{ "model": { "rank": 14225, "code": "thing-q242736", "model_id": "vr.tr.phosphorylation", "name": "phosphorylation", "purpose": "Let an agent explain phosphorylation and its roles in signalling and metabolism, relate it to disease and drugs at a general level, and support learning and research.", "family": "Thing Registry", "category": "Activities and processes", "status": "research-draft", "kind": "thing", "plane": "ACT", "domain": "ACT.PRC", "industry": "", "version": "", "url": "/models/thing/q242736/", "tier": 2, "score": 36, "payload": { "layer": "wikidata", "aliases": [ "phosphorylation of RNA polymerase II C-terminal domain", "regulation of translational initiation by eIF2 alpha phosphorylation", "activation of Janus kinase activity", "lipid phosphorylation", "protein phosphorylation", "organic acid phosphorylation", "carbohydrate phosphorylation", "histone phosphorylation", "actin phosphorylation", "peptidyl-tyrosine phosphorylation", "peptidyl-serine phosphorylation", "peptidyl-threonine phosphorylation", "I-kappaB phosphorylation", "DNA damage induced protein phosphorylation", "pathway-restricted SMAD protein phosphorylation", "common-partner SMAD protein phosphorylation", "JUN phosphorylation", "inhibitory G protein-coupled receptor phosphorylation", "peptidyl-histidine phosphorylation", "peptidyl-aspartic acid phosphorylation", "peptidyl-cysteine phosphorylation", "peptidyl-arginine phosphorylation", "negative regulation of protein kinase activity by protein phosphorylation", "protein autophosphorylation", "glucose 1-phosphate phosphorylation", "tyrosine phosphorylation of STAT protein", "peptidyl-tyrosine autophosphorylation", "peptidyl-serine autophosphorylation", "peptidyl-threonine autophosphorylation", "peptidyl-aspartic acid autophosphorylation", "protein trans-autophosphorylation", "peptidyl-histidine autophosphorylation", "protein cis-autophosphorylation", "hyperphosphorylation", "photophosphorylation", "nucleotide phosphorylation", "photosynthetic phosphorylation", "deoxyribose 5-phosphate phosphorylation", "substrate-level phosphorylation", "tau protein hyperphosphorylation" ], "aliasCount": 40, "merged": 40, "knownIn": 36, "facets": null, "markers": [], "lexicalClass": "", "senseRank": null, "alsoRegisteredAs": null, "source": { "dataset": "wikidata", "item": "Q242736", "url": "https://www.wikidata.org/wiki/Q242736", "license": "CC0 1.0" } }, "research": { "vercy": "1.0-draft", "publication": { "status": "research-draft", "adjudicationStatus": "unreviewed", "publishableCanonical": false, "generatedAt": "2026-09-11T20:44:32Z", "providers": [ "Claude" ], "breadth": "written by Claude from model knowledge without web access - no source was read, every claim is a lead to verify", "pass": 2, "wave": 2, "engine": "claude" }, "metaModel": { "id": "THING-Q242736", "registryId": "vr.tr.phosphorylation", "name": "phosphorylation", "version": "0.2.0-wave.2", "entryKind": "thing", "family": "Thing Registry", "domain": [ "ACT.PRC" ], "status": "research-draft" }, "canonicalUrl": "https://ver.cy/models/thing/q242736/", "model": { "registry_id": "vr.tr.phosphorylation", "name": "phosphorylation", "purpose": "Let an agent explain phosphorylation and its roles in signalling and metabolism, relate it to disease and drugs at a general level, and support learning and research.", "definition": "The addition of a phosphate group to a molecule, most importantly to proteins by kinases and reversed by phosphatases, regulating enzyme activity, signalling and cell processes, and to lipids, sugars and nucleotides in metabolism; phosphorylation is central to cell signalling, energy metabolism and disease, and kinases are major drug targets.", "what_it_is_for": "Biochemistry, cell signalling and pharmacology.", "affordances": [ "explain phosphorylation chemistry and enzymes", "describe roles in signalling and metabolism", "relate to disease and kinase inhibitors", "find research resources" ], "distinguishing_features": [ "Reversible modification", "Enzyme-catalysed", "Regulatory switch", "Ubiquitous" ], "appearance": "Not visible; molecular modification.", "visual_identification": [ "Phosphate added to a molecule", "Kinases add, phosphatases remove", "Glycosylation adds sugars instead" ], "physical_properties": [], "families_and_kinds": [ "protein phosphorylation", "lipid phosphorylation", "sugar and nucleotide phosphorylation", "oxidative and substrate-level phosphorylation", "phosphorylation in signalling cascades" ], "related_models": [ { "relation": "is a kind of", "target": "phosphate-containing compound metabolic process", "why": "category" }, { "relation": "is catalysed by", "target": "enzyme", "why": "kinases" }, { "relation": "is related to", "target": "metabolic pathway", "why": "energy metabolism" }, { "relation": "is related to", "target": "drug", "why": "kinase inhibitors" } ], "identifiers": [ { "scheme": "Gene Ontology", "value_or_pattern": "GO:0016310 phosphorylation", "note": "ontology" } ], "standards_and_regulation": [ "Gene Ontology and pathway databases", "Medicines regulation for kinase inhibitors" ], "failure_modes_and_hazards": [ "Confusing types of phosphorylation", "Agents giving medical advice on targeted therapies", "Oversimplifying signalling" ], "in_scope": [], "out_of_scope": [], "characteristics": [] }, "sources": [], "structure": { "bundles": [ { "id": "chemistry", "name": "Chemistry", "description": "What phosphorylation is.", "rationale": "Enzymes and substrates.", "layers": [ { "id": "mechanism", "name": "Mechanism", "description": "How it happens.", "findings": [ { "id": "mechanism-finding", "name": "Mechanism", "description": "Mechanism.", "questions": [ { "text": "How do kinases transfer phosphate from ATP to this substrate, and how do phosphatases reverse it?", "kind": "definition" }, { "text": "Which residues are phosphorylated in proteins?", "kind": "definition" } ] } ] }, { "id": "types", "name": "Types", "description": "Kinds of phosphorylation.", "findings": [ { "id": "types-finding", "name": "Types", "description": "Types.", "questions": [ { "text": "How do protein, lipid and metabolic phosphorylation differ, including oxidative phosphorylation?", "kind": "definition" }, { "text": "Which entry fits oxidative phosphorylation?", "kind": "action" } ] } ] } ] }, { "id": "signalling", "name": "Signalling", "description": "Regulation.", "rationale": "Switches and cascades.", "layers": [ { "id": "cascades", "name": "Cascades", "description": "Signalling cascades.", "findings": [ { "id": "cascades-finding", "name": "Cascades", "description": "Cascades.", "questions": [ { "text": "How does phosphorylation propagate signals in this pathway?", "kind": "provenance" }, { "text": "How are cascades amplified and terminated?", "kind": "definition" } ] } ] }, { "id": "regulation", "name": "Regulation", "description": "Regulating proteins.", "findings": [ { "id": "regulation-finding", "name": "Regulation", "description": "Regulation.", "questions": [ { "text": "How does phosphorylation change the activity or location of this protein?", "kind": "provenance" }, { "text": "How is it detected experimentally?", "kind": "provenance" } ] } ] } ] }, { "id": "medicine", "name": "Medicine", "description": "Disease and drugs.", "rationale": "General information.", "layers": [ { "id": "disease", "name": "Disease", "description": "Phosphorylation in disease.", "findings": [ { "id": "disease-finding", "name": "Disease", "description": "Disease.", "questions": [ { "text": "How is abnormal phosphorylation involved in cancer or neurodegeneration, according to research?", "kind": "provenance" }, { "text": "Is the user asking about their own condition?", "kind": "boundary" } ] } ] }, { "id": "drugs", "name": "Drugs", "description": "Kinase inhibitors.", "findings": [ { "id": "drugs-finding", "name": "Drugs", "description": "Kinase inhibitors.", "questions": [ { "text": "How do kinase inhibitors work, and which are approved, in general terms?", "kind": "provenance" }, { "text": "Which entry fits a specific medicine?", "kind": "action" } ] } ] } ] }, { "id": "learn", "name": "Learn", "description": "Study.", "rationale": "Resources.", "layers": [ { "id": "resources", "name": "Resources", "description": "Databases.", "findings": [ { "id": "resources-finding", "name": "Resources", "description": "Databases.", "questions": [ { "text": "Which databases record phosphorylation sites and kinases?", "kind": "provenance" }, { "text": "Which methods map phosphorylation?", "kind": "provenance" } ] } ] }, { "id": "teach", "name": "Teach", "description": "Teaching.", "findings": [ { "id": "teach-finding", "name": "Teach", "description": "Teaching.", "questions": [ { "text": "How can phosphorylation be taught as a molecular switch?", "kind": "action" }, { "text": "Which misconceptions arise?", "kind": "provenance" } ] } ] } ] } ] }, "openQuestions": [ "Should protein phosphorylation be a separate entry?", "How should kinase databases be linked?", "How should drug information be linked?" ], "statistics": { "bundles": 4, "layers": 8, "findings": 8, "questions": 16 } }, "draft": { "generator": "vr.draft.v3", "status": "draft-generated", "researched": false, "archetype": "abstract concept", "method": "Written from the archetype playbook - what this kind of thing needs beyond identity and provenance - and from the structure that recurred across 6,333 models already researched by two engines. Applied to this entry by rule. No source was read for this thing and no claim here is researched. This entry carries no facets of its own, so they were inferred from its domain - a guess about a whole domain applied to one thing.", "facetsInferred": true, "nextPass": "A researcher replaces this draft with a sourced specification. Treat every sentence below as a proposal to argue with.", "purpose": "Give an agent a durable, checkable way to recognise a phosphorylation, record what state it is in, and decide what may be done with it.", "whatItIs": "Let an agent explain phosphorylation and its roles in signalling and metabolism, relate it to disease and drugs at a general level, and support learning and research.", "characteristics": { "substance": "activity", "origin": "conceptual", "agency": "inert" }, "whatYouCanDoWithIt": [ "observed and measured" ], "distinguishingFeatures": [ "Names folded into this entry, which a task may need to split apart again: phosphorylation of RNA polymerase II C-terminal domain, regulation of translational initiation by eIF2 alpha phosphorylation, activation of Janus kinase activity, lipid phosphorylation, protein phosphorylation, organic acid phosphorylation, carbohydrate phosphorylation, histone phosphorylation, actin phosphorylation, peptidyl-tyrosine phosphorylation, peptidyl-serine phosphorylation, peptidyl-threonine phosphorylation.", "40 finer distinctions are held as aliases rather than separate entries, because telling them apart needs a task that asks for it.", "Described in 36 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 phosphorylation, and on what evidence are they told apart?" ], "whatItIsMadeOf": "something that happens over time", "physicalCharacter": [ "Does nothing on its own; everything it does, something else did to it.", "These come from the domain this entry sits in rather than from the entry itself, so treat them as a first guess about the whole domain applied to one thing." ], "whatCanBeDoneWithIt": [ "observe it, measure it, record its state" ], "howItIsRecognised": [ "Nothing to see. What is recognised is an instance of it, and which instances count is exactly what is argued about." ], "relatedModels": [ { "relation": "covers", "note": "Finer kinds folded into this entry because telling them apart needs a task that asks for it. Each is a model waiting to be split out when one does.", "targets": [ "phosphorylation of RNA polymerase II C-terminal domain", "regulation of translational initiation by eIF2 alpha phosphorylation", "activation of Janus kinase activity", "lipid phosphorylation", "protein phosphorylation", "organic acid phosphorylation", "carbohydrate phosphorylation", "histone phosphorylation", "actin phosphorylation", "peptidyl-tyrosine phosphorylation", "peptidyl-serine phosphorylation", "peptidyl-threonine phosphorylation" ] } ], "standing": "Described in 36 Wikipedia languages, which measures how widely it is written about rather than how important or how common it is. 40 finer distinctions are held inside this entry as names rather than as separate models.", "structure": { "bundles": [ { "id": "identity-and-classification", "name": "Identity, naming and classification", "description": "How an agent tells one phosphorylation from another, and a phosphorylation 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 phosphorylation, 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 phosphorylation, 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 phosphorylation 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 phosphorylation, 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 phosphorylation, 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 phosphorylation 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 phosphorylation 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 phosphorylation, 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 phosphorylation, 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 phosphorylation 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 phosphorylation from the things most often confused with it.", "questions": [ { "id": "distinguishing-features-q01", "text": "What identifies and describes what distinguishes a phosphorylation, 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 phosphorylation, 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 phosphorylation 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 phosphorylation 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 phosphorylation between them.", "questions": [ { "id": "stages-and-transitions-q01", "text": "What identifies and describes the lifecycle of a phosphorylation, 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 phosphorylation, 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 phosphorylation 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 phosphorylation, how often and by whom.", "findings": [ { "id": "observation-record", "name": "Observation record", "description": "How an observation of a phosphorylation 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 phosphorylation, 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 phosphorylation, 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 phosphorylation is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] }, { "id": "process-and-outcome", "name": "Process, inputs and outcome", "description": "How a phosphorylation proceeds, what it needs and what it leaves behind.", "rationale": "An activity is known by its steps and its results, and both have to be recordable while it is still running.", "layers": [ { "id": "steps-and-sequence", "name": "Steps and sequence", "description": "The steps of a phosphorylation, their order and what may run in parallel.", "findings": [ { "id": "steps-and-preconditions", "name": "Steps, preconditions and completion", "description": "What has to be true before each step of a phosphorylation and what marks it done.", "questions": [ { "id": "steps-and-preconditions-q01", "text": "What identifies and describes a step of a phosphorylation, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "steps-and-preconditions-q02", "text": "Who or what asserted this about a step of a phosphorylation, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "steps-and-preconditions-q03", "text": "What may an agent decide or do once a step of a phosphorylation is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] }, { "id": "inputs-and-results", "name": "Inputs, resources and results", "description": "What a phosphorylation consumes and what it produces.", "findings": [ { "id": "inputs-and-outputs", "name": "Inputs, outputs and side effects", "description": "The resources a phosphorylation takes and the results it leaves, wanted or not.", "questions": [ { "id": "inputs-and-outputs-q01", "text": "What identifies and describes the inputs and results of a phosphorylation, and in what units or vocabulary?", "kind": "definition", "answer_data": [ "identifiers", "types and classes", "values with units", "explicit unknowns" ] }, { "id": "inputs-and-outputs-q02", "text": "Who or what asserted this about the inputs and results of a phosphorylation, by which method, and when was it true?", "kind": "provenance", "answer_data": [ "authority", "method", "evidence", "event time", "knowledge time" ] }, { "id": "inputs-and-outputs-q03", "text": "What may an agent decide or do once the inputs and results of a phosphorylation is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] }, { "id": "definitions-in-contest", "name": "Definitions and who holds them", "description": "What phosphorylation is taken to mean, and by whom.", "rationale": "When a field disagrees about a concept, the disagreement is the content. A model that picks one definition silently destroys the information.", "layers": [ { "id": "competing-definitions", "name": "Competing definitions", "description": "The main readings and the traditions behind them.", "findings": [ { "id": "definition-map", "name": "Definitions and their holders", "description": "Each definition with the school or body that holds it.", "questions": [ { "id": "definition-map-q01", "text": "Which definitions of phosphorylation are in use, and which tradition or body holds each?", "kind": "definition" }, { "id": "definition-map-q02", "text": "What turns on the difference between them in practice?", "kind": "boundary" } ] } ] }, { "id": "operationalisation", "name": "Operationalisation", "description": "How it is measured or applied when it has to be.", "findings": [ { "id": "operational-record", "name": "Measures and proxies", "description": "Instruments and indicators used to stand in for it.", "questions": [ { "id": "operational-record-q01", "text": "How is phosphorylation operationalised or measured in practice, and by what instrument?", "kind": "measurement" }, { "id": "operational-record-q02", "text": "What does that operationalisation leave out, and when does that matter?", "kind": "boundary" } ] } ] } ] }, { "id": "instances-and-use", "name": "Instances, use and consequence", "description": "What counts as an instance of phosphorylation and what follows from calling something that.", "rationale": "Applying a concept is an act with consequences, so a model must say what the label licenses and what it does not.", "layers": [ { "id": "instances", "name": "What counts as an instance", "description": "Clear cases, borderline cases and non-cases.", "findings": [ { "id": "instance-tests", "name": "Tests for an instance", "description": "What would settle whether something falls under it.", "questions": [ { "id": "instance-tests-q01", "text": "What would settle whether something is an instance of phosphorylation?", "kind": "boundary" }, { "id": "instance-tests-q02", "text": "Which borderline cases are argued about, and on what grounds?", "kind": "definition" } ] } ] }, { "id": "consequence", "name": "Consequence of application", "description": "Rights, duties or decisions that follow from the label.", "findings": [ { "id": "consequence-record", "name": "What the label licenses", "description": "What an agent may do once something is classified this way.", "questions": [ { "id": "consequence-record-q01", "text": "What follows practically once something is treated as phosphorylation?", "kind": "action" }, { "id": "consequence-record-q02", "text": "What must an agent not infer from the label alone?", "kind": "action" } ] } ] } ] }, { "id": "provenance-and-evidence", "name": "Provenance, evidence and time", "description": "Where every claim about a phosphorylation 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 phosphorylation and how confident it is.", "questions": [ { "id": "claim-provenance-q01", "text": "What identifies and describes a claim about a phosphorylation, 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 phosphorylation, 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 phosphorylation 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 phosphorylation is retired without being erased.", "questions": [ { "id": "validity-and-supersession-q01", "text": "What identifies and describes the validity of a claim about a phosphorylation, 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 phosphorylation, 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 phosphorylation is known, and what must it refuse?", "kind": "action", "answer_data": [ "permitted actions", "preconditions", "refusals", "escalation" ] } ] } ] } ] } ] }, "statistics": { "bundles": 6, "layers": 12, "findings": 14, "questions": 38 } } } }