Enum: ModelDivergenceTypeEnum

Typed kind of departure between a model and the mechanism node it is linked to. Values were fixed by reading all 50 computational-model limitations strings in the KB and clustering them, with the animal and NAM sets probed to establish which kinds are shared -- see docs/superpowers/specs/2026-09-02-model-divergence-taxonomy.md. A single link usually carries more than one, which is why divergences is multivalued. The set is deliberately computational-model-first; extending it to animal models would add supraphysiological expression and incomplete phenotype, each already evidenced in that set.

URI: dismech:enum/ModelDivergenceTypeEnum

Permissible Values

Value	Meaning	Description	Additional Info
BOUNDARY_OMISSION	None	A component, cell type, compartment, or process the mechanism requires lies o...	Title: Boundary omission
PROXY_QUANTITY	None	The model's variable is a stand-in of a different quantity from the one the m...	Title: Proxy quantity
CALIBRATION_PROVENANCE	None	Parameters, training data, or validation derive from a system, cohort, or mea...	Title: Calibration provenance
CAUSE_UNREPRESENTED	None	The disease lesion is not encoded; the mechanism is imposed phenomenologicall...	Title: Cause unrepresented
STRUCTURAL_IDEALIZATION	None	Geometry, topology, or spatial organisation is idealized rather than anatomic...	Title: Structural idealization
TEMPORAL_SCOPE	None	The model's time horizon or dynamic resolution does not match the mechanism's...	Title: Temporal scope
CONTESTED_ASSUMPTION	None	The model encodes a mechanistic assumption that independent or later evidence...	Title: Contested assumption
SCALE_EXTRAPOLATION	None	The model observes below the biological scale of the node it is cited for and...	Title: Scale extrapolation
SPECIES_MISMATCH	None	The model, or the data behind it, derives from a non-human system	Title: Species mismatch
POPULATION_MISMATCH	None	The modelled cohort, subtype, or indication is not the one this entry describ...	Title: Population mismatch
OTHER	None	A divergence that does not fit the values above	Title: Other

Slots

Name	Description
divergence_type	Kind of departure between the model and the mechanism it is linked to

Identifier and Mapping Information

Schema Source

from schema: https://w3id.org/monarch-initiative/dismech

LinkML Source

name: ModelDivergenceTypeEnum
description: Typed kind of departure between a model and the mechanism node it is
  linked to. Values were fixed by reading all 50 computational-model `limitations`
  strings in the KB and clustering them, with the animal and NAM sets probed to establish
  which kinds are shared -- see docs/superpowers/specs/2026-09-02-model-divergence-taxonomy.md.
  A single link usually carries more than one, which is why `divergences` is multivalued.
  The set is deliberately computational-model-first; extending it to animal models
  would add supraphysiological expression and incomplete phenotype, each already evidenced
  in that set.
from_schema: https://w3id.org/monarch-initiative/dismech
see_also:
- PMID:32993675
rank: 1000
permissible_values:
  BOUNDARY_OMISSION:
    text: BOUNDARY_OMISSION
    description: A component, cell type, compartment, or process the mechanism requires
      lies outside the model boundary. The commonest kind. Contrast PROXY_QUANTITY,
      where the thing is in the model but stands in for something else.
    title: Boundary omission
  PROXY_QUANTITY:
    text: PROXY_QUANTITY
    description: The model's variable is a stand-in of a different quantity from the
      one the mechanism node describes -- transcriptional regulation of dopamine synthesis
      for striatal dopamine concentration, an imaging signal for the tissue property
      it correlates with. Can occur at the same biological scale, so it is not recoverable
      from `model_scale`.
    title: Proxy quantity
  CALIBRATION_PROVENANCE:
    text: CALIBRATION_PROVENANCE
    description: Parameters, training data, or validation derive from a system, cohort,
      or measurement type that does not match the claim -- fitted to cultured epithelia,
      parameterized from mouse fibroblasts, validated against aggregate rather than
      individual outcomes.
    title: Calibration provenance
  CAUSE_UNREPRESENTED:
    text: CAUSE_UNREPRESENTED
    description: The disease lesion is not encoded; the mechanism is imposed phenomenologically
      instead of arising from the allele, exposure, or perturbation that causes it.
      Also covers a perturbation that cannot be applied in isolation.
    title: Cause unrepresented
  STRUCTURAL_IDEALIZATION:
    text: STRUCTURAL_IDEALIZATION
    description: Geometry, topology, or spatial organisation is idealized rather than
      anatomically or patient-derived -- a symmetric airway tree, a one-dimensional
      strand standing for a reconstructed outflow tract, spatially uniform fields.
    title: Structural idealization
  TEMPORAL_SCOPE:
    text: TEMPORAL_SCOPE
    description: 'The model''s time horizon or dynamic resolution does not match the
      mechanism''s: an acute-injury window standing for chronic progression, or a
      parameter-free qualitative model that reaches reachability but not magnitude
      or timing.'
    title: Temporal scope
  CONTESTED_ASSUMPTION:
    text: CONTESTED_ASSUMPTION
    description: The model encodes a mechanistic assumption that independent or later
      evidence disputes, or that rests on a structure not experimentally known. Distinct
      from the other kinds in that the model may be internally sound and still wrong
      about the biology.
    title: Contested assumption
  SCALE_EXTRAPOLATION:
    text: SCALE_EXTRAPOLATION
    description: The model observes below the biological scale of the node it is cited
      for and infers the higher-scale outcome. Derivable from `model_scale` versus
      the target's `biological_scale`; record it explicitly when the curator wants
      to state why it matters here.
    title: Scale extrapolation
  SPECIES_MISMATCH:
    text: SPECIES_MISMATCH
    description: The model, or the data behind it, derives from a non-human system.
      Marginal among computational models and dominant among animal models, where
      it is the principal translational caveat.
    title: Species mismatch
  POPULATION_MISMATCH:
    text: POPULATION_MISMATCH
    description: The modelled cohort, subtype, or indication is not the one this entry
      describes -- a generic model standing for a genotype-defined disorder, or a
      cohort that mixes in cases outside the entry's molecular criteria.
    title: Population mismatch
  OTHER:
    text: OTHER
    description: A divergence that does not fit the values above. Requires a `description`
      that states the kind plainly, and is a signal the taxonomy may need a value.
    title: Other