Ontology

Prefix Namespace Vocabularies
rdf http://www.w3.org/1999/02/22-rdf-syntax-ns# RDF
rdfs http://www.w3.org/2000/01/rdf-schema# RDF Schema
owl http://www.w3.org/2002/07/owl# OWL
xsd http://www.w3.org/2001/XMLSchema# XML Schema
foaf http://xmlns.com/foaf/0.1/ FOAF Vocabulary
bibo http://purl.org/ontology/bibo/ Bibliographic Ontology
glycan http://purl.jp/bio/12/glyco/glycan# GlycoRDF Ontology
glytoucan >http://www.glytoucan.org/glyco/owl/glytoucan# GlyTouCan Ontology
wurcs http://www.glycoinfo.org/glyco/owl/wurcs# WURCS OWL

Overview diagram

overview

GRAPH

The GlyTouCan RDF consists of multiple Named GRAPHs.

Core graph

Named graph: http://rdf.glytoucan.org/core

Sample Triple

@prefix rdf:	<http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix xsd:	<http://www.w3.org/2001/XMLSchema#> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .
@prefix glytoucan:	<http://www.glytoucan.org/glyco/owl/glytoucan#> .

<http://rdf.glycoinfo.org/glycan/G19529BG>
    rdf:type  glycan:saccharide;
    glycan:has_resource_entry <http://rdf.glycoinfo.org/resource-entry/G19529BG>;
    glytoucan:has_primary_id G19529BG.

<http://rdf.glycoinfo.org/resource-entry/G19529BG>
    rdf:type  glycan:resource_entry;
    rdfs:seeAlso  <http://glytoucan.org/Structures/Glycans/G19529BG>;
    dcterms:identifier  G19529BG;
    glycan:in_glycan_database glytoucan:database_glytoucan;
    glytoucan:date_registered 2014-10-31 16:00:57.41;
    glytoucan:contributor <http://rdf.glycoinfo.org/glytoucan/contributor/userId/1>.

SPARQL example

PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan:  <http://www.glytoucan.org/glyco/owl/glytoucan#>
PREFIX dcterms: <http://purl.org/dc/terms/>

SELECT DISTINCT *
FROM <http://rdf.glytoucan.org/core>
WHERE {
    ?Saccharide a ?SaccharideClass .
    ?Saccharide glytoucan:has_primary_id ?AccessionNumber .
    ?Saccharide glycan:has_resource_entry ?ResourceEntry .

    ?ResourceEntry a ?ResourceEntryClass .
    ?ResourceEntry glytoucan:contributor ?Contributor .
    ?ResourceEntry glytoucan:date_registered ?Date .
    ?ResourceEntry glycan:in_glycan_database ?DB .
    ?ResourceEntry dcterms:identifier ?AccessionNumber .
    ?ResourceEntry rdfs:seeAlso ?Entry .
}
limit 20

=> run

Mass graph

Named graph: http://rdf.glytoucan.org/mass

Sample RDF Triple

@prefix rdf:	<http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix xsd:	<http://www.w3.org/2001/XMLSchema#> .
@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix glytoucan:	<http://www.glytoucan.org/glyco/owl/glytoucan#> .

<http://rdf.glycoinfo.org/glycan/G25033GC>
    glytoucan:has_derivatized_mass	<http://rdf.glycoinfo.org/derivatization_type_node/1754.3911661> .

<http://rdf.glycoinfo.org/derivatization_type_node/1754.3911661>
    rdf:type	glytoucan:derivatized_mass ;
    rdfs:label	"1754.3911661"^^xsd:string ;
    glytoucan:has_mass	1754.391166099999964 ;
    glytoucan:has_derivatization_type	glytoucan:derivatization_type_none .

SPARQL example

PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan:  <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT *
FROM <http://rdf.glytoucan.org/mass>
WHERE{
    ?saccharide glytoucan:has_derivatized_mass ?d_mass.
    ?d_mass a ?class .
    ?d_mass rdfs:label ?d_mass_label.
    ?d_mass glytoucan:has_mass ?mass.
    BIND(datatype(?mass) AS ?datatype)
    ?d_mass glytoucan:has_derivatization_type ?d_mass_type.
}
limit 10

=> run

Motif graph

Named graph: http://rdf.glytoucan.org/motif

Sample RDF Triple

@prefix rdf:	<http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix xsd:	<http://www.w3.org/2001/XMLSchema#> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .
@prefix glytoucan:	<http://www.glytoucan.org/glyco/owl/glytoucan#> .

<http://rdf.glycoinfo.org/glycan/G80643JD>
    glycan:has_motif  <http://rdf.glycoinfo.org/glycan/G00053MO> .

<http://rdf.glycoinfo.org/glycan/G00053MO>
    rdf:type	glycan:glycan_motif ;
    rdfs:label	"Sialyl Lewis A"@en ;
    glycan:has_glycosequence	<http://rdf.glycoinfo.org/glycan/G00053MO/glycoct> ;
    glytoucan:is_reducing_end "false"^^xsd:boolean ;
    glycan:has_motif  <http://rdf.glycoinfo.org/glycan/G00047MO> ,
                      <http://rdf.glycoinfo.org/glycan/G00056MO> ,
                      <http://rdf.glycoinfo.org/glycan/G00053MO> .

SPARQL example

PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan:  <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT *
FROM <http://rdf.glytoucan.org/motif>
WHERE {
    # Motif
    ?Saccharide glycan:has_motif ?GlycanMotif.
    ?GlycanMotif a ?Class .
    ?GlycanMotif glycan:has_glycosequence ?GSequence .
    ?GlycanMotif glytoucan:is_reducing_end ?ReducingEnd .
    ?GlycanMotif rdfs:label ?MotifName .
}
limit 10

=> run

Monosaccharide graph (MsDB CarbBank schema)

Named graph: http://rdf.glytoucan.org/ms/carbbank

Sample RDF Triple


@prefix rdf:	<http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .

<http://rdf.glycoinfo.org/glycan/G00051MO>
    glycan:has_component	<http://rdf.glycoinfo.org/component/1_b-dgal-HEX-1:5> .

<http://rdf.glycoinfo.org/component/1_b-dgal-HEX-1:5>
    rdf:type	glycan:component ;
    glycan:has_cardinality	1 ;
    glycan:has_monosaccharide	<http://www.monosaccharidedb.org/rdf/monosaccharide.action?name=b-dgal-HEX-1:5> .

<http://www.monosaccharidedb.org/rdf/monosaccharide.action?name=b-dgal-HEX-1:5>
    rdf:type	glycan:monosaccharide ;
    glycan:has_alias	<http://www.monosaccharidedb.org/rdf/monosaccharide_alias.action?scheme=CARBBANK&name=b-D-Galp> .

<http://www.monosaccharidedb.org/rdf/monosaccharide_alias.action?scheme=CARBBANK&name=b-D-Galp>
    rdf:type	glycan:monosaccharide_alias ;
    glycan:has_alias_name	"b-D-Galp" ;
    glycan:has_monosaccharide_notation_scheme	glycan:monosaccharide_notation_scheme_carbbank .

SPARQL example

SELECT DISTINCT *
FROM <http://rdf.glytoucan.org/core>
FROM <http://rdf.glytoucan.org/ms/carbbank>
WHERE{
    # Accession Number
    ?glycan glytoucan:has_primary_id "G00051MO" .
    OPTIONAL{
        ?glycan glycan:has_component ?comp .
        ?comp glycan:has_cardinality ?cardinality .
        ?comp glycan:has_monosaccharide ?mono .
        ?mono glycan:has_alias ?msdb .
        ?mono a ?class.
        ?msdb glycan:has_alias_name ?ComponentName .
    }
}

=> run

Sequence graph

WURCS graph

Named graph: http://rdf.glytoucan.org/sequence/wurcs

Sample RDF Triple

@prefix rdf:	<http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix xsd:	<http://www.w3.org/2001/XMLSchema#> .
@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix owl:	<http://www.w3.org/2002/07/owl#> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .
@prefix wurcs:	<http://www.glycoinfo.org/glyco/owl/wurcs#> .

<http://rdf.glycoinfo.org/glycan/G95616YE>
    rdf:type	glycan:saccharide ;
    glycan:has_glycosequence	<http://rdf.glycoinfo.org/glycan/G95616YE/wurcs> ,
      <http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0> .

<http://rdf.glycoinfo.org/glycan/G95616YE/wurcs>
    rdfs:label	"WURCS=2.0/5,7,6/[u2122h_2*NCC/3=O][a1122h-1b_1-5][a1122h-1a_1-5][a2122h-1b_1-5_2*NCC/3=O][a2112h-1b_1-5]/1-2-3-4-5-4-5/a4-b1_b3-c1_c2-d1_c4-f1_d4-e1_f4-g1"^^xsd:string ;
    glycan:has_sequence	"WURCS=2.0/5,7,6/[u2122h_2*NCC/3=O][a1122h-1b_1-5][a1122h-1a_1-5][a2122h-1b_1-5_2*NCC/3=O][a2112h-1b_1-5]/1-2-3-4-5-4-5/a4-b1_b3-c1_c2-d1_c4-f1_d4-e1_f4-g1"^^xsd:string ;
    glycan:in_carbohydrate_format	glycan:carbohydrate_format_wurcs .

<http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0>
    rdf:type	glycan:glycosequence ;
    rdfs:label	"WURCS=2.0/5,7,6/[u2122h_2*NCC/3=O][a1122h-1b_1-5][a1122h-1a_1-5][a2122h-1b_1-5_2*NCC/3=O][a2112h-1b_1-5]/1-2-3-4-5-4-5/a4-b1_b3-c1_c2-d1_c4-f1_d4-e1_f4-g1"^^xsd:string ;
    owl:sameAs	<http://rdf.glycoinfo.org/glycan/wurcs/2.0/WURCS%3D2.0%2F5%2C7%2C6%2F%5Bu2122h_2%2ANCC%2F3%3DO%5D%5Ba1122h-1b_1-5%5D%5Ba1122h-1a_1-5%5D%5Ba2122h-1b_1-5_2%2ANCC%2F3%3DO%5D%5Ba2112h-1b_1-5%5D%2F1-2-3-4-5-4-5%2Fa4-b1_b3-c1_c2-d1_c4-f1_d4-e1_f4-g1> ;
    glycan:has_sequence	"WURCS=2.0/5,7,6/[u2122h_2*NCC/3=O][a1122h-1b_1-5][a1122h-1a_1-5][a2122h-1b_1-5_2*NCC/3=O][a2112h-1b_1-5]/1-2-3-4-5-4-5/a4-b1_b3-c1_c2-d1_c4-f1_d4-e1_f4-g1"^^xsd:string ;
    glycan:in_carbohydrate_format	glycan:carbohydrate_format_wurcs ;
    wurcs:LIN_count	6 ;
    wurcs:RES_count	7 ;
    wurcs:has_LIN	<http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/LIN/c4-f1 ,
      <http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/LIN/d4-e1> ,
      <http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/LIN/b3-c1> ,
      <http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/LIN/c2-d1> ,
      <http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/LIN/f4-g1> ,
      <http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/LIN/a4-b1> ;
    wurcs:has_basetype	<http://rdf.glycoinfo.org/glycan/wurcs/2.0/Basetype/u2112h> ,
      <http://rdf.glycoinfo.org/glycan/wurcs/2.0/Basetype/u1122h ,
      <http://rdf.glycoinfo.org/glycan/wurcs/2.0/Basetype/u2122h_2%2ANCC%2F3%3DO> ;
    wurcs:has_monosaccharide	<http://rdf.glycoinfo.org/glycan/wurcs/2.0/Monosaccharide/a2112h-1b_1-5> ,
      <http://rdf.glycoinfo.org/glycan/wurcs/2.0/Monosaccharide/a1122h-1a_1-5> ,
      <http://rdf.glycoinfo.org/glycan/wurcs/2.0/Monosaccharide/a1122h-1b_1-5> ,
      <http://rdf.glycoinfo.org/glycan/wurcs/2.0/Monosaccharide/a2122h-1b_1-5_2%2ANCC%2F3%3DO> ,
      <http://rdf.glycoinfo.org/glycan/wurcs/2.0/Monosaccharide/u2122h_2%2ANCC%2F3%3DO> ;
    wurcs:has_root_RES	<http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/RES/a ;
    wurcs:has_uniqueRES	<http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/UniqueRES/1> ,
      <http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/UniqueRES/5> ,
      <http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/UniqueRES/2> ,
      <http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/UniqueRES/3> ,
      <http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/UniqueRES/4> ;
    wurcs:uniqueRES_count	5 ;
    wurcs:has_root_GRES	<http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/GRES/1> ;
    wurcs:has_GRES	<http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/GRES/1> ,
      <http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/GRES/2> ,
      <http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/GRES/7> ,
      <http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/GRES/5> ,
      <http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/GRES/6> ,
      <http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/GRES/3> ,
      <http://rdf.glycoinfo.org/glycan/G95616YE/wurcs/2.0/GRES/4> .

SPARQL example

PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan:  <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT *
FROM <http://rdf.glytoucan.org/sequence/wurcs>
WHERE{
  ?saccharide a ?sclass;
  	glycan:has_glycosequence ?gseq.
  ?gseq a ?gsclass.
  ?gseq glycan:has_sequence ?seq.
}
limit 10

=> run

GlycoCT graph

Named graph: http://rdf.glytoucan.org/sequence/glycoct

Sample RDF Triple

@prefix rdf:	<http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix xsd:	<http://www.w3.org/2001/XMLSchema#> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .
@prefix glytoucan:	<http://www.glytoucan.org/glyco/owl/glytoucan#> .

<http://rdf.glycoinfo.org/glycan/G35898DT>
  glycan:has_glycosequence  <http://rdf.glycoinfo.org/glycan/G35898DT/glycoct> .

<http://rdf.glycoinfo.org/glycan/G35898DT/glycoct>
		rdfs:label  "RES\n1b:a-dgal-HEX-1:5\n2s:n-acetyl\n3b:b-dgal-HEX-1:5\n4b:b-dglc-HEX-1:5\n5s:n-acetyl\n6b:b-dgal-HEX-1:5\n7b:a-lgal-HEX-1:5|6:d\n8b:b-dglc-HEX-1:5\n9s:n-acetyl\n10b:b-dglc-HEX-1:5\n11s:n-acetyl\n12b:b-dgal-HEX-1:5\n13b:a-lgal-HEX-1:5|6:d\nLIN\n1:1d(2+1)2n\n2:1o(3+1)3d\n3:3o(3+1)4d\n4:4d(2+1)5n\n5:4o(4+1)6d\n6:6o(2+1)7d\n7:3o(6+1)8d\n8:8d(2+1)9n\n9:1o(6+1)10d\n10:10d(2+1)11n\n11:10o(4+1)12d\n12:12o(2+1)13d"^^xsd:string ;
		glycan:has_sequence  "RES\n1b:a-dgal-HEX-1:5\n2s:n-acetyl\n3b:b-dgal-HEX-1:5\n4b:b-dglc-HEX-1:5\n5s:n-acetyl\n6b:b-dgal-HEX-1:5\n7b:a-lgal-HEX-1:5|6:d\n8b:b-dglc-HEX-1:5\n9s:n-acetyl\n10b:b-dglc-HEX-1:5\n11s:n-acetyl\n12b:b-dgal-HEX-1:5\n13b:a-lgal-HEX-1:5|6:d\nLIN\n1:1d(2+1)2n\n2:1o(3+1)3d\n3:3o(3+1)4d\n4:4d(2+1)5n\n5:4o(4+1)6d\n6:6o(2+1)7d\n7:3o(6+1)8d\n8:8d(2+1)9n\n9:1o(6+1)10d\n10:10d(2+1)11n\n11:10o(4+1)12d\n12:12o(2+1)13d"^^xsd:string ;
		glycan:in_carbohydrate_format	glycan:carbohydrate_format_glycoct .

SPARQL example

PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>

SELECT *
FROM <http://rdf.glytoucan.org/sequence/glycoct>
WHERE {
    # Glycosequence
    ?Saccharide glycan:has_glycosequence ?GSequence .
    ?GSequence glycan:has_sequence ?Sequence .
    ?GSequence glycan:in_carbohydrate_format ?Format .
    ?GSequence rdfs:label ?label .
}
limit 10

=> run

IUPAC Condensed graph

Named graph: http://rdf.glytoucan.org/sequence/iupac_condensed

Sample RDF Triple

@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix xsd:	<http://www.w3.org/2001/XMLSchema#> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .

<http://rdf.glycoinfo.org/glycan/G98915PZ>
    glycan:has_glycosequence	<http://rdf.glycoinfo.org/glycan/G98915PZ/iupac_condensed> .

<http://rdf.glycoinfo.org/glycan/G98915PZ/iupac_condensed>
    rdfs:label	"GlcNAc(b1-3)Gal(b1-4)GlcNAc(b1-3)[Gal(b1-4)GlcNAc(b1-6)]Gal(b1-4)GlcNAc"^^xsd:string ;
    glycan:has_sequence	"GlcNAc(b1-3)Gal(b1-4)GlcNAc(b1-3)[Gal(b1-4)GlcNAc(b1-6)]Gal(b1-4)GlcNAc"^^xsd:string ;
    glycan:in_carbohydrate_format	glycan:carbohydrate_format_iupac_condensed .

SPARQL example

PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan:  <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT *
FROM <http://rdf.glytoucan.org/sequence/iupac_condensed>
WHERE{
  ?saccharide glycan:has_glycosequence ?gseq.
  ?gseq rdfs:label ?label.
  ?gseq glycan:has_sequence ?seq.
  ?gseq glycan:in_carbohydrate_format ?format.
}
limit 10

=> run

IUPAC Extended graph

Named graph: http://rdf.glytoucan.org/sequence/iupac_extended

Sample RDF Triple

@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix xsd:	<http://www.w3.org/2001/XMLSchema#> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .

<http://rdf.glycoinfo.org/glycan/G98915PZ>
    glycan:has_glycosequence	<http://rdf.glycoinfo.org/glycan/G98915PZ/iupac_extended> .

<http://rdf.glycoinfo.org/glycan/G98915PZ/iupac_extended>
    rdfs:label	"beta-D-GlcpNAc-(1->3)-beta-D-Galp-(1->4)-beta-D-GlcpNAc-(1->3)[beta-D-Galp-(1->4)-beta-D-GlcpNAc-(1->6)]-beta-D-Galp-(1->4)-D-GlcNAc(?->"^^xsd:string ;
    glycan:has_sequence	"beta-D-GlcpNAc-(1->3)-beta-D-Galp-(1->4)-beta-D-GlcpNAc-(1->3)[beta-D-Galp-(1->4)-beta-D-GlcpNAc-(1->6)]-beta-D-Galp-(1->4)-D-GlcNAc(?->"^^xsd:string ;
    glycan:in_carbohydrate_format	glycan:carbohydrate_format_iupac_extended .

SPARQL example

PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan:  <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT *
FROM <http://rdf.glytoucan.org/sequence/iupac_extended>
WHERE{
  ?saccharide glycan:has_glycosequence ?gseq.
  ?gseq rdfs:label ?label.
  ?gseq glycan:has_sequence ?seq.
  ?gseq glycan:in_carbohydrate_format ?format.
}
limit 10

=> run

Partner graph

Bacterial Carbohydrate Structure Database (BCSDB) graph

Named graph: http://rdf.glytoucan.org/partner/bcsdb

Sample RDF Triple

@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix dcterms: <http://purl.org/dc/terms/> .
@prefix bibo: <http://purl.org/ontology/bibo/> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .
@prefix glytoucan:	<http://www.glytoucan.org/glyco/owl/glytoucan#> .


> Species
<http://rdf.glycoinfo.org/glycan/{accession_number}> #Saccharide
	glycan:is_from_source <http://rdf.glycoinfo.org/source/{taxonomy_id}> ;
	glycan:is_from_source <http://rdf.glycoinfo.org/source/{encode_taxon_name}> .

> exist taxonomy id
<http://rdf.glycoinfo.org/source/{taxonomy_id}>
	a glycan:Source ;
	rdfs:label "taxon name" ;
	dcterms:identifier "{taxonomy_id}" ;
	rdfs:seeAlso <http://identifiers.org/taxonomy/{taxonomy_id}> .

> dose not taxonomy id
<http://rdf.glycoinfo.org/source/{encode_taxon_name}>
	a glycan:Source ;
	rdfs:label "taxon name" .


> Literature
<http://rdf.glycoinfo.org/glycan/{accession_number}> #Saccharide
	dcterms:references <http://rdf.glycoinfo.org/references/{pubmed_id}> ; #Article

<http://rdf.glycoinfo.org/references/{pubmed_id}>
	a bibo:Article ;
	dcterms:identifier "{pubmed_id}" ;
	rdfs:seeAlso <http://identifiers.org/pubmed/{pubmed_id}> . #PubMed URL


> External ID
<http://rdf.glycoinfo.org/glycan/{accession_number}> #Saccharide
	glycan:has_resource_entry <http://rdf.glycoinfo.org/bcsdb/{bcsdb_id}>.

<http://rdf.glycoinfo.org/bcsdb/{bcsdb_id}>
	a glycan:Resource_entry ;
	rdfs:label	"BCSDB" ;
	glycan:in_glycan_database glycan:Database_bcsdb ;
	dcterms:identifier  "{bcsdb_id}" ;
	rdfs:seeAlso	<http://csdb.glycoscience.ru/bacterial/core/search_id.php?mode=record&id_list={bcsdb_id}> .

glycan:Database_bcsdb
	rdfs:label "BCSDB".

SPARQL example

PREFIX dcterms: <http://purl.org/dc/terms/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan: <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT ?accNum ?entry ?entry_label ?external_id ?url
FROM <http://rdf.glytoucan.org/core>
FROM <http://rdf.glytoucan.org/partner/bcsdb>
WHERE{
  ?saccharide glytoucan:has_primary_id ?accNum .
  ?saccharide glycan:has_resource_entry ?entry .
  ?entry a glycan:Resource_entry .
  ?entry rdfs:label ?entry_label .
  ?entry dcterms:identifier ?external_id .
  ?entry rdfs:seeAlso ?url .
} limit 10

=> run

GlycoChemExplorer AIST graph

Named graph: http://rdf.glytoucan.org/partner/glycochemexplorer_jcggdb_aist

Sample RDF Triple

@prefix rdf:	<http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix xsd:	<http://www.w3.org/2001/XMLSchema#> .
@prefix dcterms:	<http://purl.org/dc/terms/> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .
@prefix glytoucan:	<http://www.glytoucan.org/glyco/owl/glytoucan#> .

<http://rdf.glycoinfo.org/glycan/G85930OB>
    glycan:has_resource_entry	<http://rdf.glycoinfo.org/glycan/resource-entry/G85930OB/glycochemexplorer_jcggdb_aist/JCGG-M0000101407> .

<http://rdf.glycoinfo.org/glycan/resource-entry/G85930OB/glycochemexplorer_jcggdb_aist/JCGG-M0000101407>
    rdf:type	glycan:Resource_entry ;
    rdfs:label	"GlycoChemExplorer" ;
    rdfs:seeAlso	<http://jcggdb.jp/GlycoChemExplorer/jsp/SViewer.jsp?id=JCGG-M0000101407> ;
    dcterms:identifier	"JCGG-M0000101407" ;
    glycan:in_glycan_database	<http://rdf.glytoucan.org/partner/glycochemexplorer_jcggdb_aist> ;
    glytoucan:date_registered	"2017-02-15 23:39:33.303"^^xsd:dateTimeStamp ,
		"2017-02-15 23:39:33.306"^^xsd:dateTimeStamp ;
    glytoucan:contributor	<http://rdf.glycoinfo.org/glytoucan/contributor/userId/6f152bd8af82b4514812b87fb4bd8f99eb10ba3e07554249bdce51ef1c1fb0a8> .

SPARQL example

PREFIX dcterms: <http://purl.org/dc/terms/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan: <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT ?accNum ?entry ?entry_label ?external_id ?url
FROM <http://rdf.glytoucan.org/core>
FROM <http://rdf.glytoucan.org/partner/glycochemexplorer_jcggdb_aist>
WHERE{
  ?saccharide glytoucan:has_primary_id ?accNum .
  ?saccharide glycan:has_resource_entry ?entry .
  ?entry a glycan:Resource_entry .
  ?entry rdfs:label ?entry_label .
  ?entry dcterms:identifier ?external_id .
  ?entry rdfs:seeAlso ?url .
} limit 10

=> run

GlycoEpitope garph

Named graph: http://rdf.glytoucan.org/partner/glycoepitope

Sample RDF Triple

@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix dcterms: <http://purl.org/dc/terms/> .
@prefix bibo: <http://purl.org/ontology/bibo/> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .
@prefix glytoucan:	<http://www.glytoucan.org/glyco/owl/glytoucan#> .

 # Species
<http://rdf.glycoinfo.org/glycan/{accession_number}> #Saccharide
    glycan:is_from_source <http://rdf.glycoinfo.org/source/{taxonomy_id}> ;

<http://rdf.glycoinfo.org/source/{taxonomy_id}>
    a glycan:Source ;
    dcterms:identifier "{taxonomy_id}" ;
    rdfs:seeAlso <http://identifiers.org/taxonomy/{taxonomy_id}> .


> Literature
<http://rdf.glycoinfo.org/glycan/{accession_number}> #Saccharide
    dcterms:references <http://rdf.glycoinfo.org/references/{pubmed_id}> ; #Article

<http://rdf.glycoinfo.org/references/{pubmed_id}>
    a bibo:Article ;
    dcterms:identifier "{pubmed_id}" ;
    rdfs:seeAlso <http://identifiers.org/pubmed/{pubmed_id}> . #PubMed URL


> External ID
<http://rdf.glycoinfo.org/glycan/{accession_number}> #Saccharide
    glycan:has_resource_entry <http://rdf.glycoinfo.org/glycoepitope/{epitope_id}> .

<http://rdf.glycoinfo.org/glycoepitope/{epitope_id}>
    a glycan:Resource_entry ;
    rdfs:label	"GlycoEpitope" ;
    glycan:in_glycan_database glycan:Database_glycoepitope ;
    dcterms:identifier	"{epitope_id}" ;
    rdfs:seeAlso	<http://identifiers.org/glycoepitope/{epitope_id}> .

glycan:Database_glycoepitope
    rdfs:label "GlycoEpitope".

SPARQL example

PREFIX dcterms: <http://purl.org/dc/terms/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan: <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT ?accNum ?entry ?entry_label ?external_id ?url
FROM <http://rdf.glytoucan.org/core>
FROM <http://rdf.glytoucan.org/partner/glycoepitope>
WHERE{
  ?saccharide glytoucan:has_primary_id ?accNum .
  ?saccharide glycan:has_resource_entry ?entry .
  ?entry a glycan:Resource_entry .
  ?entry rdfs:label ?entry_label .
  ?entry dcterms:identifier ?external_id .
  ?entry rdfs:seeAlso ?url .
} limit 10

=> run

GlycomeDB graph

Named graph: http://rdf.glytoucan.org/partner/glycome-db

Sample RDF Triple

@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix dcterms: <http://purl.org/dc/terms/> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .
@prefix glytoucan:	<http://www.glytoucan.org/glyco/owl/glytoucan#> .

> Species
<http://rdf.glycoinfo.org/glycan/{accession_number}> #Saccharide
	glycan:is_from_source <http://rdf.glycoinfo.org/source/{taxonomy_id}> .

<http://rdf.glycoinfo.org/source/{taxonomy_id}>
	a glycan:Source ;
	dcterms:identifier "{taxonomy_id}" ;
	rdfs:seeAlso <http://identifiers.org/taxonomy/{taxonomy_id}> .


> External ID
<http://rdf.glycoinfo.org/glycan/{accession_number}> #Saccharide
	glycan:has_resource_entry <http://rdf.glycoinfo.org/glycome-db/{glycome-db_id>.

<http://rdf.glycoinfo.org/glycome-db/{glycome-db_id}>
	a glycan:Resource_entry ;
	rdfs:label	"GlycomeDB" ;
	glycan:in_glycan_database glycan:Database_glycomedb ;
	dcterms:identifier  "{glycome-db_id}" ;
	rdfs:seeAlso	<http://www.glycome-db.org/database/showStructure.action?glycomeId={glycome-db id}> .

glycan:Database_glycomedb
	rdfs:label "GlycomeDB".


> JCGGDB entry (External ID) from GlycomeDB
<http://rdf.glycoinfo.org/glycan/{accession_number}> #Saccharide
	glycan:has_resource_entry <http://rdf.glycoinfo.org/jcggdb/{jcggdb_id}>.

<http://rdf.glycoinfo.org/jcggdb/{jcggdb_id}>
	a glycan:Resource_entry ;
	rdfs:label	"JCGGDB" ;
	glycan:in_glycan_database glycan:Database_jcggdb ;
	dcterms:identifier  "jcggdb_id" ;
	rdfs:seeAlso	<http://jcggdb.jp/idb/jcggdb/{jcggdb_id}> .

glycan:Database_jcggdb
	rdfs:label	"JCGGDB" .


> Carbbank(CCSD) entry (External ID) from GlycomeDB
<http://rdf.glycoinfo.org/glycan/{accession_number}> #Saccharide
	glycan:has_resource_entry <http://rdf.glycoinfo.org/carbbank/{carbbank_id}>.

<http://rdf.glycoinfo.org/carbbank/{carbbank_id}>
	a glycan:Resource_entry ;
	rdfs:label	"Carbbank(CCSD)" ;
	glycan:in_glycan_database glycan:Database_carbbank ;
	dcterms:identifier  "carbbank_id" ;
	rdfs:seeAlso	<http://www.genome.jp/dbget-bin/www_bget?carbbank+{carbbank_id}> .

glycan:Database_carbbank
	rdfs:label	"Carbbank(CCSD)" .


> CFG entry (External ID) from GlycomeDB
<http://rdf.glycoinfo.org/glycan/{accession_number}> #Saccharide
	glycan:has_resource_entry <http://rdf.glycoinfo.org/cfg/{cfg_id}>.

<http://rdf.glycoinfo.org/cfg/{cfg_id}>
	a glycan:Resource_entry ;
	rdfs:label	"CFG" ;
	glycan:in_glycan_database glycan:Database_cfg ;
	dcterms:identifier  "cfg_id" ;
	rdfs:seeAlso	<http://www.functionalglycomics.org/glycomics/CarbohydrateServlet?pageType=view&view=view&operationType=view&carbId={cfg_id}&sideMenu=no> .

glycan:Database_cfg
	rdfs:label	"CFG" .


> Glycobase entry (External ID) from GlycomeDB
<http://rdf.glycoinfo.org/glycan/{accession_number}> #Saccharide
	glycan:has_resource_entry <http://rdf.glycoinfo.org/glycobase_lille/{glycobase_lille_id}>.

<http://rdf.glycoinfo.org/glycobase_lille/{glycobase_lille_id}>
	a glycan:Resource_entry ;
	rdfs:label	"Glycobase" ;
	glycan:in_glycan_database glycan:Database_glycobase_lille ;
	dcterms:identifier  "glycobase_lille_id" ;
	rdfs:seeAlso	<http://glycobase.univ-lille1.fr/base/view_mol.php?id={glycobase_lille_id}> .

glycan:Database_glycobase_lille
	rdfs:label	"Glycobase" .


> GLYCOSCIENCES.de entry (External ID) from GlycomeDB
<http://rdf.glycoinfo.org/glycan/{accession_number}> #Saccharide
	glycan:has_resource_entry <http://rdf.glycoinfo.org/glycosciences_de/{glycosciences_de_id}>.

<http://rdf.glycoinfo.org/glycosciences_de/{glycosciences_de_id}>
	a glycan:Resource_entry ;
	rdfs:label	"GLYCOSCIENCES.de" ;
	glycan:in_glycan_database glycan:Database_glycosciences_de ;
	dcterms:identifier  "glycosciences_de_id" ;
	rdfs:seeAlso	<http://www.glycosciences.de/database/start.php?action=explore_linucsid&linucsid=10082&show=1#struct%0A%20%20%09%09>.

glycan:Database_glycosciences_de
	rdfs:label	"GLYCOSCIENCES.de" .


> KEGG entry (External ID) from GlycomeDB
<http://rdf.glycoinfo.org/glycan/{accession_number}> #Saccharide
	glycan:has_resource_entry <http://rdf.glycoinfo.org/kegg/{kegg_id}>.

<http://rdf.glycoinfo.org/kegg/{kegg_id}>
	a glycan:Resource_entry ;
	rdfs:label	"KEGG" ;
	glycan:in_glycan_database glycan:Database_kegg ;
	dcterms:identifier  "kegg_id" ;
	rdfs:seeAlso	<http://www.genome.jp/dbget-bin/www_bget?gl:{kegg_id}> .

glycan:Database_kegg
	rdfs:label	"KEGG" .


> PDB entry (External ID) from GlycomeDB
<http://rdf.glycoinfo.org/glycan/{accession_number}> #Saccharide
	glycan:has_resource_entry <http://rdf.glycoinfo.org/pdb/{pdb_id}>.

<http://rdf.glycoinfo.org/pdb/{pdb_id}>
	a glycan:Resource_entry ;
	rdfs:label	"PDB" ;
	glycan:in_glycan_database glycan:Database_pdb ;
	dcterms:identifier  "pdb_id" ;
	rdfs:seeAlso	<http://www.rcsb.org/pdb/explore/explore.do?structureId={pdb_id}> .

glycan:Database_pdb
	rdfs:label	"PDB" .

SPARQL example

PREFIX dcterms: <http://purl.org/dc/terms/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan: <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT ?accNum ?entry ?entry_label ?external_id ?url
FROM <http://rdf.glytoucan.org/core>
FROM <http://rdf.glytoucan.org/partner/glycome-db>
WHERE{
  ?saccharide glytoucan:has_primary_id ?accNum .
  ?saccharide glycan:has_resource_entry ?entry .
  ?entry a glycan:Resource_entry .
  VALUES ?entry_label {"GlycomeDB"}
  ?entry rdfs:label ?entry_label .
  ?entry dcterms:identifier ?external_id .
  ?entry rdfs:seeAlso ?url .
} limit 10

=> run

GlycoNAVI graph

PubChem

Named graph: http://rdf.glytoucan.org/partner/glyconavi

Sample RDF Triple

@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix dcterms: <http://purl.org/dc/terms/> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .
@prefix glytoucan:	<http://www.glytoucan.org/glyco/owl/glytoucan#> .
@prefix skos: <http://www.w3.org/2004/02/skos/core#> .


<http://rdf.glycoinfo.org/glycan/{accession_number}>
	glycan:has_resource_entry
 			<http://rdf.glycoinfo.org/pubchem/{sid}> ,
			<http://rdf.glycoinfo.org/pubchem/{cid}> .

<http://rdf.glycoinfo.org/pubchem/{sid}>
	a glycan:Resource_entry ;
	rdfs:label "PubChem SID" ;
	glycan:in_glycan_database glycan:Database_pubchem ;
	rdfs:seeAlso <http://pubchem.ncbi.nlm.nih.gov/substance/{sid}> ;
	skos:exactMatch <http://pubchem.ncbi.nlm.nih.gov/substance/{sid}> ;
	dcterms:identifier "{sid}" .

<http://rdf.glycoinfo.org/pubchem/{cid}>
	a glycan:Resource_entry ;
	rdfs:label "PubChem CID" ;
	glycan:in_glycan_databse	glytoucan:Database_pubchem ;
	rdfs:seeAlso <http://pubchem.ncbi.nlm.nih.gov/compound/{cid}> ;
	skos:closeMatch	<http://pubchem.ncbi.nlm.nih.gov/compound/{cid}> ;
	dcterms:identifier "{cid}" .

glycan:Database_pubchem
	rdfs:label "PubChem".

SPARQL example

PREFIX dcterms: <http://purl.org/dc/terms/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan: <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT ?accNum ?entry ?entry_label ?external_id ?url
FROM <http://rdf.glytoucan.org/core>
FROM <http://rdf.glytoucan.org/partner/glyconavi>
WHERE{
  ?saccharide glytoucan:has_primary_id ?accNum .
  ?saccharide glycan:has_resource_entry ?entry .
  ?entry a glycan:Resource_entry .
  VALUES ?entry_label {"PubChem SID"}
  ?entry rdfs:label ?entry_label .
  ?entry dcterms:identifier ?external_id .
  ?entry rdfs:seeAlso ?url .
} limit 10

=> run

PDBj CC

Named graph: http://rdf.glytoucan.org/partner/glyconavi

Sample RDF Triple

@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix dcterms: <http://purl.org/dc/terms/> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .
@prefix glytoucan:	<http://www.glytoucan.org/glyco/owl/glytoucan#> .
@prefix skos: <http://www.w3.org/2004/02/skos/core#> .

<http://rdf.glycoinfo.org/glycan/{accession_number}>
	a glycan:Saccharide ;
	glycan:has_resource_entry <http://rdf.glycoinfo.org/pdbj-cc/{pdb_chem-comp_id}> .

<http://rdf.glycoinfo.org/pdbj-cc/{pdb_chem-comp_id}>
	a glycan:Resource_entry ;
	rdfs:label	"PDBj CC" ;
	dcterms:identifier	"{pdb_chem-comp_id}";
	glycan:in_glycan_database  glycan:Database_pdbj ;
	rdfs:seeAlso	<http://pdbj.org/chemie/summary/{pdb_chem-comp_id}> ;
	skos:exactMatch	<http://rdf.wwpdb.org/cc/{pdb_chem-comp_id}> .

<http://rdf.wwpdb.org/cc/{pdb_chem-comp_id}>
	dcterms:identifier	"{pdb_chem-comp_id}".

glycan:Database_pdbj
	rdfs:label	"PDBj" .

SPARQL example

PREFIX dcterms: <http://purl.org/dc/terms/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan: <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT ?accNum ?entry ?entry_label ?external_id ?url
FROM <http://rdf.glytoucan.org/core>
FROM <http://rdf.glytoucan.org/partner/glyconavi>
WHERE{
  ?saccharide glytoucan:has_primary_id ?accNum .
  ?saccharide glycan:has_resource_entry ?entry .
  ?entry a glycan:Resource_entry .
  VALUES ?entry_label {"PDBj CC"}
  ?entry rdfs:label ?entry_label .
  ?entry dcterms:identifier ?external_id .
  ?entry rdfs:seeAlso ?url .
} limit 10

=> run

PDBe CC

Named graph: http://rdf.glytoucan.org/partner/glyconavi

Sample RDF Triple

@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix dcterms: <http://purl.org/dc/terms/> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .
@prefix glytoucan:	<http://www.glytoucan.org/glyco/owl/glytoucan#> .
@prefix skos: <http://www.w3.org/2004/02/skos/core#> .

<http://rdf.glycoinfo.org/glycan/{accession_number}>
	a glycan:Saccharide ;
	glycan:has_resource_entry <http://rdf.glycoinfo.org/pdbe-cc/{pdb_chem-comp_id}> .

<http://rdf.glycoinfo.org/pdbe-cc/{pdb_chem-comp_id}>
	a glycan:Resource_entry ;
	rdfs:label	"PDBe CC" ;
	dcterms:identifier	"{pdb_chem-comp_id}";
	glycan:in_glycan_database  glycan:Database_pdbe ;
	rdfs:seeAlso	<http://www.ebi.ac.uk/pdbe-srv/pdbechem/chemicalCompound/show/{pdb_chem-comp_id}> ;
	skos:exactMatch	<http://rdf.wwpdb.org/cc/{pdb_chem-comp_id}> .

<http://rdf.wwpdb.org/cc/{pdb_chem-comp_id}>
	dcterms:identifier	"{pdb_chem-comp_id}".

glycan:Database_pdbe
	rdfs:label	"PDBe" .

SPARQL example

PREFIX dcterms: <http://purl.org/dc/terms/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan: <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT ?accNum ?entry ?entry_label ?external_id ?url
FROM <http://rdf.glytoucan.org/core>
FROM <http://rdf.glytoucan.org/partner/glyconavi>
WHERE{
  ?saccharide glytoucan:has_primary_id ?accNum .
  ?saccharide glycan:has_resource_entry ?entry .
  ?entry a glycan:Resource_entry .
  VALUES ?entry_label {"PDBe CC"}
  ?entry rdfs:label ?entry_label .
  ?entry dcterms:identifier ?external_id .
  ?entry rdfs:seeAlso ?url .
} limit 10

=> run

RCSB PDB CC

Named graph: http://rdf.glytoucan.org/partner/glyconavi

Sample RDF Triple

@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix dcterms: <http://purl.org/dc/terms/> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .
@prefix glytoucan:	<http://www.glytoucan.org/glyco/owl/glytoucan#> .
@prefix skos: <http://www.w3.org/2004/02/skos/core#> .

<http://rdf.glycoinfo.org/glycan/{accession_number}>
	a glycan:Saccharide ;
	glycan:has_resource_entry <http://rdf.glycoinfo.org/rcsb_pdb-cc/{pdb_chem-comp_id}> .

<http://rdf.glycoinfo.org/rcsb_pdb-cc/{pdb_chem-comp_id}>
	a glycan:Resource_entry ;
	rdfs:label	"RCSB PDB CC" ;
	dcterms:identifier	"{pdb_chem-comp_id}";
	glycan:in_glycan_database  glycan:Database_rcsb_pdb ;
	rdfs:seeAlso	<http://ligand-expo.rcsb.org/pyapps/ldHandler.py?formid=cc-index-search&operation=ccid&target={pdb_chem-comp_id}> ;
	skos:exactMatch	<http://rdf.wwpdb.org/cc/{pdb_chem-comp_id}> .

<http://rdf.wwpdb.org/cc/{pdb_chem-comp_id}>
	dcterms:identifier	"{pdb_chem-comp_id}".

glycan:Database_rcsb_pdb
	rdfs:label	"RCSB PDB" .

SPARQL example

PREFIX dcterms: <http://purl.org/dc/terms/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan: <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT ?accNum ?entry ?entry_label ?external_id ?url
FROM <http://rdf.glytoucan.org/core>
FROM <http://rdf.glytoucan.org/partner/glyconavi>
WHERE{
  ?saccharide glytoucan:has_primary_id ?accNum .
  ?saccharide glycan:has_resource_entry ?entry .
  ?entry a glycan:Resource_entry .
  VALUES ?entry_label {"RCSB PDB CC"}
  ?entry rdfs:label ?entry_label .
  ?entry dcterms:identifier ?external_id .
  ?entry rdfs:seeAlso ?url .
} limit 10

=> run

JCGGDB AIST graph

Named graph: http://rdf.glytoucan.org/partner/jcggdb_aist

Sample RDF Triple

@prefix rdf:	<http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix xsd:	<http://www.w3.org/2001/XMLSchema#> .
@prefix dcterms:	<http://purl.org/dc/terms/> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .
@prefix glytoucan:	<http://www.glytoucan.org/glyco/owl/glytoucan#> .

<http://rdf.glycoinfo.org/glycan/G35898DT>
    glycan:has_resource_entry	<http://rdf.glycoinfo.org/glycan/resource-entry/G35898DT/jcggdb_aist/JCGG-STR005139> .

<http://rdf.glycoinfo.org/glycan/resource-entry/G35898DT/jcggdb_aist/JCGG-STR005139>
    rdf:type	glycan:Resource_entry ;
    rdfs:label	"JCGGDB AIST" ;
    rdfs:seeAlso	<http://jcggdb.jp/idb/jcggdb/JCGG-STR005139> ;
    dcterms:identifier	"JCGG-STR005139" ;
    glycan:in_glycan_database	<http://rdf.glytoucan.org/partner/jcggdb_aist> ;
    glytoucan:date_registered	"2017-02-16 21:19:58.919"^^xsd:dateTimeStamp ,
		"2017-02-16 21:19:58.914"^^xsd:dateTimeStamp ;
    glytoucan:contributor	<http://rdf.glycoinfo.org/glytoucan/contributor/userId/ca64a33829cb339aafbea70f2abbced1b212518d411ece053c64790c7269a0ee> .

SPARQL example

PREFIX dcterms: <http://purl.org/dc/terms/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan: <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT ?accNum ?entry ?entry_label ?external_id ?url
FROM <http://rdf.glytoucan.org/core>
FROM <http://rdf.glytoucan.org/partner/jcggdb_aist>
WHERE{
  ?saccharide glytoucan:has_primary_id ?accNum .
  ?saccharide glycan:has_resource_entry ?entry .
  ?entry a glycan:Resource_entry .
  ?entry rdfs:label ?entry_label .
  ?entry dcterms:identifier ?external_id .
  ?entry rdfs:seeAlso ?url .
} limit 10

=> run

JMSDB AIST graph

Named graph: http://rdf.glytoucan.org/partner/jmsdb_jcggdb_aist

Sample RDF Triple

@prefix rdf:	<http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix xsd:	<http://www.w3.org/2001/XMLSchema#> .
@prefix dcterms:	<http://purl.org/dc/terms/> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .
@prefix glytoucan:	<http://www.glytoucan.org/glyco/owl/glytoucan#> .

<http://rdf.glycoinfo.org/glycan/G81807JV>
    glycan:has_resource_entry	<http://rdf.glycoinfo.org/glycan/resource-entry/G81807JV/jmsdb_jcggdb_aist/JMS0331> .

<http://rdf.glycoinfo.org/glycan/resource-entry/G81807JV/jmsdb_jcggdb_aist/JMS0331>
    rdf:type	glycan:Resource_entry ;
    rdfs:label	"JMSDB" ;
    rdfs:seeAlso	<http://jcggdb.jp/search/ChemGlycan.cgi?msid=JMS0331> ;
    dcterms:identifier	"JMS0331" ;
    glycan:in_glycan_database	<http://rdf.glytoucan.org/partner/jmsdb_jcggdb_aist> ;
    glytoucan:date_registered	"2016-12-13 01:32:19.878"^^xsd:dateTimeStamp ,
		"2016-12-13 01:32:19.875"^^xsd:dateTimeStamp ;
    glytoucan:contributor	<http://rdf.glycoinfo.org/glytoucan/contributor/userId/dedee3c346471769aa57c2d018033a314e5173f052819eda3c7872722b9c0f7b> .

SPARQL example

PREFIX dcterms: <http://purl.org/dc/terms/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan: <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT ?accNum ?entry ?entry_label ?external_id ?url
FROM <http://rdf.glytoucan.org/core>
FROM <http://rdf.glytoucan.org/partner/jmsdb_jcggdb_aist>
WHERE{
  ?saccharide glytoucan:has_primary_id ?accNum .
  ?saccharide glycan:has_resource_entry ?entry .
  ?entry a glycan:Resource_entry .
  ?entry rdfs:label ?entry_label .
  ?entry dcterms:identifier ?external_id .
  ?entry rdfs:seeAlso ?url .
} limit 10

=> run

UniCarb-DB graph

Named graph: http://rdf.glytoucan.org/partner/unicarb-db

Sample RDF Triple

@prefix rdf:	<http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix xsd:	<http://www.w3.org/2001/XMLSchema#> .
@prefix dcterms:	<http://purl.org/dc/terms/> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .
@prefix glytoucan:	<http://www.glytoucan.org/glyco/owl/glytoucan#> .

<http://rdf.glycoinfo.org/glycan/G84942UA>
    glycan:has_resource_entry	<http://rdf.glycoinfo.org/glycan/resource-entry/G84942UA/unicarb-db/29002> .

<http://rdf.glycoinfo.org/glycan/resource-entry/G84942UA/unicarb-db/29002>
    rdf:type	glycan:Resource_entry ;
    rdfs:label	"UniCarb-DB" ;
    rdfs:seeAlso	<http://unicarb-db.expasy.org/searchStructures/29002> ;
    dcterms:identifier	"29002" ;
    glycan:in_glycan_database	<http://rdf.glytoucan.org/partner/unicarb-db> ;
    glytoucan:date_registered	"2016-12-18 21:06:10.396"^^xsd:dateTimeStamp ,
		"2016-12-18 20:35:52.751"^^xsd:dateTimeStamp ,
		"2016-12-18 21:06:10.393"^^xsd:dateTimeStamp ;
    glytoucan:contributor	<http://rdf.glycoinfo.org/glytoucan/contributor/userId/7ca54f6ce8a9ba3e0f2a7d99e67e5b9c719e3a5aa21b5581a76f321fc7190748> .

SPARQL example

PREFIX dcterms: <http://purl.org/dc/terms/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan: <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT ?accNum ?entry ?entry_label ?external_id ?url
FROM <http://rdf.glytoucan.org/core>
FROM <http://rdf.glytoucan.org/partner/unicarb-db>
WHERE{
  ?saccharide glytoucan:has_primary_id ?accNum .
  ?saccharide glycan:has_resource_entry ?entry .
  ?entry a glycan:Resource_entry .
  ?entry rdfs:label ?entry_label .
  ?entry dcterms:identifier ?external_id .
  ?entry rdfs:seeAlso ?url .
} limit 10

=> run

UniCarbKB graph

Named graph: http://rdf.glytoucan.org/partner/unicarbkb

Sample RDF Triple

@prefix rdf:	<http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix dcterms:	<http://purl.org/dc/terms/> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .

<http://rdf.glycoinfo.org/glycan/G73971ME>
    glycan:has_resource_entry	<http://rdf.glycoinfo.org/unicarbkb/144> .

<http://rdf.glycoinfo.org/unicarbkb/144>
    rdf:type	glycan:Resource_entry ;
    rdfs:label	"UniCarbKB" ;
    rdfs:seeAlso	<http://www.unicarbkb.org/structure/144> ;
    dcterms:identifier	"144" ;
    glycan:in_glycan_database	glycan:Database_unicarbkb .

SPARQL example

PREFIX dcterms: <http://purl.org/dc/terms/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan: <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT ?accNum ?entry ?entry_label ?external_id ?url
FROM <http://rdf.glytoucan.org/core>
FROM <http://rdf.glytoucan.org/partner/unicarbkb>
WHERE{
  ?saccharide glytoucan:has_primary_id ?accNum .
  ?saccharide glycan:has_resource_entry ?entry .
  ?entry a glycan:Resource_entry .
  ?entry rdfs:label ?entry_label .
  ?entry dcterms:identifier ?external_id .
  ?entry rdfs:seeAlso ?url .
} limit 10

=> run

SugarBindDB graph

Named graph: http://rdf.glytoucan.org/partner/swiss_institute_of_bioinformatics

Sample RDF Triple

@prefix rdf:	<http://www.w3.org/1999/02/22-rdf-syntax-ns#> .
@prefix rdfs:	<http://www.w3.org/2000/01/rdf-schema#> .
@prefix xsd:	<http://www.w3.org/2001/XMLSchema#> .
@prefix dcterms:	<http://purl.org/dc/terms/> .
@prefix glycan:	<http://purl.jp/bio/12/glyco/glycan#> .
@prefix glytoucan:	<http://www.glytoucan.org/glyco/owl/glytoucan#> .

<http://rdf.glycoinfo.org/glycan/G90562PB>
  glycan:has_resource_entry	<http://rdf.glycoinfo.org/glycan/resource-entry/swiss_institute_of_bioinformatics/4> .

<http://rdf.glycoinfo.org/glycan/resource-entry/swiss_institute_of_bioinformatics/4>
    rdf:type	glycan:Resource_entry ;
    rdfs:label	"SugarBindDB" ;
    rdfs:seeAlso	<http://sugarbind.expasy.org/structures/4> ;
    dcterms:identifier	"4" ;
    glycan:in_glycan_database	<http://rdf.glytoucan.org/partner/swiss_institute_of_bioinformatics> ;
    glytoucan:date_registered	"2016-11-22 15:30:02.383"^^xsd:dateTimeStamp ,
		"2016-11-22 15:30:02.373"^^xsd:dateTimeStamp ;
    glytoucan:contributor	<http://rdf.glycoinfo.org/glytoucan/contributor/userId/170a483144766d5a90684144d455ba485c4c76a95c6fe51b5a570f5b6a9d2b27> .

SPARQL example

PREFIX dcterms: <http://purl.org/dc/terms/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX glytoucan: <http://www.glytoucan.org/glyco/owl/glytoucan#>

SELECT DISTINCT ?accNum ?entry ?entry_label ?external_id ?url
FROM <http://rdf.glytoucan.org/core>
FROM <http://rdf.glytoucan.org/partner/swiss_institute_of_bioinformatics>
WHERE{
  ?saccharide glytoucan:has_primary_id ?accNum .
  ?saccharide glycan:has_resource_entry ?entry .
  ?entry a glycan:Resource_entry .
  ?entry rdfs:label ?entry_label .
  ?entry dcterms:identifier ?external_id .
  ?entry rdfs:seeAlso ?url .
} limit 10

=> run