LSRN Schema Descriptions

This Version: http://www.lsrn.org/lsrn/schema [.html] [.owl]
Latest Version: http://www.lsrn.org/lsrn/schema.owl
Authors: Sergei Egorov <esl@ariadnegenomics.com>
Contributors

This work is licensed under a Creative Commons License.

Introduction
Namespace
Summary of Terms
Vocabulary Classes
Vocabulary Properties
RDF Schema
License

Introduction

This vocabulary defines terms used to describe Life Science Record Name (LSRN) Schemas and related metadata. An LSRN Schema defines a prefix (e.g. GO:), the format of the prefix-dependent record identifier, and the associated metadata.

This vocabulary is based on Gene Ontology Consortium's GO.xrf_abbs file format. Alterations were made to clarify ambiguous properies and make the format more suitable for automatic processing by LSRN resolver.

This vocabulary's metadata and format are based upon those of the FRBR-core vocabulary by Richard Newman and Ian Davis, available under CC license. The same license type is used to license this work.

Changes From Previous Version

2006-03-08 - editorial change by Sergei Egorov: "Fixed cardinality type error"
2006-02-12 - editorial change by Sergei Egorov: "Added OWL ontology metadata"
2006-02-12 - semantic change by Sergei Egorov: "First version"

Namespace

The URI for this vocabulary is

http://www.lsrn.org/lsrn/schema.owl#

When used in XML documents the suggested prefix is lsrs

Each class or property in the vocabulary has a URI constructed by appending a term name to the vocabulary URI. For example:

http://www.lsrn.org/lsrn/schema.owl#database
http://www.lsrn.org/lsrn/schema.owl#Schema

The term name for a class always starts with an uppercase character. Where the term name is comprised of multiple concatenated words, the leading character of each word will be an uppercase character. For example:

Schema

The term name for a property always starts with a lowercase character. Where the term name is comprised of multiple concatenated words, the words will be separated by underscore. For example:

database
database_url

Summary of Terms

This vocabulary defines one class and 17 properties .

Term Name	Type	Definition
Schema	class	A schema for Life Science Record Names.
ariadne_rnef_property	property	Ariadne Genomics RNEF property name for the schema.
database	property	The name of the database storing the record, e.g. 'Gene Ontology'.
database_url	property	Web address of the database storing the record.
id_example	property	Example of database ID for the record (sans prefix).
id_example_subject	property	Subject for the example ID.
id_format	property	Free-text format description, e.g. 'positive numeral'.
id_pattern_ere	property	POSIX-style extended regexp pattern for database IDs, e.g. '[A-Z][0-9]+'.
id_type	property	ID type, e.g. 'sequential identifier' or 'accession number'.
ncbi_db_xref	property	NCBI db_xref key for the schema, if different from schema prefix.
record_primary_subject	property	Primary subject of database record, e.g. 'gene'.
record_subject	property	Secondary subject of database record, e.g. 'genetic disorders'.
redirect_to_ere	property	A regexp template for replacement LSRN.
redirect_to_prefix	property	Another prefix to be used in place of the current one, e.g. 'INSD:'.
url_template_ere	property	A regexp template to form a URL.
url_template_prefix	property	A URL prefix to form a complete URL.

Vocabulary Classes

Class: Schema

Definition: A schema for Life Science Record Names.

A member of this class describes the subject of a record, format of its name (prefix and prefix-dependent part), and its mapping to other identifiers and locators (URIs, URLs). Members of this class should have unique URIs in http://www.lsrn.org/lsrn/registry.rdf# namespace; their RDF identifiers serve as LSRN prefixes (e.g. http://www.lsrn.org/lsrn/registry.rdf#GO defines the GO: prefix and GO schema).

URI:	http://www.lsrn.org/lsrn/schema.owl#Schema
Label:	LSRN Schema

History

2006-02-12 - first issued
2006-02-12 - editorial change by Sergei Egorov: "Added comment"

Vocabulary Properties

Property: ariadne_rnef_property

Definition: [The value of this property is] Ariadne Genomics RNEF property name for the schema.

This property is used to facilitate mapping between LSRN schemas and external ontology.

URI:	http://www.lsrn.org/lsrn/schema.owl#ariadne_rnef_property
Label:	RNEF property name
Domain	lsrs:Schema
Range	xsd:string

History

2006-02-12 - first issued

Property: database

Definition: [The value of this property is] The name of the database storing the record, e.g. 'Gene Ontology'.

URI:	http://www.lsrn.org/lsrn/schema.owl#database
Label:	source database
Domain	lsrs:Schema
Range	xsd:string

History

2006-02-12 - first issued

Property: database_url

Definition: [The value of this property is] Web address of the database storing the record.

This should be a link to the database's home page or some other good starting point for exploration of the database's metadata and content.

URI:	http://www.lsrn.org/lsrn/schema.owl#database_url
Label:	database URL
Domain	lsrs:Schema
Range	xsd:anyURI

History

2006-02-12 - first issued

Property: id_example

Definition: [The value of this property is] Example of database ID for the record (sans prefix).

This property should be a real ID. Together with the corresponding id_example_subject, it is used to check the LSRN registry for dead links.

URI:	http://www.lsrn.org/lsrn/schema.owl#id_example
Label:	example of ID
Domain	lsrs:Schema
Range	xsd:string

History

2006-02-12 - first issued

Property: id_example_subject

Definition: [The value of this property is] Subject for the example ID.

This property is used together with id_example to check the LSRN registry for dead links. For each URL template, a URL is produced by substituting id_example, and the resulting resource is retrieved and checked for literal presence of the id_example_subject string.

URI:	http://www.lsrn.org/lsrn/schema.owl#id_example_subject
Label:	subject of ID example
Domain	lsrs:Schema
Range	xsd:string

History

2006-02-12 - first issued

Property: id_format

Definition: [The value of this property is] Free-text format description, e.g. 'positive numeral'.

In the future, this property will be accompanied by a reference to a term from a suitable ontology of common syntaxes for database identifiers. To simplify the transition, please try to use one of the existing values before inventing your own.

URI:	http://www.lsrn.org/lsrn/schema.owl#id_format
Label:	format of a database ID
Domain	lsrs:Schema
Range	xsd:string

History

2006-02-12 - first issued

Property: id_pattern_ere

Definition: [The value of this property is] POSIX-style extended regexp pattern for database IDs, e.g. '[A-Z][0-9]+'.

This property should be a valid POSIX ERE (extended regular expression). It should be present if either redirect_to_ere or url_template_ere properties are specified. Group subexpressions ised in id_pattern_ere can be referred to via \1 .. \9 substitution patterns in the template properties.

URI:	http://www.lsrn.org/lsrn/schema.owl#id_pattern_ere
Label:	regexp for database ID
Domain	lsrs:Schema
Range	xsd:string

History

2006-02-12 - first issued

Property: id_type

Definition: [The value of this property is] ID type, e.g. 'sequential identifier' or 'accession number'.

In the future, this property will be accompanied by a reference to a term from a suitable ontology of common maintenance models for database identifiers. To simplify the transition, please try to use one of the existing values before inventing your own.

URI:	http://www.lsrn.org/lsrn/schema.owl#id_type
Label:	type of a database ID
Domain	lsrs:Schema
Range	xsd:string

History

2006-02-12 - first issued

Property: ncbi_db_xref

Definition: [The value of this property is] NCBI db_xref key for the schema, if different from schema prefix.

This property is used to preserve the original NCBI's db_xref key if it contains characters which cannot be used in LSRN schema names.

URI:	http://www.lsrn.org/lsrn/schema.owl#ncbi_db_xref
Label:	NCBI db_xref key
Domain	lsrs:Schema
Range	xsd:string

History

2006-02-12 - first issued

Property: record_primary_subject

Definition: [The value of this property is] Primary subject of database record, e.g. 'gene'.

In the future, this property will be accompanied by a reference to a term from a suitable ontology of common subjects of life science database records. To simplify the transition, please try to use one of the existing values before inventing your own.

URI:	http://www.lsrn.org/lsrn/schema.owl#record_primary_subject
Label:	primary subject of db record
Domain	lsrs:Schema
Range	xsd:string

History

2006-02-12 - first issued

Property: record_subject

Definition: [The value of this property is] Secondary subject of database record, e.g. 'genetic disorders'.

URI:	http://www.lsrn.org/lsrn/schema.owl#record_subject
Label:	secondary subject of db record
Domain	lsrs:Schema
Range	xsd:string

History

2006-02-12 - first issued

Property: redirect_to_ere

Definition: [The value of this property is] A regexp template for replacement LSRN.

This property should be a template used with id_pattern_ere regexp pattern. The template is copied, making substitutions according to the regexp match performed using id_pattern_ere. Each instance of '&' in template is replaced by the entire identifier. Each instance of '\n', where n is a digit between 1 and 9, is replaced by the substring corresponding to parenthesized group in id_pattern_ere. To get a literal '&' or '\n', prefix it in the template with '\'; to get a literal '\' preceding '&' or '\n', prefix it with another '\'.

URI:	http://www.lsrn.org/lsrn/schema.owl#redirect_to_ere
Label:	redirect via regexp
Domain	lsrs:Schema
Range	xsd:string

History

2006-02-12 - first issued

Property: redirect_to_prefix

Definition: [The value of this property is] Another prefix to be used in place of the current one, e.g. 'INSD:'.

This property is used by LSRN Resolver service to process alternative or common names and propose their canonical variants. The replacement LSRN is formed by appending the identifier part to the redirect_to_prefix property, which should end in colon.

URI:	http://www.lsrn.org/lsrn/schema.owl#redirect_to_prefix
Label:	redirect to prefix
Domain	lsrs:Schema
Range	xsd:string

History

2006-02-12 - first issued

Property: url_template_ere

Definition: [The value of this property is] A regexp template to form a URL.

This property is used by LSRN Resolver to form a URL for the record. The template is copied, making substitutions according to the regexp match performed using id_pattern_ere. Each instance of '&' in template is replaced by the entire identifier. Each instance of '\n', where n is a digit between 1 and 9, is replaced by the substring corresponding to parenthesized group in id_pattern_ere. To get a literal '&' or '\n', prefix it in the template with '\'; to get a literal '\' preceding '&' or '\n', prefix it with another '\'.

URI:	http://www.lsrn.org/lsrn/schema.owl#url_template_ere
Label:	URL template for ID regexp
Domain	lsrs:Schema
Range	xsd:string

History

2006-02-12 - first issued

Property: url_template_prefix

Definition: [The value of this property is] A URL prefix to form a complete URL.

This property is used by LSRN Resolver to form a URL for the record. URLs are formed by appending the identifier part to each url_template_prefix property.

URI:	http://www.lsrn.org/lsrn/schema.owl#url_template_prefix
Label:	URL template prefix
Domain	lsrs:Schema
Range	xsd:string

History

2006-02-12 - first issued

RDF Schema

The schema included here is informational only. The normative schema can be found at http://www.lsrn.org/lsrn/schema.owl

<rdf:RDF
   xmlns:lsrs="http://www.lsrn.org/lsrn/schema.owl#"
   xmlns:skos="http://www.w3.org/2004/02/skos/core#"
   xmlns:vann="http://purl.org/vocab/vann/"
   xmlns:cc="http://web.resource.org/cc/"
   xmlns:dctype="http://purl.org/dc/dcmitype/"
   xmlns:dct="http://purl.org/dc/terms/"
   xmlns:dc="http://purl.org/dc/elements/1.1/"
   xmlns:owl="http://www.w3.org/2002/07/owl#"
   xmlns:rdfs="http://www.w3.org/2000/01/rdf-schema#"
   xmlns:rdf="http://www.w3.org/1999/02/22-rdf-syntax-ns#" 
   xml:base="http://www.lsrn.org/lsrn/schema.owl">
  
  <owl:Ontology
     rdf:about=""
     dc:date="2006-02-12">
    <dc:title xml:lang="en">LSRN Schema Descriptions</dc:title>
    <rdfs:comment xml:lang="en">
      This vocabulary defines terms used to describe Life Science Record 
      Name (LSRN) Schemas and related metadata. LSRN Schema defines a prefix 
      (e.g. GO:), the format of the prefix-dependent record identifier, and 
      the associated metadata.
    </rdfs:comment>
    <rdfs:comment xml:lang="en">
      This vocabulary is based on Gene Ontology Consortium's GO.xrf_abbs file 
      format. Alterations were made to clarify ambiguous properies and make 
      the format more suitable for automatic processing by LSRN resolver.
    </rdfs:comment>
    <rdfs:comment xml:lang="en">
      This vocabulary's metadata and format are based upon those of the 
      FRBR-core vocabulary by Richard Newman and Ian Davis, available under CC 
      license. The same license type is used to license this work.
    </rdfs:comment>
    <dc:identifier>http://www.lsrn.org/lsrn/schema</dc:identifier>
    <dct:isVersionOf rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:seeAlso rdf:resource="http://www.geneontology.org/GO.usage.shtml#synonyms"/>
    <rdfs:seeAlso rdf:resource="http://www.geneontology.org/doc/GO.xrf_abbs"/>
    <rdfs:seeAlso rdf:resource="http://vocab.org/frbr/core"/>
    <dc:creator>Sergei Egorov <esl@ariadnegenomics.com></dc:creator>
    <dc:rights>Copyright © 2006 Sergei Egorov</dc:rights>
    <dc:rights>GO.xrf_abbs Copyright © 1999-2006 the Gene Ontology Consortium</dc:rights>
    <dc:rights>OWL metadata&format Copyright © 2005 Richard Newman and Ian Davis</dc:rights>
    <vann:preferredNamespaceUri>http://www.lsrn.org/lsrn/schema.owl#</vann:preferredNamespaceUri>
    <vann:preferredNamespacePrefix>lsrs</vann:preferredNamespacePrefix>
    <dct:hasFormat>
      <dctype:Text rdf:about="http://www.lsrn.org/lsrn/schema.html">
        <dc:format>
          <dct:IMT>
            <rdf:value>text/html</rdf:value>
            <rdfs:label xml:lang="en">HTML</rdfs:label>
          </dct:IMT>
        </dc:format>
      </dctype:Text>
    </dct:hasFormat>
    <dct:hasFormat>
      <dctype:Text rdf:about="http://www.lsrn.org/lsrn/schema.owl">
        <dc:format>
          <dct:IMT>
            <rdf:value>application/rdf+xml</rdf:value>
            <rdfs:label xml:lang="en">RDF</rdfs:label>
          </dct:IMT>
        </dc:format>
      </dctype:Text>
    </dct:hasFormat>
    <skos:example rdf:resource="./registry.rdf"/>
    <dct:issued>2006-02-12</dct:issued>
    <skos:changeNote
       rdf:value="Added OWL ontology metadata"
       dc:date="2006-02-12"
       dc:creator="Sergei Egorov"/>
    <skos:historyNote
       rdf:value="First version"
       dc:date="2006-02-12"
       dc:creator="Sergei Egorov"/>
  </owl:Ontology>
  
  <cc:Work rdf:about="">
    <cc:license rdf:resource="http://creativecommons.org/licenses/by/2.0/uk/"/>
  </cc:Work>
  
  <cc:License rdf:about="http://creativecommons.org/licenses/by/2.0/uk/">
    <cc:permits rdf:resource="http://web.resource.org/cc/Reproduction"/>
    <cc:permits rdf:resource="http://web.resource.org/cc/Distribution"/>
    <cc:requires rdf:resource="http://web.resource.org/cc/Notice"/>
    <cc:requires rdf:resource="http://web.resource.org/cc/Attribution"/>
    <cc:permits rdf:resource="http://web.resource.org/cc/DerivativeWorks"/>
  </cc:License>
  
  <owl:ObjectProperty rdf:about="http://purl.org/dc/elements/1.1/format"/>
  <owl:ObjectProperty rdf:about="http://purl.org/dc/terms/hasFormat"/>
  <owl:AnnotationProperty rdf:about="http://purl.org/dc/terms/isVersionOf"/>
  <owl:AnnotationProperty rdf:about="http://purl.org/dc/terms/replaces"/>
  <owl:AnnotationProperty rdf:about="http://purl.org/dc/elements/1.1/type"/>
  <owl:DatatypeProperty rdf:about="http://purl.org/dc/elements/1.1/rights"/>
  <owl:DatatypeProperty rdf:about="http://purl.org/dc/elements/1.1/date"/>
  <owl:DatatypeProperty rdf:about="http://purl.org/dc/elements/1.1/identifier"/>
  <owl:DatatypeProperty rdf:about="http://purl.org/dc/elements/1.1/contributor"/>
  <owl:DatatypeProperty rdf:about="http://purl.org/dc/elements/1.1/title"/>
  <owl:AnnotationProperty rdf:about="http://purl.org/vocab/vann/preferredNamespacePrefix"/>
  <owl:AnnotationProperty rdf:about="http://purl.org/vocab/vann/preferredNamespaceUri"/>
  <owl:AnnotationProperty rdf:about="http://purl.org/vocab/vann/changes"/>
  <owl:DatatypeProperty rdf:about="http://www.w3.org/1999/02/22-rdf-syntax-ns#value"/>
  <owl:Class rdf:about="http://web.resource.org/cc/License"/>
  <owl:Class rdf:about="http://web.resource.org/cc/Permission"/>
  <owl:Class rdf:about="http://web.resource.org/cc/Requirement"/>
  <owl:ObjectProperty rdf:about="http://web.resource.org/cc/permits"/>
  <owl:ObjectProperty rdf:about="http://web.resource.org/cc/requires"/>
  <owl:AnnotationProperty rdf:about="http://web.resource.org/cc/license"/>
  <cc:Permission rdf:about="http://web.resource.org/cc/Reproduction"/>
  <cc:Permission rdf:about="http://web.resource.org/cc/Distribution"/>
  <cc:Requirement rdf:about="http://web.resource.org/cc/Notice"/>
  <cc:Requirement rdf:about="http://web.resource.org/cc/Attribution"/>
  <cc:Permission rdf:about="http://web.resource.org/cc/DerivativeWorks"/>

  <owl:Class rdf:about="http://www.lsrn.org/lsrn/schema.owl#Schema">
    <rdfs:label xml:lang="en">LSRN Schema</rdfs:label>
    <skos:definition xml:lang="en">A schema for Life Science Record Names.</skos:definition>
    <rdfs:comment xml:lang="en">
      A member of this class describes the subject of a record, format of 
      its name (prefix and prefix-dependent part), and its mapping to other 
      identifiers and locators (URIs, URLs). Members of this class should have 
      unique URIs in http://www.lsrn.org/lsrn/registry.rdf# namespace; their 
      RDF identifiers serve as LSRN prefixes (e.g. 
      http://www.lsrn.org/lsrn/registry.rdf#GO defines the GO: prefix and GO 
      schema).
    </rdfs:comment>
    <vann:preferredNamespaceUri>
      http://www.lsrn.org/lsrn/registry.rdf#
    </vann:preferredNamespaceUri>
    <rdfs:isDefinedBy rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:subClassOf>
      <owl:Restriction>
        <owl:onProperty>
          <owl:DatatypeProperty 
            rdf:about="http://www.lsrn.org/lsrn/schema.owl#record_primary_subject"/>
        </owl:onProperty>
        <owl:maxCardinality 
          rdf:datatype="http://www.w3.org/2001/XMLSchema#nonNegativeInteger">
          1</owl:maxCardinality>
      </owl:Restriction>
    </rdfs:subClassOf>
    <rdfs:subClassOf>
      <owl:Restriction>
        <owl:onProperty>
          <owl:DatatypeProperty 
            rdf:about="http://www.lsrn.org/lsrn/schema.owl#id_pattern_ere"/>
        </owl:onProperty>
        <owl:maxCardinality 
          rdf:datatype="http://www.w3.org/2001/XMLSchema#nonNegativeInteger">
          1</owl:maxCardinality>
      </owl:Restriction>
    </rdfs:subClassOf>
    <rdfs:subClassOf>
      <owl:Restriction>
        <owl:onProperty>
          <owl:DatatypeProperty 
            rdf:about="http://www.lsrn.org/lsrn/schema.owl#redirect_to_ere"/>
        </owl:onProperty>
        <owl:maxCardinality 
          rdf:datatype="http://www.w3.org/2001/XMLSchema#nonNegativeInteger">
          1</owl:maxCardinality>
      </owl:Restriction>
    </rdfs:subClassOf>
    <rdfs:subClassOf>
      <owl:Restriction>
        <owl:onProperty>
          <owl:DatatypeProperty 
            rdf:about="http://www.lsrn.org/lsrn/schema.owl#redirect_to_prefix"/>
        </owl:onProperty>
        <owl:maxCardinality 
          rdf:datatype="http://www.w3.org/2001/XMLSchema#nonNegativeInteger">
          1</owl:maxCardinality>
      </owl:Restriction>
    </rdfs:subClassOf>
    <rdfs:subClassOf>
      <owl:Restriction>
        <owl:onProperty>
          <owl:DatatypeProperty 
            rdf:about="http://www.lsrn.org/lsrn/schema.owl#id_example"/>
        </owl:onProperty>
        <owl:maxCardinality 
          rdf:datatype="http://www.w3.org/2001/XMLSchema#nonNegativeInteger">
          1</owl:maxCardinality>
      </owl:Restriction>
    </rdfs:subClassOf>
    <rdfs:subClassOf>
      <owl:Restriction>
        <owl:onProperty>
          <owl:DatatypeProperty 
            rdf:about="http://www.lsrn.org/lsrn/schema.owl#id_example_subject"/>
        </owl:onProperty>
        <owl:maxCardinality 
          rdf:datatype="http://www.w3.org/2001/XMLSchema#nonNegativeInteger">
          1</owl:maxCardinality>
      </owl:Restriction>
    </rdfs:subClassOf>
    <dct:issued>2006-02-12</dct:issued>
    <skos:changeNote
       rdf:value="Added comment"
       dc:date="2006-02-12"
       dc:creator="Sergei Egorov"/>
  </owl:Class>
  
  <owl:DatatypeProperty rdf:about="http://www.lsrn.org/lsrn/schema.owl#database">
    <rdfs:label xml:lang="en">source database</rdfs:label>
    <skos:definition xml:lang="en">
      The name of the database storing the record, e.g. 'Gene Ontology'.
    </skos:definition>
    <rdfs:isDefinedBy rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:domain rdf:resource="http://www.lsrn.org/lsrn/schema.owl#Schema"/>
    <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/>
    <dct:issued>2006-02-12</dct:issued>
  </owl:DatatypeProperty>
  
  <owl:DatatypeProperty rdf:about="http://www.lsrn.org/lsrn/schema.owl#database_url">
    <rdfs:label xml:lang="en">database URL</rdfs:label>
    <skos:definition xml:lang="en">
      Web address of the database storing the record.
    </skos:definition>
    <rdfs:comment xml:lang="en">
      This should be a link to the database's home page or some other good 
      starting point for exploration of the database's metadata and content.
    </rdfs:comment>
    <rdfs:isDefinedBy rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:domain rdf:resource="http://www.lsrn.org/lsrn/schema.owl#Schema"/>
    <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#anyURI"/>
    <dct:issued>2006-02-12</dct:issued>
  </owl:DatatypeProperty>
  
  <owl:DatatypeProperty rdf:about="http://www.lsrn.org/lsrn/schema.owl#record_primary_subject">
    <rdfs:label xml:lang="en">primary subject of db record</rdfs:label>
    <skos:definition xml:lang="en">
      Primary subject of database record, e.g. 'gene'.
    </skos:definition>
    <rdfs:comment xml:lang="en">
      In the future, this property will be accompanied by a reference to a 
      term from a suitable ontology of common subjects of life science 
      database records. To simplify the transition, please try to use one of 
      the existing values before inventing your own.
    </rdfs:comment>
    <rdfs:isDefinedBy rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:domain rdf:resource="http://www.lsrn.org/lsrn/schema.owl#Schema"/>
    <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/>
    <dct:issued>2006-02-12</dct:issued>
  </owl:DatatypeProperty>
  
  <owl:DatatypeProperty rdf:about="http://www.lsrn.org/lsrn/schema.owl#record_subject">
    <rdfs:label xml:lang="en">secondary subject of db record</rdfs:label>
    <skos:definition xml:lang="en">
      Secondary subject of database record, e.g. 'gene-related 
      genetic disorders'.
    </skos:definition>
    <rdfs:comment xml:lang="en">
      In the future, this property will be accompanied by a reference to a 
      term from a suitable ontology of common subjects of life science 
      database records. To simplify the transition, please try to use one of 
      the existing values before inventing your own.
    </rdfs:comment>
    <rdfs:isDefinedBy rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:domain rdf:resource="http://www.lsrn.org/lsrn/schema.owl#Schema"/>
    <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/>
    <dct:issued>2006-02-12</dct:issued>
  </owl:DatatypeProperty>
  
  <owl:DatatypeProperty rdf:about="http://www.lsrn.org/lsrn/schema.owl#id_type">
    <rdfs:label xml:lang="en">type of a database ID</rdfs:label>
    <skos:definition xml:lang="en">
      ID type, e.g. 'sequential identifier' or 'accession number'.
    </skos:definition>
    <rdfs:comment xml:lang="en">
      In the future, this property will be accompanied by a reference to a 
      term from a suitable ontology of common maintenance models for database 
      identifiers. To simplify the transition, please try to use one of the 
      existing values before inventing your own.
    </rdfs:comment>
    <rdfs:isDefinedBy rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:domain rdf:resource="http://www.lsrn.org/lsrn/schema.owl#Schema"/>
    <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/>
    <dct:issued>2006-02-12</dct:issued>
  </owl:DatatypeProperty>
  
  <owl:DatatypeProperty rdf:about="http://www.lsrn.org/lsrn/schema.owl#id_format">
    <rdfs:label xml:lang="en">format of a database ID</rdfs:label>
    <skos:definition xml:lang="en">
      Free-text format description, e.g. 'positive numeral'.
    </skos:definition>
    <rdfs:comment xml:lang="en">
      In the future, this property will be accompanied by a reference to a 
      term from a suitable ontology of common syntaxes for database 
      identifiers. To simplify the transition, please try to use one of the 
      existing values before inventing your own.
    </rdfs:comment>
    <rdfs:isDefinedBy rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:domain rdf:resource="http://www.lsrn.org/lsrn/schema.owl#Schema"/>
    <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/>
    <dct:issued>2006-02-12</dct:issued>
  </owl:DatatypeProperty>
  
  <owl:DatatypeProperty rdf:about="http://www.lsrn.org/lsrn/schema.owl#id_pattern_ere">
    <rdfs:label xml:lang="en">regexp for database ID</rdfs:label>
    <skos:definition xml:lang="en">
      POSIX-style extended regexp pattern for database IDs, e.g. '[A-Z][0-9]+'.
    </skos:definition>
    <rdfs:comment xml:lang="en">
      This property should be a valid POSIX ERE (extended regular expression). 
      It should be present if either redirect_to_ere or url_template_ere 
      properties are specified. Group subexpressions ised in id_pattern_ere 
      can be referred to via \1 .. \9 substitution patterns in the template 
      properties.
    </rdfs:comment>
    <rdfs:isDefinedBy rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:domain rdf:resource="http://www.lsrn.org/lsrn/schema.owl#Schema"/>
    <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/>
    <dct:issued>2006-02-12</dct:issued>
  </owl:DatatypeProperty>
  
  <owl:DatatypeProperty rdf:about="http://www.lsrn.org/lsrn/schema.owl#id_example">
    <rdfs:label xml:lang="en">example of ID</rdfs:label>
    <skos:definition xml:lang="en">
      Example of database ID for the record (sans prefix).
    </skos:definition>
    <rdfs:comment xml:lang="en">
      This property should be a real ID. Together with the corresponding 
      id_example_subject, it is used to check the LSRN registry for dead links.
    </rdfs:comment>
    <rdfs:isDefinedBy rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:domain rdf:resource="http://www.lsrn.org/lsrn/schema.owl#Schema"/>
    <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/>
    <dct:issued>2006-02-12</dct:issued>
  </owl:DatatypeProperty>
  
  <owl:DatatypeProperty rdf:about="http://www.lsrn.org/lsrn/schema.owl#id_example_subject">
    <rdfs:label xml:lang="en">subject of ID example</rdfs:label>
    <skos:definition xml:lang="en">
      Subject for the example ID.
    </skos:definition>
    <rdfs:comment xml:lang="en">
      This property is used together with id_example to check the LSRN 
      registry for dead links. For each URL template, a URL is produced by 
      substituting id_example, and the resulting resource is retrieved and 
      checked for literal presence of the id_example_subject string.
    </rdfs:comment>
    <rdfs:isDefinedBy rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:domain rdf:resource="http://www.lsrn.org/lsrn/schema.owl#Schema"/>
    <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/>
    <dct:issued>2006-02-12</dct:issued>
  </owl:DatatypeProperty>
  
  <owl:DatatypeProperty rdf:about="http://www.lsrn.org/lsrn/schema.owl#redirect_to_prefix">
    <rdfs:label xml:lang="en">redirect to prefix</rdfs:label>
    <skos:definition xml:lang="en">
      Another prefix to be used in place of the current one, e.g. 'INSD:'.
    </skos:definition>
    <rdfs:comment xml:lang="en">
      This property is used by LSRN Resolver service to process alternative or 
      common names and propose their canonical variants. The replacement LSRN 
      is formed by appending the identifier part to the redirect_to_prefix 
      property, which should end in colon.
    </rdfs:comment>
    <rdfs:isDefinedBy rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:domain rdf:resource="http://www.lsrn.org/lsrn/schema.owl#Schema"/>
    <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/>
    <dct:issued>2006-02-12</dct:issued>
  </owl:DatatypeProperty>
  
  <owl:DatatypeProperty rdf:about="http://www.lsrn.org/lsrn/schema.owl#redirect_to_ere">
    <rdfs:label xml:lang="en">redirect via regexp</rdfs:label>
    <skos:definition xml:lang="en">
      A regexp template for replacement LSRN.
    </skos:definition>
    <rdfs:comment xml:lang="en">
      This property should be a template used with id_pattern_ere regexp 
      pattern. The template is copied, making substitutions according to the 
      regexp match performed using id_pattern_ere. Each instance of '&' in 
      template is replaced by the entire identifier. Each instance of '\n', 
      where n is a digit between 1 and 9, is replaced by the substring 
      corresponding to parenthesized group in id_pattern_ere. To get a literal 
      '&' or '\n', prefix it in the template with '\'; to get a literal '\' 
      preceding '&' or '\n', prefix it with another '\'.
    </rdfs:comment>
    <rdfs:isDefinedBy rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:domain rdf:resource="http://www.lsrn.org/lsrn/schema.owl#Schema"/>
    <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/>
    <dct:issued>2006-02-12</dct:issued>
  </owl:DatatypeProperty>
  
  <owl:DatatypeProperty rdf:about="http://www.lsrn.org/lsrn/schema.owl#url_template_prefix">
    <rdfs:label xml:lang="en">URL template prefix</rdfs:label>
    <skos:definition xml:lang="en">
      A URL prefix to form a complete URL.
    </skos:definition>
    <rdfs:comment xml:lang="en">
      This property is used by LSRN Resolver to form a URL for the record. 
      URLs are formed by appending the identifier part to each 
      url_template_prefix property.
    </rdfs:comment>
    <rdfs:isDefinedBy rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:domain rdf:resource="http://www.lsrn.org/lsrn/schema.owl#Schema"/>
    <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/>
    <dct:issued>2006-02-12</dct:issued>
  </owl:DatatypeProperty>
  
  <owl:DatatypeProperty rdf:about="http://www.lsrn.org/lsrn/schema.owl#url_template_ere">
    <rdfs:label xml:lang="en">URL template for ID regexp</rdfs:label>
    <skos:definition xml:lang="en">
      A regexp template to form a URL.
    </skos:definition>
    <rdfs:comment xml:lang="en">
      This property is used by LSRN Resolver to form a URL for the record. 
      The template is copied, making substitutions according to the regexp 
      match performed using id_pattern_ere. Each instance of '&' in template 
      is replaced by the entire identifier. Each instance of '\n', where n is 
      a digit between 1 and 9, is replaced by the substring corresponding to 
      parenthesized group in id_pattern_ere. To get a literal '&' or '\n', 
      prefix it in the template with '\'; to get a literal '\' preceding '&' 
      or '\n', prefix it with another '\'.
    </rdfs:comment>
    <rdfs:isDefinedBy rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:domain rdf:resource="http://www.lsrn.org/lsrn/schema.owl#Schema"/>
    <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/>
    <dct:issued>2006-02-12</dct:issued>
  </owl:DatatypeProperty>
  
  <owl:DatatypeProperty rdf:about="http://www.lsrn.org/lsrn/schema.owl#ncbi_db_xref">
    <rdfs:label xml:lang="en">NCBI db_xref key</rdfs:label>
    <skos:definition xml:lang="en">
      NCBI db_xref key for the schema, if different from schema prefix.
    </skos:definition>
    <rdfs:comment xml:lang="en">
      This property is used to preserve the original NCBI's db_xref key if it 
      contains characters which cannot be used in LSRN schema names.
    </rdfs:comment>
    <rdfs:isDefinedBy rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:domain rdf:resource="http://www.lsrn.org/lsrn/schema.owl#Schema"/>
    <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/>
    <dct:issued>2006-02-12</dct:issued>
  </owl:DatatypeProperty>
  
  <owl:DatatypeProperty rdf:about="http://www.lsrn.org/lsrn/schema.owl#ariadne_rnef_property">
    <rdfs:label xml:lang="en">RNEF property name</rdfs:label>
    <skos:definition xml:lang="en">
      Ariadne Genomics RNEF property name for the schema.
    </skos:definition>
    <rdfs:comment xml:lang="en">
      This property is used to facilitate mapping between LSRN schemas and 
      external ontology.
    </rdfs:comment>
    <rdfs:isDefinedBy rdf:resource="http://www.lsrn.org/lsrn/schema.owl#"/>
    <rdfs:domain rdf:resource="http://www.lsrn.org/lsrn/schema.owl#Schema"/>
    <rdfs:range rdf:resource="http://www.w3.org/2001/XMLSchema#string"/>
    <dct:issued>2006-02-12</dct:issued>
  </owl:DatatypeProperty>
</rdf:RDF>

License

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LSRN Schema Descriptions

Table of Contents

Introduction

Changes From Previous Version

Namespace

Summary of Terms

Vocabulary Classes

Class: Schema

History

Vocabulary Properties

Property: ariadne_rnef_property

History

Property: database

History

Property: database_url

History

Property: id_example

History

Property: id_example_subject

History

Property: id_format

History

Property: id_pattern_ere

History

Property: id_type

History

Property: ncbi_db_xref

History

Property: record_primary_subject

History

Property: record_subject

History

Property: redirect_to_ere

History

Property: redirect_to_prefix

History

Property: url_template_ere

History

Property: url_template_prefix

History

RDF Schema

License