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Class: Organism

Bacterial organism/strain used in phage interaction studies. Primarily E. coli strains for phage therapy research.

EXAMPLE ORGANISMS: - E. coli 370D - E. coli 381A - E. coli 536

URI: https://w3id.org/kbase/phagefoundry_strain_modelling/Organism

classDiagram class Organism click Organism href "../Organism/" Organism : description Organism : domain Organism : full_name Organism : id Organism : name

Slots

Name Cardinality and Range Description Inheritance
id 1
Integer		 Internal organism ID direct
name 1
String		 Short organism/strain name direct
full_name 0..1
String		 Full organism name with species direct
domain 0..1
String		 Taxonomic domain direct
description 0..1
String		 Organism description (optional) direct

Identifier and Mapping Information

Annotations

property value
source_table strainmodelling_organism

Schema Source

  • from schema: https://w3id.org/kbase/phagefoundry_strain_modelling

Mappings

Mapping Type Mapped Value
self https://w3id.org/kbase/phagefoundry_strain_modelling/Organism
native https://w3id.org/kbase/phagefoundry_strain_modelling/Organism

LinkML Source

Direct

name: Organism
annotations:
  source_table:
    tag: source_table
    value: strainmodelling_organism
description: 'Bacterial organism/strain used in phage interaction studies. Primarily
  E. coli strains for phage therapy research.

  EXAMPLE ORGANISMS: - E. coli 370D - E. coli 381A - E. coli 536'
from_schema: https://w3id.org/kbase/phagefoundry_strain_modelling
attributes:
  id:
    name: id
    description: Internal organism ID
    examples:
    - value: '297'
    - value: '298'
    - value: '299'
    from_schema: https://w3id.org/kbase/phagefoundry_strain_modelling
    rank: 1000
    identifier: true
    domain_of:
    - Organism
    - OrganismMetadata
    - Genome
    - GenomeSet
    - Sequence
    - Gene
    - Experiment
    - ExperimentMetadata
    - ExperimentMetric
    - Feature
    - FeatureMetric
    - FeatureInterval
    - Interaction
    - Interval
    - ProteinFamily
    range: integer
    required: true
  name:
    name: name
    description: Short organism/strain name
    examples:
    - value: 370D
    - value: 381A
    - value: '536'
    from_schema: https://w3id.org/kbase/phagefoundry_strain_modelling
    rank: 1000
    domain_of:
    - Organism
    - Genome
    - GenomeSet
    - Sequence
    - Experiment
    - Feature
    - ProteinFamily
    range: string
    required: true
  full_name:
    name: full_name
    description: Full organism name with species
    examples:
    - value: E. coli 370D
    - value: E. coli 381A
    - value: E. coli 536
    from_schema: https://w3id.org/kbase/phagefoundry_strain_modelling
    rank: 1000
    domain_of:
    - Organism
    range: string
  domain:
    name: domain
    description: Taxonomic domain
    examples:
    - value: Bacteria
    from_schema: https://w3id.org/kbase/phagefoundry_strain_modelling
    rank: 1000
    domain_of:
    - Organism
    range: string
  description:
    name: description
    description: Organism description (optional)
    from_schema: https://w3id.org/kbase/phagefoundry_strain_modelling
    rank: 1000
    domain_of:
    - Organism
    - GenomeSet
    - Experiment
    - ProteinFamily
    range: string

Induced

name: Organism
annotations:
  source_table:
    tag: source_table
    value: strainmodelling_organism
description: 'Bacterial organism/strain used in phage interaction studies. Primarily
  E. coli strains for phage therapy research.

  EXAMPLE ORGANISMS: - E. coli 370D - E. coli 381A - E. coli 536'
from_schema: https://w3id.org/kbase/phagefoundry_strain_modelling
attributes:
  id:
    name: id
    description: Internal organism ID
    examples:
    - value: '297'
    - value: '298'
    - value: '299'
    from_schema: https://w3id.org/kbase/phagefoundry_strain_modelling
    rank: 1000
    identifier: true
    alias: id
    owner: Organism
    domain_of:
    - Organism
    - OrganismMetadata
    - Genome
    - GenomeSet
    - Sequence
    - Gene
    - Experiment
    - ExperimentMetadata
    - ExperimentMetric
    - Feature
    - FeatureMetric
    - FeatureInterval
    - Interaction
    - Interval
    - ProteinFamily
    range: integer
    required: true
  name:
    name: name
    description: Short organism/strain name
    examples:
    - value: 370D
    - value: 381A
    - value: '536'
    from_schema: https://w3id.org/kbase/phagefoundry_strain_modelling
    rank: 1000
    alias: name
    owner: Organism
    domain_of:
    - Organism
    - Genome
    - GenomeSet
    - Sequence
    - Experiment
    - Feature
    - ProteinFamily
    range: string
    required: true
  full_name:
    name: full_name
    description: Full organism name with species
    examples:
    - value: E. coli 370D
    - value: E. coli 381A
    - value: E. coli 536
    from_schema: https://w3id.org/kbase/phagefoundry_strain_modelling
    rank: 1000
    alias: full_name
    owner: Organism
    domain_of:
    - Organism
    range: string
  domain:
    name: domain
    description: Taxonomic domain
    examples:
    - value: Bacteria
    from_schema: https://w3id.org/kbase/phagefoundry_strain_modelling
    rank: 1000
    alias: domain
    owner: Organism
    domain_of:
    - Organism
    range: string
  description:
    name: description
    description: Organism description (optional)
    from_schema: https://w3id.org/kbase/phagefoundry_strain_modelling
    rank: 1000
    alias: description
    owner: Organism
    domain_of:
    - Organism
    - GenomeSet
    - Experiment
    - ProteinFamily
    range: string