# Test file for BALFSputumAssay (in vivo only)
# This assay is IN VIVO ONLY (supported_contexts: in_vivo_only)
# Samples must come from a living organism
balf_sputum_assays:
  - id: "BALF:001"
    name: "Neutrophil percentage in induced sputum"
    has_specified_output:
      id: "BALF:001-output"
      name: "BALF:001 measurement results"
      neutrophil_percentage:
        value: "45.0"
        unit:
          id: "UO:0000187"
          name: "percent"
      il8_concentration:
        value: "250"
        unit:
          id: "UO:0000175"
          name: "picogram per milliliter"
      eosinophil_percentage:
        value: "3.5"
        unit:
          id: "UO:0000187"
          name: "percent"
      macrophage_percentage:
        value: "38.0"
        unit:
          id: "UO:0000187"
          name: "percent"
      lymphocyte_percentage:
        value: "12.5"
        unit:
          id: "UO:0000187"
          name: "percent"
      total_cell_count:
        value: "2500000"
        unit:
          id: "UO:0000209"
          name: "cells per milliliter"
      il6_concentration:
        value: "85"
        unit:
          id: "UO:0000175"
          name: "picogram per milliliter"
      tnf_alpha_concentration:
        value: "120"
        unit:
          id: "UO:0000175"
          name: "picogram per milliliter"
      total_protein_concentration:
        value: "1.2"
        unit:
          id: "UO:0000176"
          name: "milligram per milliliter"
    assay_date: "2024-07-22"
    informs_on_key_event:
      id: "KE:ke-airway-inflammation"
      name: "Airway inflammation"
      biological_action: increased
      level_of_biological_organization: tissue
    target_cell_type:
      id: "CL:0000775"
      name: "neutrophil"
    study_subject:
      subject_type: InVivoSubject
      id: "SUBJECT:001"
      name: "Subject A"
      model_species:
        id: "NCBITaxon:9606"
        name: "Homo sapiens"
      age:
        value: "45"
        unit:
          id: "UO:0000036"
          name: "year"
      sex: "female"
      sample_type: sputum
      collection_site: "pulmonary clinic"
      subject_characteristics: "Non-smoker, mild asthma"
      sample_collection_method: "Induced sputum with hypertonic saline nebulization"
      clinical_context: "Routine monitoring, stable asthma"
    follows_protocols:
      - protocol_type: MolecularAssayProtocol
        id: "PROTOCOL:balf-001"
        name: "Sputum cell differential protocol"
        detection_method: "cytospin and Diff-Quik staining"