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Class: ReferenceSequence

A contiguous sequence of DNA part of a reference coordinate system (genome assembly).

URI: modos:ReferenceSequence

classDiagram class ReferenceSequence click ReferenceSequence href "../ReferenceSequence" NamedThing <|-- ReferenceSequence click NamedThing href "../NamedThing" ReferenceSequence : description ReferenceSequence : id ReferenceSequence : name ReferenceSequence : sequence_md5 ReferenceSequence : source_uri ReferenceSequence : version

Inheritance

Slots

Name Cardinality and Range Description Inheritance
sequence_md5 0..1
String		 The pre-computed hash uniquely representing a biological sequence direct
source_uri 0..1
Uri		 The URI from which a resource or dataset was obtained or derived direct
version 0..1
String		 A string specifying the release or version of a software or resource direct
id 1
Uriorcurie		 A unique identifier for a thing NamedThing
name 0..1
String		 A human-readable name for a thing NamedThing
description 0..1
String		 A human-readable description for a thing NamedThing

Usages

used by used in type used
ReferenceGenome has_sequence range ReferenceSequence

See Also

Identifier and Mapping Information

Schema Source

  • from schema: https://w3id.org/sdsc-ordes/modos-schema

Mappings

Mapping Type Mapped Value
self modos:ReferenceSequence
native modos:ReferenceSequence

LinkML Source

Direct

name: ReferenceSequence
description: A contiguous sequence of DNA part of a reference coordinate system (genome
  assembly).
from_schema: https://w3id.org/sdsc-ordes/modos-schema
see_also:
- GENO:0000017
is_a: NamedThing
slots:
- sequence_md5
- source_uri
- version

Induced

name: ReferenceSequence
description: A contiguous sequence of DNA part of a reference coordinate system (genome
  assembly).
from_schema: https://w3id.org/sdsc-ordes/modos-schema
see_also:
- GENO:0000017
is_a: NamedThing
attributes:
  sequence_md5:
    name: sequence_md5
    description: The pre-computed hash uniquely representing a biological sequence.
      Calculated as the MD5 of the upper-case sequence excluding all whitespace characters
      (this is equivalent to SQ:M5 in SAM).
    from_schema: https://w3id.org/sdsc-ordes/modos-schema
    rank: 1000
    alias: sequence_md5
    owner: ReferenceSequence
    domain_of:
    - ReferenceSequence
    range: string
    pattern: ^[a-f0-9]{32}$
  source_uri:
    name: source_uri
    description: The URI from which a resource or dataset was obtained or derived.
    from_schema: https://w3id.org/sdsc-ordes/modos-schema
    rank: 1000
    alias: source_uri
    owner: ReferenceSequence
    domain_of:
    - MODO
    - ReferenceGenome
    - ReferenceSequence
    range: uri
  version:
    name: version
    description: A string specifying the release or version of a software or resource.
    from_schema: https://w3id.org/sdsc-ordes/modos-schema
    rank: 1000
    alias: version
    owner: ReferenceSequence
    domain_of:
    - ReferenceGenome
    - ReferenceSequence
    range: string
  id:
    name: id
    description: A unique identifier for a thing
    from_schema: https://w3id.org/sdsc-ordes/modos-schema
    rank: 1000
    slot_uri: schema:identifier
    identifier: true
    alias: id
    owner: ReferenceSequence
    domain_of:
    - NamedThing
    range: uriorcurie
    required: true
  name:
    name: name
    description: A human-readable name for a thing
    from_schema: https://w3id.org/sdsc-ordes/modos-schema
    rank: 1000
    slot_uri: schema:name
    alias: name
    owner: ReferenceSequence
    domain_of:
    - NamedThing
    range: string
  description:
    name: description
    description: A human-readable description for a thing
    from_schema: https://w3id.org/sdsc-ordes/modos-schema
    rank: 1000
    slot_uri: schema:description
    alias: description
    owner: ReferenceSequence
    domain_of:
    - NamedThing
    range: string