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Class: GobletCellOutput

Measurement results from a goblet cell assay. Contains the measured values for goblet cell counts, mucin expression, and mucus properties.

URI: soma:GobletCellOutput

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

      GobletCellOutput : description

      GobletCellOutput : goblet_cell_count





        GobletCellOutput --> "0..1" QuantityValue : goblet_cell_count
        click QuantityValue href "../QuantityValue/"



      GobletCellOutput : goblet_cell_percentage





        GobletCellOutput --> "0..1" QuantityValue : goblet_cell_percentage
        click QuantityValue href "../QuantityValue/"



      GobletCellOutput : goblet_to_ciliated_ratio





        GobletCellOutput --> "0..1" QuantityValue : goblet_to_ciliated_ratio
        click QuantityValue href "../QuantityValue/"



      GobletCellOutput : id

      GobletCellOutput : muc5ac_mrna_expression





        GobletCellOutput --> "0..1" QuantityValue : muc5ac_mrna_expression
        click QuantityValue href "../QuantityValue/"



      GobletCellOutput : muc5ac_muc5b_ratio





        GobletCellOutput --> "0..1" QuantityValue : muc5ac_muc5b_ratio
        click QuantityValue href "../QuantityValue/"



      GobletCellOutput : muc5ac_protein_expression





        GobletCellOutput --> "0..1" QuantityValue : muc5ac_protein_expression
        click QuantityValue href "../QuantityValue/"



      GobletCellOutput : muc5b_mrna_expression





        GobletCellOutput --> "0..1" QuantityValue : muc5b_mrna_expression
        click QuantityValue href "../QuantityValue/"



      GobletCellOutput : muc5b_protein_expression





        GobletCellOutput --> "0..1" QuantityValue : muc5b_protein_expression
        click QuantityValue href "../QuantityValue/"



      GobletCellOutput : mucin_protein_concentration





        GobletCellOutput --> "0..1" QuantityValue : mucin_protein_concentration
        click QuantityValue href "../QuantityValue/"



      GobletCellOutput : mucin_secretion_rate





        GobletCellOutput --> "0..1" QuantityValue : mucin_secretion_rate
        click QuantityValue href "../QuantityValue/"



      GobletCellOutput : mucus_viscosity





        GobletCellOutput --> "0..1" QuantityValue : mucus_viscosity
        click QuantityValue href "../QuantityValue/"



      GobletCellOutput : name

      GobletCellOutput : percent_solids





        GobletCellOutput --> "0..1" QuantityValue : percent_solids
        click QuantityValue href "../QuantityValue/"

Inheritance

Slots

Name Cardinality and Range Description Inheritance
goblet_cell_count 0..1
QuantityValue		 Number of goblet cells (raw count) direct
goblet_cell_percentage 0..1
QuantityValue		 Percentage of goblet cells direct
muc5ac_mrna_expression 0..1
QuantityValue		 MUC5AC mRNA expression level (fold change) direct
muc5ac_protein_expression 0..1
QuantityValue		 MUC5AC protein expression level direct
muc5b_mrna_expression 0..1
QuantityValue		 MUC5B mRNA expression level (fold change) direct
muc5b_protein_expression 0..1
QuantityValue		 MUC5B protein expression level direct
muc5ac_muc5b_ratio 0..1
QuantityValue		 MUC5AC to MUC5B ratio direct
mucin_protein_concentration 0..1
QuantityValue		 Total mucin protein concentration direct
mucin_secretion_rate 0..1
QuantityValue		 Mucin secretion rate direct
percent_solids 0..1
QuantityValue		 Percent solids in apical secretion (overall secretion) direct
goblet_to_ciliated_ratio 0..1
QuantityValue		 Ratio of goblet cells to ciliated cells direct
mucus_viscosity 0..1
QuantityValue		 Mucus viscosity in centipoise 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
GobletCellAssay has_specified_output range GobletCellOutput

Identifier and Mapping Information

Schema Source

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

Mappings

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

LinkML Source

Direct

name: GobletCellOutput
description: Measurement results from a goblet cell assay. Contains the measured values
  for goblet cell counts, mucin expression, and mucus properties.
from_schema: https://w3id.org/EHS-Data-Standards/soma
is_a: AssayOutputMeasurement
slots:
- goblet_cell_count
- goblet_cell_percentage
- muc5ac_mrna_expression
- muc5ac_protein_expression
- muc5b_mrna_expression
- muc5b_protein_expression
- muc5ac_muc5b_ratio
- mucin_protein_concentration
- mucin_secretion_rate
- percent_solids
- goblet_to_ciliated_ratio
- mucus_viscosity

Induced

name: GobletCellOutput
description: Measurement results from a goblet cell assay. Contains the measured values
  for goblet cell counts, mucin expression, and mucus properties.
from_schema: https://w3id.org/EHS-Data-Standards/soma
is_a: AssayOutputMeasurement
attributes:
  goblet_cell_count:
    name: goblet_cell_count
    description: Number of goblet cells (raw count). TIER 1 - want both raw and relative
      information.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: goblet_cell_count
    owner: GobletCellOutput
    domain_of:
    - GobletCellOutput
    range: QuantityValue
    inlined: true
  goblet_cell_percentage:
    name: goblet_cell_percentage
    description: Percentage of goblet cells. TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: goblet_cell_percentage
    owner: GobletCellOutput
    domain_of:
    - GobletCellOutput
    range: QuantityValue
    inlined: true
  muc5ac_mrna_expression:
    name: muc5ac_mrna_expression
    description: MUC5AC mRNA expression level (fold change). TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: muc5ac_mrna_expression
    owner: GobletCellOutput
    domain_of:
    - GobletCellOutput
    range: QuantityValue
    inlined: true
  muc5ac_protein_expression:
    name: muc5ac_protein_expression
    description: MUC5AC protein expression level. TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: muc5ac_protein_expression
    owner: GobletCellOutput
    domain_of:
    - GobletCellOutput
    range: QuantityValue
    inlined: true
  muc5b_mrna_expression:
    name: muc5b_mrna_expression
    description: MUC5B mRNA expression level (fold change). TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: muc5b_mrna_expression
    owner: GobletCellOutput
    domain_of:
    - GobletCellOutput
    range: QuantityValue
    inlined: true
  muc5b_protein_expression:
    name: muc5b_protein_expression
    description: MUC5B protein expression level. TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: muc5b_protein_expression
    owner: GobletCellOutput
    domain_of:
    - GobletCellOutput
    range: QuantityValue
    inlined: true
  muc5ac_muc5b_ratio:
    name: muc5ac_muc5b_ratio
    description: MUC5AC to MUC5B ratio. TIER 1 - important for disease state.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: muc5ac_muc5b_ratio
    owner: GobletCellOutput
    domain_of:
    - GobletCellOutput
    range: QuantityValue
    inlined: true
  mucin_protein_concentration:
    name: mucin_protein_concentration
    description: Total mucin protein concentration. TIER 1 - want both direct and
      comparative measures.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: mucin_protein_concentration
    owner: GobletCellOutput
    domain_of:
    - GobletCellOutput
    range: QuantityValue
    inlined: true
  mucin_secretion_rate:
    name: mucin_secretion_rate
    description: Mucin secretion rate. TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: mucin_secretion_rate
    owner: GobletCellOutput
    domain_of:
    - GobletCellOutput
    range: QuantityValue
    inlined: true
  percent_solids:
    name: percent_solids
    description: Percent solids in apical secretion (overall secretion). TIER 1.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: percent_solids
    owner: GobletCellOutput
    domain_of:
    - GobletCellOutput
    range: QuantityValue
    inlined: true
  goblet_to_ciliated_ratio:
    name: goblet_to_ciliated_ratio
    description: Ratio of goblet cells to ciliated cells. TIER 2 - related to transdifferentiation
      but not critical for outcome.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: goblet_to_ciliated_ratio
    owner: GobletCellOutput
    domain_of:
    - GobletCellOutput
    range: QuantityValue
    inlined: true
  mucus_viscosity:
    name: mucus_viscosity
    description: Mucus viscosity in centipoise. TIER 2.
    from_schema: https://w3id.org/EHS-Data-Standards/soma
    rank: 1000
    alias: mucus_viscosity
    owner: GobletCellOutput
    domain_of:
    - GobletCellOutput
    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: GobletCellOutput
    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: GobletCellOutput
    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: GobletCellOutput
    domain_of:
    - NamedThing
    range: string