Class: OxidativeStressOutput

Measurement results from an oxidative stress assay. Contains all surrogate markers for oxidative stress including ROS levels, lipid peroxidation, protein oxidation, DNA damage, and antioxidant capacity.

URI: soma:OxidativeStressOutput

 classDiagram
    class OxidativeStressOutput
    click OxidativeStressOutput href "../OxidativeStressOutput/"
      AssayOutputMeasurement <|-- OxidativeStressOutput
        click AssayOutputMeasurement href "../AssayOutputMeasurement/"

      OxidativeStressOutput : antioxidant_capacity





        OxidativeStressOutput --> "0..1" QuantityValue : antioxidant_capacity
        click QuantityValue href "../QuantityValue/"



      OxidativeStressOutput : antioxidant_enzyme_activities

      OxidativeStressOutput : catalase_activity





        OxidativeStressOutput --> "0..1" QuantityValue : catalase_activity
        click QuantityValue href "../QuantityValue/"



      OxidativeStressOutput : description

      OxidativeStressOutput : dna_damage_markers





        OxidativeStressOutput --> "0..1" QuantityValue : dna_damage_markers
        click QuantityValue href "../QuantityValue/"



      OxidativeStressOutput : eight_isoprostane_level





        OxidativeStressOutput --> "0..1" QuantityValue : eight_isoprostane_level
        click QuantityValue href "../QuantityValue/"



      OxidativeStressOutput : eight_ohdg_level





        OxidativeStressOutput --> "0..1" QuantityValue : eight_ohdg_level
        click QuantityValue href "../QuantityValue/"



      OxidativeStressOutput : four_hydroxynonenal_level





        OxidativeStressOutput --> "0..1" QuantityValue : four_hydroxynonenal_level
        click QuantityValue href "../QuantityValue/"



      OxidativeStressOutput : glutathione_peroxidase_activity





        OxidativeStressOutput --> "0..1" QuantityValue : glutathione_peroxidase_activity
        click QuantityValue href "../QuantityValue/"



      OxidativeStressOutput : glutathione_ratio





        OxidativeStressOutput --> "0..1" QuantityValue : glutathione_ratio
        click QuantityValue href "../QuantityValue/"



      OxidativeStressOutput : id

      OxidativeStressOutput : lipid_peroxidation





        OxidativeStressOutput --> "0..1" QuantityValue : lipid_peroxidation
        click QuantityValue href "../QuantityValue/"



      OxidativeStressOutput : malondialdehyde_level





        OxidativeStressOutput --> "0..1" QuantityValue : malondialdehyde_level
        click QuantityValue href "../QuantityValue/"



      OxidativeStressOutput : name

      OxidativeStressOutput : nitrotyrosine_level





        OxidativeStressOutput --> "0..1" QuantityValue : nitrotyrosine_level
        click QuantityValue href "../QuantityValue/"



      OxidativeStressOutput : nrf2_activation





        OxidativeStressOutput --> "0..1" QuantityValue : nrf2_activation
        click QuantityValue href "../QuantityValue/"



      OxidativeStressOutput : protein_carbonyl_content





        OxidativeStressOutput --> "0..1" QuantityValue : protein_carbonyl_content
        click QuantityValue href "../QuantityValue/"



      OxidativeStressOutput : protein_oxidation_markers

      OxidativeStressOutput : reactive_oxygen_species





        OxidativeStressOutput --> "0..1" QuantityValue : reactive_oxygen_species
        click QuantityValue href "../QuantityValue/"



      OxidativeStressOutput : superoxide_dismutase_activity





        OxidativeStressOutput --> "0..1" QuantityValue : superoxide_dismutase_activity
        click QuantityValue href "../QuantityValue/"



      OxidativeStressOutput : total_antioxidant_capacity





        OxidativeStressOutput --> "0..1" QuantityValue : total_antioxidant_capacity
        click QuantityValue href "../QuantityValue/"

Inheritance

NamedThing
- AssayOutputMeasurement
  - OxidativeStressOutput

Slots

Name	Cardinality and Range	Description	Inheritance
reactive_oxygen_species	0..1 QuantityValue	ROS level as fold change or fluorescence intensity	direct
lipid_peroxidation	0..1 QuantityValue	Lipid peroxidation level	direct
malondialdehyde_level	0..1 QuantityValue	MDA level - lipid peroxidation marker	direct
four_hydroxynonenal_level	0..1 QuantityValue	4-HNE level - lipid peroxidation marker	direct
eight_isoprostane_level	0..1 QuantityValue	8-isoprostane level	direct
protein_oxidation_markers	* String	Protein oxidation markers (carbonyls, nitrotyrosine)	direct
protein_carbonyl_content	0..1 QuantityValue	Protein carbonyl content	direct
nitrotyrosine_level	0..1 QuantityValue	Nitrotyrosine level	direct
dna_damage_markers	0..1 QuantityValue	DNA damage markers (8-OHdG)	direct
eight_ohdg_level	0..1 QuantityValue	8-OHdG level (DNA oxidation marker)	direct
antioxidant_capacity	0..1 QuantityValue	Total antioxidant capacity or GSH/GSSG ratio	direct
glutathione_ratio	0..1 QuantityValue	GSH/GSSG ratio indicating antioxidant status	direct
antioxidant_enzyme_activities	0..1 String	Antioxidant enzyme activities (SOD, catalase, GPx)	direct
superoxide_dismutase_activity	0..1 QuantityValue	SOD activity	direct
catalase_activity	0..1 QuantityValue	Catalase activity	direct
glutathione_peroxidase_activity	0..1 QuantityValue	GPx activity	direct
total_antioxidant_capacity	0..1 QuantityValue	Total antioxidant capacity	direct
nrf2_activation	0..1 QuantityValue	Nrf2 activation level	direct
id	1 Uriorcurie	A unique identifier for the entity	NamedThing
name	0..1 String	A human-readable name for the entity	NamedThing
description	0..1 String	A detailed description of the entity	NamedThing

Usages

used by	used in	type	used
OxidativeStressAssay	has_specified_output	range	OxidativeStressOutput

Identifier and Mapping Information

Schema Source

from schema: https://w3id.org/EHS-Data-Standards/soma

Mappings

Mapping Type	Mapped Value
self	soma:OxidativeStressOutput
native	soma:OxidativeStressOutput

LinkML Source

Direct

name: OxidativeStressOutput
description: Measurement results from an oxidative stress assay. Contains all surrogate
  markers for oxidative stress including ROS levels, lipid peroxidation, protein oxidation,
  DNA damage, and antioxidant capacity.
from_schema: https://w3id.org/EHS-Data-Standards/soma
is_a: AssayOutputMeasurement
slots:
- reactive_oxygen_species
- lipid_peroxidation
- malondialdehyde_level
- four_hydroxynonenal_level
- eight_isoprostane_level
- protein_oxidation_markers
- protein_carbonyl_content
- nitrotyrosine_level
- dna_damage_markers
- eight_ohdg_level
- antioxidant_capacity
- glutathione_ratio
- antioxidant_enzyme_activities
- superoxide_dismutase_activity
- catalase_activity
- glutathione_peroxidase_activity
- total_antioxidant_capacity
- nrf2_activation

Induced

name: OxidativeStressOutput
description: Measurement results from an oxidative stress assay. Contains all surrogate
  markers for oxidative stress including ROS levels, lipid peroxidation, protein oxidation,
  DNA damage, and antioxidant capacity.
from_schema: https://w3id.org/EHS-Data-Standards/soma
is_a: AssayOutputMeasurement
attributes:
  reactive_oxygen_species:
    name: reactive_oxygen_species
    description: ROS level as fold change or fluorescence intensity. TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: reactive_oxygen_species
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: QuantityValue
    inlined: true
  lipid_peroxidation:
    name: lipid_peroxidation
    description: Lipid peroxidation level. TIER 1 - surrogate marker for OS.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: lipid_peroxidation
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: QuantityValue
    inlined: true
  malondialdehyde_level:
    name: malondialdehyde_level
    description: MDA level - lipid peroxidation marker.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: malondialdehyde_level
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: QuantityValue
    inlined: true
  four_hydroxynonenal_level:
    name: four_hydroxynonenal_level
    description: 4-HNE level - lipid peroxidation marker.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: four_hydroxynonenal_level
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: QuantityValue
    inlined: true
  eight_isoprostane_level:
    name: eight_isoprostane_level
    description: 8-isoprostane level.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: eight_isoprostane_level
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: QuantityValue
    inlined: true
  protein_oxidation_markers:
    name: protein_oxidation_markers
    description: Protein oxidation markers (carbonyls, nitrotyrosine). TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: protein_oxidation_markers
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: string
    multivalued: true
  protein_carbonyl_content:
    name: protein_carbonyl_content
    description: Protein carbonyl content. TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: protein_carbonyl_content
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: QuantityValue
    inlined: true
  nitrotyrosine_level:
    name: nitrotyrosine_level
    description: Nitrotyrosine level. TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: nitrotyrosine_level
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: QuantityValue
    inlined: true
  dna_damage_markers:
    name: dna_damage_markers
    description: DNA damage markers (8-OHdG). TIER 1 - surrogate for OS.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: dna_damage_markers
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: QuantityValue
    inlined: true
  eight_ohdg_level:
    name: eight_ohdg_level
    description: 8-OHdG level (DNA oxidation marker). TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: eight_ohdg_level
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: QuantityValue
    inlined: true
  antioxidant_capacity:
    name: antioxidant_capacity
    description: Total antioxidant capacity or GSH/GSSG ratio. TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: antioxidant_capacity
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: QuantityValue
    inlined: true
  glutathione_ratio:
    name: glutathione_ratio
    description: GSH/GSSG ratio indicating antioxidant status. TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: glutathione_ratio
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: QuantityValue
    inlined: true
  antioxidant_enzyme_activities:
    name: antioxidant_enzyme_activities
    description: Antioxidant enzyme activities (SOD, catalase, GPx). TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: antioxidant_enzyme_activities
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: string
  superoxide_dismutase_activity:
    name: superoxide_dismutase_activity
    description: SOD activity. TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: superoxide_dismutase_activity
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: QuantityValue
    inlined: true
  catalase_activity:
    name: catalase_activity
    description: Catalase activity. TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: catalase_activity
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: QuantityValue
    inlined: true
  glutathione_peroxidase_activity:
    name: glutathione_peroxidase_activity
    description: GPx activity. TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: glutathione_peroxidase_activity
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: QuantityValue
    inlined: true
  total_antioxidant_capacity:
    name: total_antioxidant_capacity
    description: Total antioxidant capacity. TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: total_antioxidant_capacity
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: QuantityValue
    inlined: true
  nrf2_activation:
    name: nrf2_activation
    description: Nrf2 activation level. TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: nrf2_activation
    owner: OxidativeStressOutput
    domain_of:
    - OxidativeStressOutput
    range: QuantityValue
    inlined: true
  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: OxidativeStressOutput
    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: OxidativeStressOutput
    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: OxidativeStressOutput
    domain_of:
    - NamedThing
    range: string