Class: BALFSputumOutput

name: BALFSputumOutput
description: Measurement results from a BALF/sputum assay. Contains inflammatory cell
  differentials, cytokine concentrations, and microbiome metrics.
from_schema: https://w3id.org/EHS-Data-Standards/soma
is_a: AssayOutputMeasurement
slots:
- neutrophil_percentage
- eosinophil_percentage
- macrophage_percentage
- lymphocyte_percentage
- total_cell_count
- il6_concentration
- il8_concentration
- tnf_alpha_concentration
- il1_beta_concentration
- total_protein_concentration
- alpha_diversity
- beta_diversity
- bacterial_load
- cell_free_dna

name: BALFSputumOutput
description: Measurement results from a BALF/sputum assay. Contains inflammatory cell
  differentials, cytokine concentrations, and microbiome metrics.
from_schema: https://w3id.org/EHS-Data-Standards/soma
is_a: AssayOutputMeasurement
attributes:
  neutrophil_percentage:
    name: neutrophil_percentage
    description: Neutrophil percentage in BALF/sputum.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: neutrophil_percentage
    owner: BALFSputumOutput
    domain_of:
    - BALFSputumOutput
    range: QuantityValue
    inlined: true
  eosinophil_percentage:
    name: eosinophil_percentage
    description: Eosinophil percentage in BALF/sputum.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: eosinophil_percentage
    owner: BALFSputumOutput
    domain_of:
    - BALFSputumOutput
    range: QuantityValue
    inlined: true
  macrophage_percentage:
    name: macrophage_percentage
    description: Macrophage percentage in BALF/sputum.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: macrophage_percentage
    owner: BALFSputumOutput
    domain_of:
    - BALFSputumOutput
    range: QuantityValue
    inlined: true
  lymphocyte_percentage:
    name: lymphocyte_percentage
    description: Lymphocyte percentage in BALF/sputum.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: lymphocyte_percentage
    owner: BALFSputumOutput
    domain_of:
    - BALFSputumOutput
    range: QuantityValue
    inlined: true
  total_cell_count:
    name: total_cell_count
    description: Total cell count in BALF/sputum.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: total_cell_count
    owner: BALFSputumOutput
    domain_of:
    - BALFSputumOutput
    range: QuantityValue
    inlined: true
  il6_concentration:
    name: il6_concentration
    description: IL-6 concentration.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: il6_concentration
    owner: BALFSputumOutput
    domain_of:
    - BALFSputumOutput
    range: QuantityValue
    inlined: true
  il8_concentration:
    name: il8_concentration
    description: IL-8 concentration.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: il8_concentration
    owner: BALFSputumOutput
    domain_of:
    - BALFSputumOutput
    range: QuantityValue
    inlined: true
  tnf_alpha_concentration:
    name: tnf_alpha_concentration
    description: TNF-alpha concentration.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: tnf_alpha_concentration
    owner: BALFSputumOutput
    domain_of:
    - BALFSputumOutput
    range: QuantityValue
    inlined: true
  il1_beta_concentration:
    name: il1_beta_concentration
    description: IL-1 beta concentration.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: il1_beta_concentration
    owner: BALFSputumOutput
    domain_of:
    - BALFSputumOutput
    range: QuantityValue
    inlined: true
  total_protein_concentration:
    name: total_protein_concentration
    description: Total protein concentration.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: total_protein_concentration
    owner: BALFSputumOutput
    domain_of:
    - BALFSputumOutput
    range: QuantityValue
    inlined: true
  alpha_diversity:
    name: alpha_diversity
    description: Alpha diversity (microbiome).
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: alpha_diversity
    owner: BALFSputumOutput
    domain_of:
    - BALFSputumOutput
    range: QuantityValue
    inlined: true
  beta_diversity:
    name: beta_diversity
    description: Beta diversity (microbiome).
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: beta_diversity
    owner: BALFSputumOutput
    domain_of:
    - BALFSputumOutput
    range: QuantityValue
    inlined: true
  bacterial_load:
    name: bacterial_load
    description: Bacterial load (16S copies or CFU).
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: bacterial_load
    owner: BALFSputumOutput
    domain_of:
    - BALFSputumOutput
    range: QuantityValue
    inlined: true
  cell_free_dna:
    name: cell_free_dna
    description: Cell-free DNA concentration.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: cell_free_dna
    owner: BALFSputumOutput
    domain_of:
    - BALFSputumOutput
    range: QuantityValue
    inlined: true
  evidence:
    name: evidence
    description: Evidence items backing this object's claims. Each one carries an
      exact quote from a cited publication.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: evidence
    owner: BALFSputumOutput
    domain_of:
    - KeyEvent
    - KeyEventRelationship
    - Assay
    - AssayOutputMeasurement
    range: EvidenceItem
    recommended: true
    multivalued: true
    inlined: true
    inlined_as_list: true
  experimental_group:
    name: experimental_group
    description: 'The role of this output record''s group in the experimental design:
      control, vehicle control, baseline, treated, recovery, or sham. Lets extraction
      distinguish the control/baseline response from the treated response so a change
      relative to control can be assembled downstream.'
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: experimental_group
    owner: BALFSputumOutput
    domain_of:
    - AssayOutputMeasurement
    range: ExperimentalGroupEnum
  measured_under:
    name: measured_under
    description: Reference (by id) to the specific ExposureCondition this output record
      was measured under. Links each set of response values to the concentration/treatment
      it corresponds to, so a dose-response series keeps each response paired with
      its exposure level. The referenced condition should be listed in the assay's
      has_exposure_condition.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: measured_under
    owner: BALFSputumOutput
    domain_of:
    - AssayOutputMeasurement
    range: ExposureCondition
    inlined: false
  data_in_figure_only:
    name: data_in_figure_only
    description: True when the quantitative values for this output record are reported
      only in a figure or chart and could not be read from the text. The record then
      documents that the endpoint was measured and where its data lives (via an evidence
      item's figure_reference and article_section), without numeric values. This keeps
      figure-only results visible to reviewers in the workbook instead of silently
      dropping them.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: data_in_figure_only
    owner: BALFSputumOutput
    domain_of:
    - AssayOutputMeasurement
    range: boolean
  id:
    name: id
    description: A unique identifier for the entity.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    identifier: true
    alias: id
    owner: BALFSputumOutput
    domain_of:
    - NamedThing
    - Unit
    - NamedEntity
    range: uriorcurie
    required: true
  name:
    name: name
    description: A human-readable name for the entity.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    slot_uri: schema:name
    alias: name
    owner: BALFSputumOutput
    domain_of:
    - NamedThing
    - Unit
    - NamedEntity
    range: string
  description:
    name: description
    description: A detailed description of the entity.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    slot_uri: schema:description
    alias: description
    owner: BALFSputumOutput
    domain_of:
    - NamedThing
    range: string