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Class: OverlapExtensionPCRLigationSource

Represents the source of a sequence that is generated by ligation of PCR products as part of overlap extension PCR. Algorithmically equivalent to Gibson assembly.

URI: opencloning_linkml:OverlapExtensionPCRLigationSource

classDiagram class OverlapExtensionPCRLigationSource click OverlapExtensionPCRLigationSource href "../OverlapExtensionPCRLigationSource" AssemblySource <|-- OverlapExtensionPCRLigationSource click AssemblySource href "../AssemblySource" OverlapExtensionPCRLigationSource : assembly OverlapExtensionPCRLigationSource --> "*" AssemblyFragment : assembly click AssemblyFragment href "../AssemblyFragment" OverlapExtensionPCRLigationSource : circular OverlapExtensionPCRLigationSource : database_id OverlapExtensionPCRLigationSource : id OverlapExtensionPCRLigationSource : input OverlapExtensionPCRLigationSource --> "*" Sequence : input click Sequence href "../Sequence" OverlapExtensionPCRLigationSource : output OverlapExtensionPCRLigationSource --> "0..1" Sequence : output click Sequence href "../Sequence" OverlapExtensionPCRLigationSource : output_name OverlapExtensionPCRLigationSource : type

Inheritance

Slots

Name Cardinality and Range Description Inheritance
circular 0..1
Boolean		 Whether the assembly is circular or not AssemblySource
assembly *
AssemblyFragment		 A list of the fragments that are assembled, in order AssemblySource
input *
Sequence		 The sequences that are an input to this source Source
output 0..1
Sequence		 Identifier of the sequence that is the output of this source Source
type 0..1
String		 Designates the class Source
output_name 0..1
String		 Used to specify the name of the output sequence Source
database_id 0..1
Integer		 The id of an entity in a database Source
id 1
Integer		 A unique identifier for a thing NamedThing

Identifier and Mapping Information

Schema Source

  • from schema: https://opencloning.github.io/OpenCloning_LinkML

Mappings

Mapping Type Mapped Value
self opencloning_linkml:OverlapExtensionPCRLigationSource
native opencloning_linkml:OverlapExtensionPCRLigationSource

LinkML Source

Direct

name: OverlapExtensionPCRLigationSource
description: Represents the source of a sequence that is generated by ligation of
  PCR products as part of overlap extension PCR. Algorithmically equivalent to Gibson
  assembly.
from_schema: https://opencloning.github.io/OpenCloning_LinkML
is_a: AssemblySource

Induced

name: OverlapExtensionPCRLigationSource
description: Represents the source of a sequence that is generated by ligation of
  PCR products as part of overlap extension PCR. Algorithmically equivalent to Gibson
  assembly.
from_schema: https://opencloning.github.io/OpenCloning_LinkML
is_a: AssemblySource
attributes:
  circular:
    name: circular
    description: Whether the assembly is circular or not
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    alias: circular
    owner: OverlapExtensionPCRLigationSource
    domain_of:
    - TemplateSequence
    - ManuallyTypedSource
    - AssemblySource
    range: boolean
  assembly:
    name: assembly
    description: A list of the fragments that are assembled, in order
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    alias: assembly
    owner: OverlapExtensionPCRLigationSource
    domain_of:
    - AssemblySource
    range: AssemblyFragment
    required: false
    multivalued: true
    inlined: true
    inlined_as_list: true
  input:
    name: input
    description: The sequences that are an input to this source. If the source represents
      external import of a sequence, it's empty.
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    slot_uri: schema:object
    alias: input
    owner: OverlapExtensionPCRLigationSource
    domain_of:
    - Source
    range: Sequence
    required: false
    multivalued: true
    inlined_as_list: false
  output:
    name: output
    description: Identifier of the sequence that is the output of this source.
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    slot_uri: schema:result
    alias: output
    owner: OverlapExtensionPCRLigationSource
    domain_of:
    - Source
    range: Sequence
    required: false
    inlined: false
  type:
    name: type
    description: Designates the class
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    designates_type: true
    alias: type
    owner: OverlapExtensionPCRLigationSource
    domain_of:
    - Sequence
    - Source
    - CollectionOptionInfo
    - AnnotationReport
    - AssociatedFile
    range: string
  output_name:
    name: output_name
    description: Used to specify the name of the output sequence
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    alias: output_name
    owner: OverlapExtensionPCRLigationSource
    domain_of:
    - Source
    range: string
    required: false
  database_id:
    name: database_id
    description: The id of an entity in a database
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    slot_uri: schema:identifier
    alias: database_id
    owner: OverlapExtensionPCRLigationSource
    domain_of:
    - Primer
    - Source
    - DatabaseSource
    range: integer
    required: false
  id:
    name: id
    description: A unique identifier for a thing
    from_schema: https://opencloning.github.io/OpenCloning_LinkML
    rank: 1000
    slot_uri: schema:identifier
    identifier: true
    alias: id
    owner: OverlapExtensionPCRLigationSource
    domain_of:
    - NamedThing
    - Sequence
    range: integer
    required: true