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Class: StudyActivity (XYZStudyActivity)

An activity in the context of a study, where one or more subjects are studied under the influence of certain factors, with one or more instruments, following a set of protocols

URI: dldemoed:XYZStudyActivity

classDiagram class XYZStudyActivity click XYZStudyActivity href "../XYZStudyActivity/" FlatThing <|-- XYZStudyActivity click FlatThing href "../FlatThing/" XYZStudyActivity : annotations XYZStudyActivity --> "*" FlatAnnotation : annotations click FlatAnnotation href "../FlatAnnotation/" XYZStudyActivity : attributes XYZStudyActivity --> "*" FlatAttributeSpecification : attributes click FlatAttributeSpecification href "../FlatAttributeSpecification/" XYZStudyActivity : broad_mappings XYZStudyActivity : characterized_by XYZStudyActivity --> "*" FlatStatement : characterized_by click FlatStatement href "../FlatStatement/" XYZStudyActivity : close_mappings XYZStudyActivity : description XYZStudyActivity : display_label XYZStudyActivity : display_note XYZStudyActivity : editorial_note XYZStudyActivity : exact_mappings XYZStudyActivity : factors XYZStudyActivity --> "* _recommended_" XYZFactor : factors click XYZFactor href "../XYZFactor/" XYZStudyActivity : identifiers XYZStudyActivity --> "*" Identifier : identifiers click Identifier href "../Identifier/" XYZStudyActivity : implements XYZStudyActivity --> "* _recommended_" XYZProtocol : implements click XYZProtocol href "../XYZProtocol/" XYZStudyActivity : instruments XYZStudyActivity --> "*" XYZInstrument : instruments click XYZInstrument href "../XYZInstrument/" XYZStudyActivity : narrow_mappings XYZStudyActivity : part_of XYZStudyActivity --> "0..1" XYZStudyActivity : part_of click XYZStudyActivity href "../XYZStudyActivity/" XYZStudyActivity : pid XYZStudyActivity : related_mappings XYZStudyActivity : relations XYZStudyActivity --> "*" Thing : relations click Thing href "../Thing/" XYZStudyActivity : schema_type XYZStudyActivity : study XYZStudyActivity --> "1" XYZStudy : study click XYZStudy href "../XYZStudy/" XYZStudyActivity : subjects XYZStudyActivity --> "* _recommended_" XYZSubject : subjects click XYZSubject href "../XYZSubject/"

Inheritance

Slots

Name Cardinality and Range Description Inheritance
factors * recommended
XYZFactor
Factors that influence the subject matter direct
instruments *
XYZInstrument
Instruments employed in a study activity direct
implements * recommended
XYZProtocol
Protocols or standards that are relevant for the subject direct
part_of 0..1
XYZStudyActivity
The entity that the subject is a part of direct
study 1
XYZStudy
The study in which the subject took place or existed direct
subjects * recommended
XYZSubject
Studied subjects direct
display_label 0..1 recommended
String
Label that can be shown when the metadata record is displayed as an item FlatThing
display_note 0..1
String
Note that can be shown when the record is displayed as an item FlatThing
editorial_note *
String
A comment about a metadata record either providing additional information for... FlatThing
identifiers *
Identifier
An unambiguous reference to the subject within a given context FlatThing
pid 1
Uriorcurie
Persistent and globally unique identifier of a Thing Thing
relations *
Thing
Declares an unqualified relation of the subject Thing to another Thing Thing
annotations *
FlatAnnotation
A record of properties of the metadata record on a subject, a collection of t... ThingMixin
broad_mappings *
Uriorcurie
A list of terms from different schemas or terminology systems that have broad... ThingMixin
close_mappings *
Uriorcurie
A list of terms from different schemas or terminology systems that have close... ThingMixin
description 0..1
String
A free-text account of the subject ThingMixin
exact_mappings *
Uriorcurie
A list of terms from different schemas or terminology systems that have ident... ThingMixin
attributes *
FlatAttributeSpecification
Declares a relation that associates a Thing (or another attribute) with an ... ThingMixin
characterized_by *
FlatStatement
Qualifies relationships between a subject Thing and an object Thing with ... ThingMixin
narrow_mappings *
Uriorcurie
A list of terms from different schemas or terminology systems that have narro... ThingMixin
related_mappings *
Uriorcurie
A list of terms from different schemas or terminology systems that have relat... ThingMixin
schema_type 0..1
NodeUriOrCurie
State that the subject is an instance of a particular schema class ThingMixin

Usages

used by used in type used
XYZDataset generated_by range XYZStudyActivity
XYZDataItem generated_by range XYZStudyActivity
XYZStudyActivity part_of range XYZStudyActivity

Identifier and Mapping Information

Schema Source

  • from schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased

Mappings

Mapping Type Mapped Value
self dldemoed:XYZStudyActivity
native dldemoed:XYZStudyActivity

Examples

Example: XYZStudyActivity-1

description: Molecular sexing from blood smears
pid: https://example.org/ns/demo/penguins/sact/DeterminingTheSexOFadelie_N98A1duringPAL0910
display_label: DeterminingTheSexOFadelie_N98A1duringPAL0910
factors:
- https://example.org/ns/demo/penguins/fact/anvers
- https://example.org/ns/demo/penguins/fact/dream
instruments:
- https://example.org/ns/demo/penguins/inst/sterile_syringe
- https://example.org/ns/demo/penguins/inst/heparinized_infusion_needle
- https://example.org/ns/demo/penguins/inst/micro_centrifuge_tube
implements:
- https://example.org/ns/demo/penguins/prot/penguin_blood_sample_collection
- https://example.org/ns/demo/penguins/prot/calculating_penguin_sex_from_blood_smears
part_of: https://example.org/ns/demo/penguins/sact/PAL0910
study: https://example.org/ns/demo/penguins/study/penguins
subjects:
- https://example.org/ns/demo/penguins/subj/adelie_N98A1

LinkML Source

Direct

name: XYZStudyActivity
description: An activity in the context of a study, where one or more subjects are
  studied under the influence of certain factors, with one or more instruments, following
  a set of protocols
title: StudyActivity
from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
is_a: FlatThing
slots:
- factors
- instruments
- implements
- part_of
- study
- subjects
slot_usage:
  study:
    name: study
    annotations:
      sh:order:
        tag: sh:order
        value: 1
    required: true
  subjects:
    name: subjects
    annotations:
      sh:order:
        tag: sh:order
        value: 2
    recommended: true
  implements:
    name: implements
    annotations:
      sh:order:
        tag: sh:order
        value: 3
    recommended: true
  factors:
    name: factors
    annotations:
      sh:order:
        tag: sh:order
        value: 4
    recommended: true
  instruments:
    name: instruments
    annotations:
      sh:order:
        tag: sh:order
        value: 5
  part_of:
    name: part_of
    annotations:
      sh:order:
        tag: sh:order
        value: 6
    range: XYZStudyActivity
  description:
    name: description
    annotations:
      sh:order:
        tag: sh:order
        value: 7
      dash:singleLine:
        tag: dash:singleLine
        value: false
  display_label:
    name: display_label
    annotations:
      sh:order:
        tag: sh:order
        value: 8
    recommended: true

Induced

name: XYZStudyActivity
description: An activity in the context of a study, where one or more subjects are
  studied under the influence of certain factors, with one or more instruments, following
  a set of protocols
title: StudyActivity
from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
is_a: FlatThing
slot_usage:
  study:
    name: study
    annotations:
      sh:order:
        tag: sh:order
        value: 1
    required: true
  subjects:
    name: subjects
    annotations:
      sh:order:
        tag: sh:order
        value: 2
    recommended: true
  implements:
    name: implements
    annotations:
      sh:order:
        tag: sh:order
        value: 3
    recommended: true
  factors:
    name: factors
    annotations:
      sh:order:
        tag: sh:order
        value: 4
    recommended: true
  instruments:
    name: instruments
    annotations:
      sh:order:
        tag: sh:order
        value: 5
  part_of:
    name: part_of
    annotations:
      sh:order:
        tag: sh:order
        value: 6
    range: XYZStudyActivity
  description:
    name: description
    annotations:
      sh:order:
        tag: sh:order
        value: 7
      dash:singleLine:
        tag: dash:singleLine
        value: false
  display_label:
    name: display_label
    annotations:
      sh:order:
        tag: sh:order
        value: 8
    recommended: true
attributes:
  factors:
    name: factors
    annotations:
      sh:order:
        tag: sh:order
        value: 4
    description: Factors that influence the subject matter.
    title: Influencing factors
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    rank: 1000
    alias: factors
    owner: XYZStudyActivity
    domain_of:
    - XYZStudy
    - XYZStudyActivity
    range: XYZFactor
    recommended: true
    multivalued: true
  instruments:
    name: instruments
    annotations:
      sh:order:
        tag: sh:order
        value: 5
    description: Instruments employed in a study activity. This could be physical
      devices, but also software tools.
    title: Used instruments
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    rank: 1000
    alias: instruments
    owner: XYZStudyActivity
    domain_of:
    - XYZStudy
    - XYZStudyActivity
    range: XYZInstrument
    multivalued: true
  implements:
    name: implements
    annotations:
      sh:order:
        tag: sh:order
        value: 3
    description: Protocols or standards that are relevant for the subject. For example
      particular standard operating procedures, data acquisition techniques, or organization
      standards.
    title: Implemented protocols
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    broad_mappings:
    - dcterms:conformsTo
    rank: 1000
    alias: implements
    owner: XYZStudyActivity
    domain_of:
    - XYZStudy
    - XYZStudyActivity
    range: XYZProtocol
    recommended: true
    multivalued: true
  part_of:
    name: part_of
    annotations:
      sh:order:
        tag: sh:order
        value: 6
    description: The entity that the subject is a part of. A core relation that holds
      between a part and its whole.
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    exact_mappings:
    - obo:BFO_0000050
    - dcterms:isPartOf
    rank: 1000
    alias: part_of
    owner: XYZStudyActivity
    domain_of:
    - XYZDataset
    - XYZDataItem
    - XYZDistribution
    - XYZStudyActivity
    range: XYZStudyActivity
  study:
    name: study
    annotations:
      sh:order:
        tag: sh:order
        value: 1
    description: The study in which the subject took place or existed.
    title: Study context
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    rank: 1000
    alias: study
    owner: XYZStudyActivity
    domain_of:
    - XYZStudyActivity
    - XYZSubject
    range: XYZStudy
    required: true
  subjects:
    name: subjects
    annotations:
      sh:order:
        tag: sh:order
        value: 2
    description: Studied subjects.
    title: Studied subjects
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    rank: 1000
    alias: subjects
    owner: XYZStudyActivity
    domain_of:
    - XYZStudyActivity
    range: XYZSubject
    recommended: true
    multivalued: true
  display_label:
    name: display_label
    annotations:
      sh:order:
        tag: sh:order
        value: 8
    description: Label that can be shown when the metadata record is displayed as
      an item.
    title: Record display label
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    rank: 1000
    slot_uri: skos:prefLabel
    alias: display_label
    owner: XYZStudyActivity
    domain_of:
    - FlatThing
    - FlatProperty
    range: string
    recommended: true
  display_note:
    name: display_note
    annotations:
      dash:singleLine:
        tag: dash:singleLine
        value: false
    description: Note that can be shown when the record is displayed as an item. This
      is typically longer than a label.
    title: Record display note
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    rank: 1000
    slot_uri: skos:note
    alias: display_note
    owner: XYZStudyActivity
    domain_of:
    - FlatThing
    - FlatProperty
    range: string
  editorial_note:
    name: editorial_note
    annotations:
      dash:singleLine:
        tag: dash:singleLine
        value: false
    description: A comment about a metadata record either providing additional information
      for a record curation, or leaving a comment after curation occurred. This can
      be used to include information that is deemed relevant, but could not be expressed
      in the provided fields.
    title: Editorial note
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    rank: 1000
    slot_uri: skos:editorialNote
    alias: editorial_note
    owner: XYZStudyActivity
    domain_of:
    - FlatThing
    - FlatProperty
    range: string
    multivalued: true
  identifiers:
    name: identifiers
    description: An unambiguous reference to the subject within a given context.
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    exact_mappings:
    - dcterms:identifier
    - schema:identifier
    - ADMS:identifier
    rank: 1000
    slot_uri: dlidentifiers:identifier
    alias: identifiers
    owner: XYZStudyActivity
    domain_of:
    - FlatThing
    range: Identifier
    multivalued: true
    inlined: true
    inlined_as_list: true
  pid:
    name: pid
    annotations:
      sh:order:
        tag: sh:order
        value: 1
    description: Persistent and globally unique identifier of a `Thing`.
    title: Persistent identifier
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    exact_mappings:
    - dcterms:identifier
    - schema:identifier
    - ADMS:identifier
    rank: 1000
    slot_uri: dlthings:pid
    identifier: true
    alias: pid
    owner: XYZStudyActivity
    domain_of:
    - Thing
    range: uriorcurie
    required: true
  relations:
    name: relations
    annotations:
      sh:order:
        tag: sh:order
        value: 6
    description: Declares an unqualified relation of the subject `Thing` to another
      `Thing`. This schema slot is used to define related things inline. If such a
      definition is not needed. A qualified relationship can be declared directly
      using the `characterized_by` slot.
    title: Relations
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    exact_mappings:
    - dcat:relation
    - dcterms:relation
    rank: 1000
    domain: Thing
    slot_uri: dlthings:relation
    alias: relations
    owner: XYZStudyActivity
    domain_of:
    - Thing
    symmetric: true
    relational_role: OBJECT
    range: Thing
    multivalued: true
    inlined: true
    inlined_as_list: false
  annotations:
    name: annotations
    annotations:
      sh:order:
        tag: sh:order
        value: 5
    description: A record of properties of the metadata record on a subject, a collection
      of tag/text tuples with the semantics of OWL Annotation.
    title: Annotations
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    exact_mappings:
    - obo:NCIT_C44272
    rank: 1000
    slot_uri: dlthings:annotations
    alias: annotations
    owner: XYZStudyActivity
    domain_of:
    - ThingMixin
    range: FlatAnnotation
    multivalued: true
    inlined: true
  broad_mappings:
    name: broad_mappings
    annotations:
      sh:order:
        tag: sh:order
        value: 9
    description: A list of terms from different schemas or terminology systems that
      have broader meaning.
    title: Broad mappings
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    rank: 1000
    is_a: mappings
    slot_uri: skos:broadMatch
    alias: broad_mappings
    owner: XYZStudyActivity
    domain_of:
    - ThingMixin
    range: uriorcurie
    multivalued: true
  close_mappings:
    name: close_mappings
    annotations:
      sh:order:
        tag: sh:order
        value: 8
    description: A list of terms from different schemas or terminology systems that
      have close meaning.
    title: Close mappings
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    rank: 1000
    is_a: mappings
    slot_uri: skos:closeMatch
    alias: close_mappings
    owner: XYZStudyActivity
    domain_of:
    - ThingMixin
    range: uriorcurie
    multivalued: true
  description:
    name: description
    annotations:
      sh:order:
        tag: sh:order
        value: 7
      dash:singleLine:
        tag: dash:singleLine
        value: false
    description: A free-text account of the subject.
    title: Description
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    exact_mappings:
    - dcterms:description
    - rdfs:comment
    broad_mappings:
    - obo:IAO_0000300
    rank: 1000
    slot_uri: dlthings:description
    alias: description
    owner: XYZStudyActivity
    domain_of:
    - ThingMixin
    range: string
  exact_mappings:
    name: exact_mappings
    annotations:
      sh:order:
        tag: sh:order
        value: 7
    description: A list of terms from different schemas or terminology systems that
      have identical meaning.
    title: Exact mappings
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    rank: 1000
    is_a: mappings
    slot_uri: skos:exactMatch
    alias: exact_mappings
    owner: XYZStudyActivity
    domain_of:
    - ThingMixin
    range: uriorcurie
    multivalued: true
  attributes:
    name: attributes
    annotations:
      sh:order:
        tag: sh:order
        value: 3
    description: Declares a relation that associates a `Thing` (or another attribute)
      with an attribute, where an attribute is an intrinsic characteristic, such as
      a quality, capability, disposition, function, or is an externally derived attribute
      determined from some descriptor (e.g. a quantity, position, label/identifier).
      Technically, this declaration is done via an `AttributeSpecification` that combines
      a `predicate` with a value declaration and the attribute-related slots of a
      `Thing`. Importantly, such attributes are declared inline, because they do not
      have a unique identifier. If an identifier is available, a `Thing` declaration
      (see `relation`), and a qualification of that relationship via a `Statement`
      (see `characterized_by`) should be preferred.
    title: Attributes
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    exact_mappings:
    - sio:SIO_000008
    rank: 1000
    slot_uri: dlthings:attributes
    alias: attributes
    owner: XYZStudyActivity
    domain_of:
    - ThingMixin
    range: FlatAttributeSpecification
    multivalued: true
    inlined: true
    inlined_as_list: true
  characterized_by:
    name: characterized_by
    annotations:
      sh:order:
        tag: sh:order
        value: 2
    description: Qualifies relationships between a subject `Thing` and an object `Thing`
      with a `Statement` declaring a `predicate` on the nature of the relationship.
    title: Is characterized by
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    exact_mappings:
    - obo:RO_0000053
    rank: 1000
    slot_uri: dlthings:characterized_by
    alias: characterized_by
    owner: XYZStudyActivity
    domain_of:
    - ThingMixin
    range: FlatStatement
    multivalued: true
    inlined: true
    inlined_as_list: true
  narrow_mappings:
    name: narrow_mappings
    annotations:
      sh:order:
        tag: sh:order
        value: 10
    description: A list of terms from different schemas or terminology systems that
      have narrower meaning.
    title: Narrow mappings
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    rank: 1000
    is_a: mappings
    slot_uri: skos:narrowMatch
    alias: narrow_mappings
    owner: XYZStudyActivity
    domain_of:
    - ThingMixin
    range: uriorcurie
    multivalued: true
  related_mappings:
    name: related_mappings
    annotations:
      sh:order:
        tag: sh:order
        value: 11
    description: A list of terms from different schemas or terminology systems that
      have related meaning.
    title: Related mappings
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    rank: 1000
    is_a: mappings
    slot_uri: skos:relatedMatch
    alias: related_mappings
    owner: XYZStudyActivity
    domain_of:
    - ThingMixin
    range: uriorcurie
    multivalued: true
  schema_type:
    name: schema_type
    description: State that the subject is an instance of a particular schema class.
      Typically, no explicit value needs to be assigned to this slot, because it matches
      the class type of a particular record. However, this slots can be used as a
      type designator of a schema element for validation and schema structure handling
      purposes. This is used to indicate specialized schema classes for properties
      that accept a hierarchy of classes as their range.
    from_schema: https://concepts.datalad.org/s/demo-empirical-data/unreleased
    exact_mappings:
    - dcterms:type
    rank: 1000
    slot_uri: rdf:type
    designates_type: true
    alias: schema_type
    owner: XYZStudyActivity
    domain_of:
    - ThingMixin
    - Identifier
    range: NodeUriOrCurie