "text": "What identifies and describes the composition of a L-serine, 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 L-serine, 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 L-serine 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 L-serine is judged and by whom.", "questions": [ { "id": "condition-assessment-q01", "text": "What identifies and describes the condition of a L-serine, 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 L-serine, 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 L-serine 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 L-serine 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 L-serine is, and what that position is measured against.", "questions": [ { "id": "position-and-frame-q01", "text": "What identifies and describes the location of a L-serine, 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 L-serine, 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 L-serine 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 L-serine 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 L-serine, 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 L-serine, 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 L-serine 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 L-serine 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 L-serine between them.", "questions": [ { "id": "stages-and-transitions-q01", "text": "What identifies and describes the lifecycle of a L-serine, 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 L-serine, 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 L-serine 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 L-serine, how often and by whom.", "findings": [ { "id": "observation-record", "name": "Observation record", "description": "How an observation of a L-serine 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 L-serine, 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 L-serine, 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 L-serine 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 L-serine 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 L-serine is for, and what it is used for anyway.", "findings": [ { "id": "function-and-purpose", "name": "Function, purpose and misuse", "description": "The function a L-serine performs and the uses that fall outside it.", "questions": [ { "id": "function-and-purpose-q01", "text": "What identifies and describes the use of a L-serine, 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 L-serine, 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 L-serine 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 L-serine.", "findings": [ { "id": "procedures-and-skills", "name": "Procedures, skills and required tools", "description": "What an agent needs before it can act on a L-serine at all.", "questions": [ { "id": "procedures-and-skills-q01", "text": "What identifies and describes handling a L-serine, 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 L-serine, 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 L-serine 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 L-serine there is and how fast it goes.", "questions": [ { "id": "consumption-and-stock-q01", "text": "What identifies and describes the supply of a L-serine, 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 L-serine, 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 L-serine 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 L-serine 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 L-serine 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 L-serine 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 L-serine 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 L-serine, 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 L-serine 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 L-serine 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 L-serine 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 L-serine, 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 L-serine 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 L-serine and how confident it is.", "questions": [ { "id": "claim-provenance-q01", "text": "What identifies and describes a claim about a L-serine, 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 L-serine, 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 L-serine 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 L-serine is retired without being erased.", "questions": [ { "id": "validity-and-supersession-q01", "text": "What identifies and describes the validity of a claim about a L-serine, 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 L-serine, 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 L-serine 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 } } } }