OpenPHACTS Linked Data Cache

Linked Data API Configuration APIs:

Default variables

Variables that can be supplied by HTTP GET/POST to all endpoints

Filtering on defined properties
param=value
Select resources whose param has the specified value. Multiple values can be specified with the "|" character. "param" must be the api:name of a rdf:Property declared in the corresponding API configuration.
min-param=value
Select resources whose param is greater than or equal to the specified value
max-param=value
Select resources whose param is less than or equal to the specified value
minEx-param=value
Select resources whose param is greater than the specified value
maxEx-param=value
Select resources whose param is less than the specified value
Built-in Variables
_page
A number; the page that should be viewed
_pageSize
A number; the number of items per page
_sort
A comma-separated list of property paths to values that should be sorted on. A - prefix on a property path indicates a descending search
_format
The api:name of the Formatter to use
_view
The api:name of the Viewer to use
_template
A template to insert in the CONSTRUCT clause of the viewer
_where
A "GroupGraphPattern?":http://www.w3.org/TR/rdf-sparql-query/#GroupPatterns (without the wrapping {}s) to insert in a SPARQL query
_orderBy
A space-separated list of OrderConditions to insert in a SPARQL query
_select
A SELECT clause to insert in a SPARQL query
_metadata
A comma separated list of names of metadata graphs to show: site,formats,views,all,execution
_lang
A comma-separated list of languages (not used in OpenPHACTS)
callback
for JSONP
Formatters (use in the _format HTTP POST/GET parameter)
  • rdf Formatter

    name
    rdf
    mimetype
    application/rdf+xml
  • rdfjson Formatter

    name
    rdfjson
    mimetype
    application/json
  • ttl Formatter

    name
    ttl
    mimetype
    text/turtle
  • json Formatter

    name
    json
    mimetype
    application/json
  • xml Formatter

    name
    xml
    mimetype
    application/xml
  • tsv Formatter

    name
    tsv
    mimetype
    text/tab-separated-values
  • html Formatter

    name
    html
    mimetype
    text/html

Compound API

An API configuration to return information about compounds

SPARQL Endpoint
http://sparql:8890/sparql/
voiD Datasets
Vocabularies:
Variables
{uri}
A compound URI. e.g.: http://www.conceptwiki.org/concept/38932552-111f-4a4e-a46a-4ed1d7bdf9d5
{tree}
Restrict results by hierarchy. Currently one of 'chebi', 'go'
{tree}
Restrict results by hierarchy. Currently one of 'chembl', 'enzyme', 'go'
{target_organism}
A literal target organism in ChEMBL.
{activity_type}
One of the activity types listed at /pharmacology/filters/activities
{activity_value}
Return activity values equal to this number.
{activity_unit}
The unit in which {activity_value} is given. See /pharmacology/filters/units/{activity_type} for allowed valued. For e.g. IC50: /pharmacology/filters/units/IC50
{activity_relation}
>, >=,= , < , <=
{assay_organism}
A literal organism in ChEMBL.
{pChembl}
Return activities with a pChembl value equal to this number.
{target_organism}
A literal target organism in ChEMBL.
{data_validity_issue}
ChEMBL data validity issue annotation. One of: true, false.
{data_validity_comment}
ChEMBL data validity issue annotation. One of: 'Manually validated', 'Non standard unit for type','Outside typical range' ,'Potential missing data', 'Potential transcription error', 'Potential author error', 'Author confirmed error'.
{potential_duplicate}
ChEMBL potential duplicate annotation. One of: true, false.
{target_conf_score}
ChEMBL Target confidence score. An integer denoting the confidence of the target assigned. 0: Default value - Target unknown or has yet to be assigned; 1: Target assigned is non-molecular; 2: Target assigned is subcellular fraction; 3: Target assigned is molecular non-protein target; 4: Multiple homologous protein targets may be assigned; 5: Multiple direct protein targets may be assigned; 6: Homologous protein complex subunits assigned; 7: Direct protein complex subunits assigned; 8: Homologous single protein target assigned; 9: Direct single protein target assigned
{target_rel_type}
ChEMBL Assay relationship type annotation. A single capital letter as follows. U: Default value - Target has yet to be curated; D: Direct protein target assigned; H: Homologous protein target assigned; M: Molecular target other than protein assigned; N: Non-molecular target assigned; S: Subcellular target assigned
{target_type}
One of the types listed at /target/types. e.g. single_protein
{target_organism}
A literal target organism in ChEMBL.
{target_type}
One of the types listed at /target/types. e.g. single_protein
{target_organism}
A literal target organism in ChEMBL.
{target_type}
One of the types listed at /target/types. e.g. single_protein
{target_organism}
A literal target organism in ChEMBL.
{target_type}
One of the types listed at /target/types. e.g. single_protein
Item Endpoints (click to expand):
  • Compound Information Item Endpoint

    Description:
    Returns information about a single compound including (but not limited to): molecular weight, biotransformation, protein binding and toxicity. Adverse event data (AERS) is returned where available, as well as drug/drug interactions.
    URI Template:
    /compound?uri={uri}
    Example URIs:
    Viewers:
    • compoundViewer

      Response Template:
      
      ?ops_item skos:exactMatch ?cw_compound_uri .
      ?cw_compound_uri skos:prefLabel ?compound_name ;
      	void:inDataset <http://www.conceptwiki.org> .
      ?ops_item skos:exactMatch ?ocrs_compound_uri .
      ?ocrs_compound_uri ops:smiles ?smiles ;
      	ops:inchi ?inchi ;
      	ops:inchikey ?inchiKey ;
      	ops:logp ?alogp ;
      	ops:hba ?hba ;
      	ops:hbd ?hbd ;
      	ops:ro5_violations ?num_ro5_violations ;
      	ops:psa ?psa;
      	ops:rtb ?rtb;
      	ops:molweight ?molweight ;
      	ops:molformula ?molformula ;
      	void:inDataset <http://ops.rsc.org> .
      ?ops_item skos:exactMatch ?chembl_compound_uri . 
      ?chembl_compound_uri ?bNode1 ?mw_freebase ;
      	a ?mol_type;
      	void:inDataset <http://www.ebi.ac.uk/chembl>.
      ?ops_item skos:exactMatch ?db_compound_uri .
      ?db_compound_uri drugbank:metabolism ?metabolism ;
      	drugbank:description ?description ;
      	drugbank:proteinBinding ?proteinBinding ;
      	drugbank:toxicity ?toxicity ;
      	drugbank:meltingPoint ?meltingPoint ;
      	drugbank:genericName ?drug_name ;
      	drugbank:drugType ?drugType ;
      	ops:drugInteraction ?interaction ;
      	void:inDataset <http://www.openphacts.org/bio2rdf/drugbank> .
      ?interaction ops:interactingDrug ?interacting_drug ;
      	drugbank:text ?interaction_text ;
      	void:inDataset <http://www.openphacts.org/bio2rdf/drugbank> .
      ?ops_item skos:exactMatch ?aers_compound_uri .
      ?aers_compound_uri ops:reportedAdverseEvent ?event ;
      	skos:prefLabel ?aers_drug_name ; 
      	void:inDataset <http://aers.data2semantics.org/> .
      ?event skos:prefLabel ?event_label ;
              void:inDataset <http://aers.data2semantics.org/> .
      ?ops_item skos:exactMatch ?schembl_compound_uri .
      ?schembl_compound_uri ops:smiles ?s_smiles;
      	ops:inchi ?s_inchi ;
      	ops:inchiKey ?s_inchiKey ;
      	ops:logp ?s_logp ;
      	ops:molweight ?s_molweight ;
      	ops:hbd ?s_hbd ;
      	ops:hba ?s_hba ;
      	ops:rings ?s_rings ;
      	ops:rotable_bonds ?s_rotable_bonds ;
              void:inDataset <http://rdf.ebi.ac.uk/dataset/surechembl/1.1/void.ttl#surechembl_rdf_molecule_dataset> .
                        
  • Compound Class Members: Count Item Endpoint

    Description:
    The number of compounds classified with the given class in the supported hierarchies. Currently the only supported hierarchy is the ChEBI Ontology.
    URI Template:
    /compound/members/count?uri={uri}
    Example URIs:
    Viewers:
    • compoundMemberCountViewer

      Response Template:
      
      ?ops_item ops:memberCount ?count .                   
  • Compound Classifications Item Endpoint

    Description:
    The classes the given compound URI has been classified with. Currently supported hierarchies are the ChEBI Ontology and the Gene Ontology.
    URI Template:
    /compound/classifications?uri={uri}
    Example URIs:
    Viewers:
    • compoundClassificationsViewer

      Response Template:
      
      ?ops_item skos:exactMatch ?chembl_compound_uri ;
      	skos:exactMatch ?cw_compound_uri .
      ?chembl_compound_uri ops:hasChebiClassification ?chebi_class ; 
      	ops:hasChebiClassification ?chebi_other_class ;
      	void:inDataset <http://www.ebi.ac.uk/chembl> .
      ?chebi_input ops:hasGoClassification ?go_class ;
      	skos:prefLabel ?chebi_input_label ; 
      	void:inDataset <http://www.geneontology.org> .
      ?go_input ops:hasChebiClassification ?chebi_class ;
      	skos:prefLabel ?go_input_label ;
              void:inDataset <http://www.ebi.ac.uk/chembl> .
      ?cw_compound_uri skos:prefLabel ?cw_label ; 
      	void:inDataset <http://www.conceptwiki.org> .
      ?chebi_class skos:prefLabel ?chebi_label ;
      	ops:classificationType rdf:type ;
              void:inDataset <http://www.ebi.ac.uk/chebi> .
      rdf:type skos:prefLabel 'Type' .
      ?chebi_other_class skos:prefLabel ?chebi_other_label ;
              ops:classificationType ?chebi_class_type ;
              void:inDataset <http://www.ebi.ac.uk/chebi> .
      ?chebi_class_type skos:prefLabel ?chebi_class_type_label .
      ?go_class skos:prefLabel ?go_label ;
      	void:inDataset <http://www.geneontology.org> .
      <http://www.ebi.ac.uk/chebi> skos:prefLabel 'ChEBI Ontology' .
      <http://www.geneontology.org> skos:prefLabel 'GeneOntology' .                   
  • Classification of Targets for Compound Item Endpoint

    Description:
    The hierarchy of classes for the different Targets that interact with a given Compound. Currently supported hierarchies are the Enzyme Classification, the ChEMBL Target Tree and the Gene Ontology.
    URI Template:
    /compound/classificationsForTargets?uri={uri}
    Example URIs:
    Viewers:
    • compoundClassificationsForTargetsViewer

      Response Template:
      
      ?ops_item skos:exactMatch ?chembl_compound_uri ;
      	skos:exactMatch ?cw_compound_uri .
      ?chembl_compound_uri ops:interactsWithTargetOfClass ?class ; 
      	void:inDataset <http://www.ebi.ac.uk/chembl> .
      ?cw_compound_uri skos:prefLabel ?cw_label ;
              void:inDataset <http://www.conceptwiki.org> . 
      ?class skos:prefLabel ?class_label ;
      	void:inDataset ?g .                   
  • Compound Pharmacology: Count Item Endpoint

    Description:
    The total number of acitivity values in the LDC for a given compound
    URI Template:
    /compound/pharmacology/count?uri={uri}
    Example URIs:
    Viewers:
    • compoundPharmacologyCountViewer

      Response Template:
      
      ?ops_item ops:compoundPharmacologyTotalResults ?count .                   
  • Compound Class Pharmacology: Count Item Endpoint

    Description:
    The total number of activity values in the LDC for a given Compound class. Currently only the ChEBI Ontology is supported.
    URI Template:
    /compound/tree/pharmacology/count?uri={uri}
    Example URIs:
    Viewers:
    • compoundClassPharmaCountViewer

      Response Template:
      
      ?ops_item ops:compoundPharmacologyTotalResults ?count .                   
List Endpoints (click to expand):
  • Compound Pharmacology: List List Endpoint

    Example URIs:
    selector filters
    inherited selector filters
    Default Viewer
    compoundPharmacologyListViewer
    Response Template:
    
    ?item chembl:hasMolecule ?chembl_compound_uri ;
    	chembl:standardType ?activity_type ;
    	chembl:standardRelation ?activity_relation ;
    	chembl:standardValue ?activity_value ;
            chembl:hasQUDT ?qudt_uri;
    	chembl:publishedType ?published_type ;
            chembl:publishedRelation ?published_relation ;
            chembl:publishedValue ?published_value ;
            chembl:publishedUnits ?published_unit ;
    	chembl:pChembl ?pChembl ;
            chembl:activityComment ?act_comment ;
    	chembl:hasAssay ?assay_uri ;
            chembl:hasDocument ?doi ;
    	ops:dataValidityIssue ?issue ;
    	ops:dataValidityComment ?comment ;
    	ops:potentialDuplicate ?dup ;
            bibo:pmid ?pmid ;
    	void:inDataset <http://www.ebi.ac.uk/chembl> .
    ?qudt_uri skos:prefLabel ?activity_unit .
    ?assay_uri chembl:hasTarget ?target_uri ;
            chembl:assayOrganismName ?assay_organism ;
    	chembl:assayTestType ?assay_type ;
    	dcterms:description ?assay_description  ;
    	chembl:targetConfDesc ?conf_desc ;
    	ops:targetConfScore ?conf_score ;
            ops:targetRelType ?rel_type ;
            chembl:targetRelDesc ?rel_desc ;
            void:inDataset <http://www.ebi.ac.uk/chembl> .
    ?target_uri dcterms:title ?target_name ;
    	chembl:targetOrganismName ?target_organism ;
    	chembl:hasTargetComponent ?protein ;
    	a ?target_type ;
            void:inDataset <http://www.ebi.ac.uk/chembl> . 
    ?chembl_compound_uri skos:exactMatch ?cw_compound_uri .
    ?protein skos:exactMatch ?cw_target .
    ?cw_target skos:prefLabel ?protein_name ;
            void:inDataset <http://www.conceptwiki.org> .
    ?cw_compound_uri skos:prefLabel ?compound_name ;
    	void:inDataset <http://www.conceptwiki.org> .
    ?chembl_compound_uri skos:exactMatch ?ocrs_compound_uri .
    ?ocrs_compound_uri ops:smiles ?smiles ;
    	ops:inchi ?inchi ;
    	ops:inchikey ?inchiKey;
    	ops:molweight ?molweight ;
            ops:ro5_violations ?num_ro5_violations ;
    	void:inDataset <http://ops.rsc.org> .
    ?chembl_compound_uri skos:exactMatch ?db_compound_uri ;
    	void:inDataset <http://www.ebi.ac.uk/chembl> .
    ?db_compound_uri drugbank:drugType ?drugType ;
    	drugbank:genericName ?drug_name ;
    	void:inDataset <http://www.openphacts.org/bio2rdf/drugbank> .                  
  • ChemSpider structure search API

    An API configuration to return a chemspider URL corresponding to a chemical structure.

    SPARQL Endpoint
    http://sparql:8890/sparql/
    voiD Datasets
    Vocabularies:
    Variables
    {inchi}
    An InChI string. E.g. InChI=1S/C9H8O4/c1-6(10)13-8-5-3-2-4-7(8)9(11)12/h2-5H,1H3,(H,11,12)
    {inchi_key}
    An InChIKey string. E.g. BSYNRYMUTXBXSQ-UHFFFAOYSA-N
    {smiles}
    A SMILES string. E.g. CC(=O)Oc1ccccc1C(=O)O
    {searchOptions}
    Possible search option values
    {commonOptions}
    Possible common option values
    {resultOptions}
    Possible search result option values
    {searchOptions}
    Possible search option values
    {commonOptions}
    Possible common option values
    {resultOptions}
    Possible search result option values
    {Uri}
    An input Uri to be mapped.
    {targetUriPattern}
    List of URI patterns separated by '|' characters. Limits the results to ones with URIs with this pattern(s).
    {graph}
    Limits the results to ones required for this OpenRdf context/graph.
    {lensUri}
    Lens URI.
    Item Endpoints (click to expand):
    List Endpoints (click to expand):

    Target API

    An API configuration to return information about targets

    SPARQL Endpoint
    http://sparql:8890/sparql/
    voiD Datasets
    Vocabularies:
    Variables
    {uri}
    A compound URI. e.g.: http://www.conceptwiki.org/concept/38932552-111f-4a4e-a46a-4ed1d7bdf9d5
    {drug_type}
    One of: 'approved', 'experimental', 'illicit', 'investigational', 'nutraceutical', 'withdrawn'
    {assay_organism}
    A literal organism in ChEMBL.
    {target_organism_uri}
    An organism URI from Uniprot. e.g. http://purl.uniprot.org/taxonomy/386043
    {tree}
    Restrict results by hierarchy. Currently one of 'chembl', 'enzyme', 'go'
    {target_type}
    One of the types listed at /target/types. e.g. single_protein
    {target_organism}
    A literal target organism in ChEMBL.
    {activity_type}
    One of the activity types listed at /pharmacology/filters/activities
    {activity_value}
    Return activity values equal to this number.
    {activity_unit}
    The unit in which {activity_value} is given. See /pharmacology/filters/units/{activity_type} for allowed valued. For e.g. IC50: /pharmacology/filters/units/IC50
    {activity_relation}
    >, >=,= , < , <=
    {pChembl}
    Return activities with a pChembl value equal to this number.
    {target_organism}
    A literal target organism in ChEMBL.
    {data_validity_issue}
    ChEMBL data validity issue annotation. One of: true, false.
    {data_validity_comment}
    ChEMBL data validity issue annotation. One of: 'Manually validated', 'Non standard unit for type','Outside typical range' ,'Potential missing data', 'Potential transcription error', 'Potential author error', 'Author confirmed error'.
    {potential_duplicate}
    ChEMBL potential duplicate annotation. One of: true, false.
    {target_conf_score}
    ChEMBL Target confidence score. An integer denoting the confidence of the target assigned. 0: Default value - Target unknown or has yet to be assigned; 1: Target assigned is non-molecular; 2: Target assigned is subcellular fraction; 3: Target assigned is molecular non-protein target; 4: Multiple homologous protein targets may be assigned; 5: Multiple direct protein targets may be assigned; 6: Homologous protein complex subunits assigned; 7: Direct protein complex subunits assigned; 8: Homologous single protein target assigned; 9: Direct single protein target assigned
    {target_rel_type}
    ChEMBL Assay relationship type annotation. A single capital letter as follows. U: Default value - Target has yet to be curated; D: Direct protein target assigned; H: Homologous protein target assigned; M: Molecular target other than protein assigned; N: Non-molecular target assigned; S: Subcellular target assigned
    {target_type}
    One of the types listed at /target/types. e.g. single_protein
    {target_organism}
    A literal target organism in ChEMBL.
    {target_type}
    One of the types listed at /target/types. e.g. single_protein
    {target_organism}
    A literal target organism in ChEMBL.
    {target_type}
    One of the types listed at /target/types. e.g. single_protein
    {target_organism}
    A literal target organism in ChEMBL.
    {target_type}
    One of the types listed at /target/types. e.g. single_protein
    Item Endpoints (click to expand):
    • Target Information Item Endpoint

      Description:
      Information about a single target.
      URI Template:
      /target?uri={uri}
      Example URIs:
      Viewers:
      • targetViewer

        Response Template:
        
        ?ops_item skos:exactMatch ?cw_target_uri ;
        	skos:exactMatch ?uniprot_target_uri ;
        	skos:exactMatch ?chembl_target_uri ;
        	skos:exactMatch ?db_target_uri .
        ?cw_target_uri skos:prefLabel ?target_name ;
        	void:inDataset <http://www.conceptwiki.org> .
        ?uniprot_target_uri uniprot:existence ?existence ;
        	uniprot:organism ?organism ;
        	uniprot:sequence ?sequence ;
        	uniprot:Function_Annotation ?function ;
        	ops:interactsWith ?inter_prot ;
        	uniprot:classifiedWith ?class ;
        	uniprot:alternativeName ?alt_name ;
        	uniprot:mass ?mass ;
                ops:molecularWeight ?mass ; 
        	rdfs:seeAlso ?target_pdb ;
        	rdfs:seeAlso ?ppi ;
                void:inDataset <http://purl.uniprot.org> .
        ?inter_prot rdfs:label ?inter_label .
        ?chembl_target_uri chembl:hasTargetComponent ?target_component ;
        	a ?target_type ;
        	rdfs:label ?synonym ;	
        	void:inDataset <http://www.ebi.ac.uk/chembl> .
        ?target_component dcterms:description ?description ;
        	skos:exactMatch ?cw_target ;
                void:inDataset <http://www.ebi.ac.uk/chembl> .
        ?cw_target skos:prefLabel ?protein_name ;
                void:inDataset <http://www.conceptwiki.org> .
        ?db_target_uri drugbank:cellularLocation ?cellularLocation ;
        	drugbank:molecularWeight ?molecularWeight ;
        	drugbank:numberOfResidues ?numberOfResidues ;
        	drugbank:theoreticalPi ?theoreticalPi ; 
        	ops:targetForDrug ?db_compound ;
                void:inDataset <http://www.openphacts.org/bio2rdf/drugbank> .
        ?db_compound drugbank:genericName ?drug_name ;
        	drugbank:drugType ?drugType ;
        	void:inDataset <http://www.openphacts.org/bio2rdf/drugbank> .
                          
    • Target Class Members: Count Item Endpoint

      Description:
      The number of targets classified with the given class in the supported hierarchies. Currently supported hierarchies are the Enzyme Classification, the ChEMBL Target Tree and the Gene Ontology.
      URI Template:
      /target/members/count?uri={uri}
      Example URIs:
      Viewers:
      • targetMemberCountViewer

        Response Template:
        
        ?ops_item ops:memberCount ?count .                   
    • Target Classifications Item Endpoint

      Description:
      The classes the given target URI has been classified with. Currently supported hierarchies are the Enzyme Classification, the ChEMBL Target Tree and the Gene Ontology.
      URI Template:
      /target/classifications?uri={uri}
      Example URIs:
      Viewers:
      • targetClassificationsViewer

        Response Template:
        
        ?ops_item skos:exactMatch ?chembl_target_uri ;
        	skos:exactMatch ?uniprot_target_uri .
        ?chembl_target_uri chembl:hasProteinClassification ?chembl_class ;
        	dcterms:title ?target_name ;
        	a ?target_type ;
        	void:inDataset <http://www.ebi.ac.uk/chembl> .
        ?uniprot_target_uri ops:hasGoComponent ?go_component ; 
        	ops:hasGoFunction ?go_function ;
        	ops:hasGoProcess ?go_process ; 
        	ops:hasEnzymeClassification ?enzyme_class ;
        	skos:prefLabel ?uniprot_name ;
        	void:inDataset ?dataset .
        ?chembl_class skos:prefLabel ?chembl_label ;
        	void:inDataset <http://www.ebi.ac.uk/chembl> . 
        ?enzyme_class skos:prefLabel ?enzyme_label ;
        	void:inDataset <http://purl.uniprot.org/enzyme> .
        ?go_component skos:prefLabel ?go_c_label ;
        	void:inDataset <http://www.geneontology.org> .
        ?go_function skos:prefLabel ?go_f_label ;
                void:inDataset <http://www.geneontology.org> .
        ?go_process skos:prefLabel ?go_p_label ;
                void:inDataset <http://www.geneontology.org> .
        <http://purl.uniprot.org/enzyme> skos:prefLabel 'Enzyme Classification' .
        <http://www.ebi.ac.uk/chembl/target> skos:prefLabel 'ChEMBL Target Hierarchy' .
        <http://www.geneontology.org> skos:prefLabel 'GeneOntology' .                  
    • Classification of Compounds for Target Item Endpoint

      Description:
      The hierarchy classes for the different Compounds that interact with a given Target. Currently only the ChEBI Ontology is supported.
      URI Template:
      /target/classificationsForCompounds?uri={uri}
      Example URIs:
      Viewers:
      • targetClassForCompoundViewer

        Response Template:
        
        ?ops_item skos:exactMatch ?chembl_target_uri ;
        	skos:exactMatch ?cw_target_uri .
        ?chembl_target_uri ops:interactsWithMoleculeOfClass ?chebi_class ;
        	ops:interactsWithMoleculeOfClass ?chebi_other_class ;
        	void:inDataset <http://www.ebi.ac.uk/chembl> .
        ?cw_target_uri skos:prefLabel ?cw_label . 
        ?chebi_class skos:prefLabel ?chebi_label ;
        	void:inDataset <http://www.ebi.ac.uk/chebi> . 
        ?chebi_other_class skos:prefLabel ?chebi_other_label ;
        	ops:classificationType ?chebi_class_type ;
        	void:inDataset <http://www.ebi.ac.uk/chebi> .
        ?chebi_class_type skos:prefLabel ?chebi_class_type_label .
        <http://www.ebi.ac.uk/chebi> skos:prefLabel 'ChEBI Ontology' .                  
    • Target Pharmacology: Count Item Endpoint

      Description:
      The total number of acitivity values in the LDC for a given target
      URI Template:
      /target/pharmacology/count?uri={uri}
      Example URIs:
      Viewers:
      • targetPharmacologyCountViewer

        Response Template:
        
        ?ops_item ops:targetPharmacologyTotalResults ?count .                   
    • Target Class Pharmacology: Count Item Endpoint

      Description:
      The total number of acitivity values in the LDC for targets classified with the given class in the supported hierarchies. Currently supported hierarchies are the Enzyme Classification, the ChEMBL Target Tree and the Gene Ontology.
      URI Template:
      /target/tree/pharmacology/count?uri={uri}
      Example URIs:
      Viewers:
      • targetTreePharmaCountViewer

        Response Template:
        
        ?ops_item ops:targetPharmacologyTotalResults ?count .                   
    • Target Types Item Endpoint

      Description:
      A list of target types in the LDC.
      URI Template:
      /target/types
      Example URIs:
      Viewers:
      • targetTypesViewer

        Response Template:
        
        <http://www.ebi.ac.uk/chembl> ops:hasTargetType ?target_type .
        ?target_type ops:targetCount ?target_count .
        <http://rdf.ebi.ac.uk/terms/chembl#SingleProtein> rdfs:label 'single_protein' .
        <http://rdf.ebi.ac.uk/terms/chembl#ProteinComplexGroup> rdfs:label 'protein_complex_group' .
        <http://rdf.ebi.ac.uk/terms/chembl#ProteinFamily> rdfs:label 'protein_family' .
        <http://rdf.ebi.ac.uk/terms/chembl#ProteinSelectivityGroup> rdfs:label 'protein_selectivity_group' .
        <http://rdf.ebi.ac.uk/terms/chembl#ProteinComplex> rdfs:label 'protein_complex' .
        <http://rdf.ebi.ac.uk/terms/chembl#Organism> rdfs:label 'organism' .
        <http://rdf.ebi.ac.uk/terms/chembl#CellLine> rdfs:label 'cell_line' .
        <http://rdf.ebi.ac.uk/terms/chembl#Tissue> rdfs:label 'tissue' .
        <http://rdf.ebi.ac.uk/terms/chembl#ProteinProteinInteraction> rdfs:label 'ppi' .
        <http://rdf.ebi.ac.uk/terms/chembl#UnknownTarget> rdfs:label 'unknown' .
        <http://rdf.ebi.ac.uk/terms/chembl#NucleicAcid> rdfs:label 'nucleic_acid' .
        <http://rdf.ebi.ac.uk/terms/chembl#SubCellular> rdfs:label 'sub_cellular' .
        <http://rdf.ebi.ac.uk/terms/chembl#UnclassifiedTarget> rdfs:label 'unclassified' .
        <http://rdf.ebi.ac.uk/terms/chembl#ADMET> rdfs:label 'admet' .
        <http://rdf.ebi.ac.uk/terms/chembl#ChimericProtein> rdfs:label 'chimeric_protein' .
        <http://rdf.ebi.ac.uk/terms/chembl#Phenotype> rdfs:label 'phenotype' .                  
    List Endpoints (click to expand):

    Pathway API

    An API configuration to return information about pathways

    SPARQL Endpoint
    http://sparql:8890/sparql/
    voiD Datasets
    Vocabularies:
    Variables
    {pathway_organism}
    The name for the pathway organism (URL encode). e.g.: Homo sapiens.
    {uri}
    A compound URI. e.g.: http://www.conceptwiki.org/concept/38932552-111f-4a4e-a46a-4ed1d7bdf9d5
    {direction}
    One of: 'up', 'down'. 'up' returns only Interactions where the specifies entity is the target, and 'down' returns only Interactions where the specified entity is the source.
    {interaction_type}
    The type of interaction to return. One of: 'directed', 'undirected'
    {direction}
    One of: 'up', 'down'. 'up' returns only Interactions where the specifies entity is the target, and 'down' returns only Interactions where the specified entity is the source.
    {interaction_type}
    The type of interaction to return. One of: 'directed', 'undirected'
    Item Endpoints (click to expand):
    • Pathways: Count Item Endpoint

      Description:
      The total number of pathways in the LDC.
      URI Template:
      /pathways/count
      Example URIs:
      Viewers:
      • pathwayCountViewer

        Response Template:
        
        <http://www.wikipathways.org> ops:pathway_count ?count .                  
    • Pathway Information Item Endpoint

      Description:
      Information about a single pathway.
      URI Template:
      /pathway?uri={uri}
      Example URIs:
      Viewers:
      • pathwayViewer

        Response Template:
        
        ?ops_item skos:exactMatch ?pw_uri .
        ?pw_uri sioc:latest_version ?rev ;
                void:inDataset <http://www.wikipathways.org>.
        ?rev dc:title ?title ; 
        	wp:organism ?organism_uri ; 
        	foaf:page ?page ;
        	dcterms:description ?description ;
        	wp:pathwayOntology ?ontology ;
        	dcterms:hasPart ?part ;
        	void:inDataset <http://www.wikipathways.org> .
        ?organism_uri rdfs:label ?organism . 
        ?part a ?type .
                          
    • Pathway Information: Get Compounds Item Endpoint

      Description:
      A list of compounds that are part of the pathway specified.
      URI Template:
      /pathway/getCompounds?uri={uri}
      Example URIs:
      Viewers:
      • pathwayCompoundViewer

        Response Template:
        
        ?ops_item skos:exactMatch ?pw_uri .
        ?pw_uri sioc:latest_version ?rev .
        ?rev dc:title ?title ;
        	dcterms:hasPart ?metabolite ;
        	void:inDataset <http://www.wikipathways.org> .                  
    • Pathway Information: Get Targets Item Endpoint

      Description:
      A list of targets that are part of the pathway specified.
      URI Template:
      /pathway/getTargets?uri={uri}
      Example URIs:
      Viewers:
      • pathwayTargetViewer

        Response Template:
        
        ?ops_item skos:exactMatch ?pw_uri .
        ?pw_uri sioc:latest_version ?rev .
        ?rev dc:title ?title ; 
        	dcterms:hasPart ?gene_product;
        	void:inDataset <http://www.wikipathways.org> .                  
    • Pathway Information: Get Publications Item Endpoint

      Description:
      A list of publications that are part of the pathway specified.
      URI Template:
      /pathway/getReferences?uri={uri}
      Example URIs:
      Viewers:
      • pathwayReferenceViewer

        Response Template:
        
        ?ops_item skos:exactMatch ?pw_uri .
        ?pw_uri sioc:latest_version ?rev . 
        ?rev dc:title ?title ; 
        	dcterms:hasPart ?reference ;
        	void:inDataset <http://www.wikipathways.org> .                  
    • Pathways for Compound: Count Item Endpoint

      Description:
      The total number of pathways which have as part the Metabolite specified.
      URI Template:
      /pathways/byCompound/count?uri={uri}
      Example URIs:
      Viewers:
      • pathwayByCompoundCountViewer

        Response Template:
        
        <http://www.wikipathways.org> ops:pathway_count ?count .                  
    • Pathways for Target: Count Item Endpoint

      Description:
      The total number of pathways which have as part the Gene Product specified.
      URI Template:
      /pathways/byTarget/count?uri={uri}
      Example URIs:
      Viewers:
      • pathwayByTargetCountViewer

        Response Template:
        
        <http://www.wikipathways.org> ops:pathway_count ?count .                  
    • Pathways for Publication: Count Item Endpoint

      Description:
      The total number of pathways which have as part the Reference specified.
      URI Template:
      /pathways/byReference/count?uri={uri}
      Example URIs:
      Viewers:
      • pathwayByReferenceCountViewer

        Response Template:
        
        <http://www.wikipathways.org> ops:pathway_count ?count .                  
    • Pathway Information: Get Interactions Item Endpoint

      Description:
      A list of interactions that are part of the pathway specified.
      URI Template:
      /pathway/getInteractions?uri={uri}
      Example URIs:
      Viewers:
      • pathwayInteractionsViewer

        Response Template:
        
        
        ?ops_item skos:exactMatch ?pw_uri .
        ?pw_uri sioc:latest_version ?rev .
        ?rev dc:title ?title ; 
        	dcterms:hasPart ?interaction ;
        	dcterms:hasPart ?dir_interaction ;
        	void:inDataset <http://www.wikipathways.org> .
        ?interaction a wp:Interaction ;
        	wp:participants ?participants ;
                void:inDataset <http://www.wikipathways.org> .
        ?participants a ?part_type ;
        	wp:participants ?c_part ;
        	wp:source ?part_source ;
                wp:target ?part_target ;
                void:inDataset <http://www.wikipathways.org> .
        ?dir_interaction a wp:DirectedInteraction ;
        	wp:source ?source ;
        	wp:target ?target ;
                void:inDataset <http://www.wikipathways.org> .
        ?source a ?source_type ;
        	wp:participants ?s_dir_c_part ;
        	wp:source ?source_source ;
                wp:target ?source_target ;
                void:inDataset <http://www.wikipathways.org> .
        ?target a ?target_type ;
        	wp:participants ?t_dir_c_part ;
        	wp:source ?target_source ;
                wp:target ?target_target ;
        	void:inDataset <http://www.wikipathways.org> .
        ?c_part a ?c_part_type ;
                void:inDataset <http://www.wikipathways.org> .
        ?s_dir_c_part a ?s_dir_c_part_type ;
                void:inDataset <http://www.wikipathways.org> .
        ?t_dir_c_part a ?t_dir_c_part_type ;
                void:inDataset <http://www.wikipathways.org> .
        ?part_source a ?part_source_type ;
                void:inDataset <http://www.wikipathways.org> .
        ?part_target a ?part_target_type ;
                void:inDataset <http://www.wikipathways.org> .
        ?source_source a ?source_source_type ;
                void:inDataset <http://www.wikipathways.org> .
        ?source_target a ?source_target_type ;
                void:inDataset <http://www.wikipathways.org> .
        ?target_source a ?target_source_type ;
                void:inDataset <http://www.wikipathways.org> .
        ?target_target a ?target_target_type ;
                void:inDataset <http://www.wikipathways.org> .
                          
    • Pathway Interactions for Entity: Count Item Endpoint

      Description:
      A list of interactions that the entity specified is a part of.
      URI Template:
      /pathways/interactions/byEntity/count?uri={uri}
      Example URIs:
      Viewers:
      • pathwayInteractionsByEntityCountViewer

        Response Template:
        
        
        <http://www.wikipathways.org> ops:interactions_count ?count .
                          
    List Endpoints (click to expand):
    • Pathways: List List Endpoint

      Example URIs:
      selector filters
      inherited selector filters
      Viewers:
      • pathwayListViewer default viewer

      Default Viewer
      pathwayListViewer
      Response Template:
      
      ?item dc:title ?title ; 
      	wp:organism ?organism_uri ; 
      	foaf:page ?page ;
      	dc:identifier ?identifier ;
      	dcterms:description ?description ;
      	wp:pathwayOntology ?ontology ;
      	void:inDataset <http://www.wikipathways.org> .
      ?organism_uri rdfs:label ?organism . 
                        
  • Pathways for Compound: List List Endpoint

    Example URIs:
    selector filters
    inherited selector filters
    Viewers:
    • pathwayByCompoundViewer default viewer

    Default Viewer
    pathwayByCompoundViewer
    Response Template:
    
    ?item dc:title ?title ; 
    	wp:organism ?organism_uri ; 
    	foaf:page ?page ;
    	dc:identifier ?identifier ;
    	dcterms:description ?description ;
    	wp:pathwayOntology ?ontology ;
    	dcterms:hasPart ?pw_compound_uri ;
    	void:inDataset <http://www.wikipathways.org> .
    ?organism_uri rdfs:label ?organism . 
    ?pw_compound_uri a wp:Metabolite ; 
    	skos:exactMatch ?cw_compound_uri .
    ?cw_compound_uri skos:prefLabel ?prefLabel ;
    	void:inDataset <http://www.conceptwiki.org> .
                      
  • Pathways for Target: List List Endpoint

    Example URIs:
    selector filters
    inherited selector filters
    Viewers:
    • pathwayByTargetViewer default viewer

    Default Viewer
    pathwayByTargetViewer
    Response Template:
    
    ?item dc:title ?title ; 
    	wp:organism ?organism_uri ; 
    	foaf:page ?page ;
    	dc:identifier ?identifier ;
    	dcterms:description ?description ;
    	wp:pathwayOntology ?ontology ;
    	dcterms:hasPart ?pw_target_uri ;
    	void:inDataset <http://www.wikipathways.org> .
    ?organism_uri rdfs:label ?organism . 
    ?pw_target_uri a ?type ; 
    	skos:exactMatch ?cw_target_uri .
    ?cw_target_uri skos:prefLabel ?prefLabel .
                      
  • Pathways for Publication: List List Endpoint

    Example URIs:
    selector filters
    inherited selector filters
    Viewers:
    • pathwayByReferenceViewer default viewer

    Default Viewer
    pathwayByReferenceViewer
    Response Template:
    
    ?item dc:title ?title ; 
    	wp:organism ?organism_uri ; 
    	foaf:page ?page ;
    	dc:identifier ?identifier ;
    	dcterms:description ?description ;
    	wp:pathwayOntology ?ontology ;
    	dcterms:hasPart ?pw_ref_uri ;
    	void:inDataset <http://www.wikipathways.org> .
    ?organism_uri rdfs:label ?organism . 
    ?pw_ref_uri a wp:PublicationReference . 
                      
  • Pathway Organisms List Endpoint

    Example URIs:
    selector filters
    inherited selector filters
    Viewers:
    • pathwayOrganismViewer default viewer

    Default Viewer
    pathwayOrganismViewer
    Response Template:
    
    <http://www.wikipathways.org> ops:pathway_organism ?item .
    ?item rdfs:label ?label ;
    ops:pathway_count ?count .                  
  • Pathway Interactions for Entity: List List Endpoint

    Example URIs:
    selector filters
    inherited selector filters
    Viewers:
    • pathwayInteractionsByEntityViewer default viewer

    Default Viewer
    pathwayInteractionsByEntityViewer
    Response Template:
    
    
    ?pathway sioc:latest_version ?rev ;
    	wp:organism ?organism_uri ;
    	dc:title ?title ; 
    	void:inDataset <http://www.wikipathways.org> .
    ?organism_uri rdfs:label ?organism ;
            void:inDataset <http://www.wikipathways.org> .
    ?interaction a wp:Interaction ;
            a ?interaction_types ;
    	wp:participants ?participants ;
    	dcterms:isPartOf ?pathway ;
            void:inDataset <http://www.wikipathways.org> .
    ?participants a ?part_type ;
    	wp:participants ?c_part ;
    	ops:source ?part_source ;
            ops:target ?part_target ;
            void:inDataset <http://www.wikipathways.org> .
    ?dir_interaction a wp:DirectedInteraction ;
            a ?dir_interaction_types ;
    	wp:participants ?participants ;
    	ops:source ?source ;
    	ops:target ?target ;
    	dcterms:isPartOf ?pathway ;
            void:inDataset <http://www.wikipathways.org> .
    ?source a ?source_type ;
    	wp:participants ?s_dir_c_part ;
    	ops:source ?source_source ;
            ops:target ?source_target ;
            void:inDataset <http://www.wikipathways.org> .
    ?target a ?target_type ;
    	wp:participants ?t_dir_c_part ;
    	ops:source ?target_source ;
            ops:target ?target_target ;
    	void:inDataset <http://www.wikipathways.org> .
    ?c_part a ?c_part_type ;
            void:inDataset <http://www.wikipathways.org> .
    ?s_dir_c_part a ?s_dir_c_part_type ;
            void:inDataset <http://www.wikipathways.org> .
    ?t_dir_c_part a ?t_dir_c_part_type ;
            void:inDataset <http://www.wikipathways.org> .
    ?part_source a ?part_source_type ;
            void:inDataset <http://www.wikipathways.org> .
    ?part_target a ?part_target_type ;
            void:inDataset <http://www.wikipathways.org> .
    ?source_source a ?source_source_type ;
            void:inDataset <http://www.wikipathways.org> .
    ?source_target a ?source_target_type ;
            void:inDataset <http://www.wikipathways.org> .
    ?target_source a ?target_source_type ;
            void:inDataset <http://www.wikipathways.org> .
    ?target_target a ?target_target_type ;
            void:inDataset <http://www.wikipathways.org> .
                      
  • Disease API

    An API configuration to return information about diseases

    SPARQL Endpoint
    http://sparql:8890/sparql/
    voiD Datasets
    Vocabularies:
    Variables
    {uri}
    A compound URI. e.g.: http://www.conceptwiki.org/concept/38932552-111f-4a4e-a46a-4ed1d7bdf9d5
    {assoc_type}
    One of the following association type URIs: http://semanticscience.org/resource/SIO_001119 (gene-disease association linked with causal mutation), http://semanticscience.org/resource/SIO_001120 (therapeutic gene-disease association), http://semanticscience.org/resource/SIO_001121 (gene-disease biomarker association), http://semanticscience.org/resource/SIO_001122 (gene-disease association linked with genetic variation), http://semanticscience.org/resource/SIO_001123 (gene-disease association linked with altered gene expression), http://semanticscience.org/resource/SIO_001124 (gene-disease association linked with post-translational modification)
    Item Endpoints (click to expand):
    • Diseases for Target: Count Item Endpoint

      Description:
      The total number of diseases which correspond to the target {uri}.
      URI Template:
      /disease/byTarget/count?uri={uri}
      Example URIs:
      Viewers:
      • diseaseByTargetCountViewer

        Response Template:
        
        ?ops_item ops:diseaseCount ?count .
                          
    • Associations for Target: Count Item Endpoint

      Description:
      Total count of disease-target associations which correspond to a target {uri}.
      URI Template:
      /disease/assoc/byTarget/count?uri={uri}
      Example URIs:
      Viewers:
      • assocByTargetCountViewer

        Response Template:
        
        ?ops_item ops:associationsCount ?count .                  
    • Disease Information Item Endpoint

      Description:
      Information about a single disease.
      URI Template:
      /disease?uri={uri}
      Example URIs:
      Viewers:
      • diseaseInfoViewer

        Response Template:
        
        ?ops_item skos:exactMatch ?umls_disease_uri .
        ?umls_disease_uri foaf:name ?diseaseName ;
        	ops:diseaseClass ?diseaseClass ;
        	rdfs:seeAlso ?mesh_uri ;
        	void:inDataset ?diseaseDataset .
        ?diseaseClass foaf:name ?diseaseClassName ;
        	void:inDataset ?diseaseClassDataset .                  
    List Endpoints (click to expand):
    • Diseases for Target: List List Endpoint

      Example URIs:
      selector filters
      inherited selector filters
      Viewers:
      • diseaseByTargetViewer default viewer

      Default Viewer
      diseaseByTargetViewer
      Response Template:
      
      ?item foaf:name ?diseaseName ;
      	ops:forGene ?dg_gene_uri ;
      	void:inDataset ?diseaseDataset .
      ?dg_gene_uri ops:encodes ?uniprot_target_uri ;
      	void:inDataset ?geneDataset .
      ?uniprot_target_uri skos:exactMatch ?cw_target_uri ;
      	void:inDataset <http://purl.uniprot.org> .
      ?cw_target_uri skos:prefLabel ?cw_prefLabel ;
      	void:inDataset <http://www.conceptwiki.org> .
                        
  • Associations for Target: List List Endpoint

    Example URIs:
    selector filters
    inherited selector filters
    Viewers:
    • assocByTargetViewer default viewer

    Default Viewer
    assocByTargetViewer
    Response Template:
    
    ?item ops:disease ?disease ;
    	ops:gene ?dg_gene_uri ;
    	rdf:type ?type ;
    	dcterms:description ?description ;
    	ops:pmid ?pubmed_id ;
    	ops:primarySource ?primarySource ;
    	void:inDataset ?assocDataset .
    ?type	rdfs:label ?type_label .
    ?disease foaf:name ?diseaseName ;
    	ops:diseaseClass ?diseaseClass ;
    	void:inDataset ?diseaseDataset .
    ?diseaseClass foaf:name ?diseaseClassName ;	
    	void:inDataset ?diseaseClassDataset .
    ?dg_gene_uri ops:encodes ?uniprot_target_uri ;
    	void:inDataset ?geneDataset .
    ?uniprot_target_uri skos:exactMatch ?cw_target_uri ;
    	void:inDataset <http://purl.uniprot.org> .
    ?cw_target_uri skos:prefLabel ?cw_prefLabel ;
    	void:inDataset <http://www.conceptwiki.org> .
                      
  • Disease API

    An API configuration to return information about diseases

    SPARQL Endpoint
    http://sparql:8890/sparql/
    voiD Datasets
    Vocabularies:
    Variables
    {uri}
    A compound URI. e.g.: http://www.conceptwiki.org/concept/38932552-111f-4a4e-a46a-4ed1d7bdf9d5
    Item Endpoints (click to expand):
    List Endpoints (click to expand):

    Disease API

    An API configuration to return information about diseases

    SPARQL Endpoint
    http://sparql:8890/sparql/
    voiD Datasets
    Vocabularies:
    Variables
    {uri}
    A compound URI. e.g.: http://www.conceptwiki.org/concept/38932552-111f-4a4e-a46a-4ed1d7bdf9d5
    Item Endpoints (click to expand):
    List Endpoints (click to expand):

    Tissue API

    An API configuration to return information about tissues

    SPARQL Endpoint
    http://sparql:8890/sparql/
    voiD Datasets
    Vocabularies:
    Variables
    {uri}
    A compound URI. e.g.: http://www.conceptwiki.org/concept/38932552-111f-4a4e-a46a-4ed1d7bdf9d5
    {evidence}
    'gold' or 'silver'
    {quality}
    One of: none, moderate, high, low, medium, negative, positive, strong, weak.
    Item Endpoints (click to expand):
    • [PREVIEW] Tissue Information Item Endpoint

      Description:
      Information about a single tissue.
      URI Template:
      /tissue?uri={uri}
      Example URIs:
      Viewers:
      • tissueInfoViewer

        Response Template:
        
        ?ops_item rdfs:label ?tissue_label ;
        	ops:definition ?tissue_def ;
        	oboowl:hasDbXref ?tissue_xref ;
        	void:inDataset <http://www.nextprot.org/caloha> .
                          
    • [PREVIEW] Tissues for Protein: Count Item Endpoint

      Description:
      The total number of assertions in the LDC that a given protein is expressed in a tissue.
      URI Template:
      /tissue/byProtein/count?uri={uri}
      Example URIs:
      Viewers:
      • tissueCountViewer

        Response Template:
        
        ?ops_item ops:tissueExpressionTotalResults ?count .                  
      • tissueListViewer

        Response Template:
        
        ?item ops-terms:tissue ?tissue ; 
        	ops-terms:protein ?nextprot_target_uri ;
        	obo-rel:has_quality ?quality ;
        	a ?evidence_type ;
        	prv:usedData ?data_used ;
        	wi:evidence ?evidence_qual_uri ;
        	prov:wasDerivedFrom ?derived_from ;
        	prov:wasGeneratedBy ?generated_by ;
        	void:inDataset <http://www.nextprot.org> .
        ?nextprot_target_uri skos:exactMatch ?uniprot_target_uri .
        ?uniprot_target_uri void:inDataset <http://purl.uniprot.org> .
        ?tissue rdfs:label ?tissue_label ;
        	void:inDataset <http://www.nextprot.org/caloha> .
        ?evidence_qual_uri rdfs:label ?evidence_qual_label ;
        	void:inDataset <http://www.nextprot.org> .
                          
    • [PREVIEW] Proteins for Tissue: Count Item Endpoint

      Description:
      The total number of assertions in the LDC that a protein is expressed in a given tissue.
      URI Template:
      /tissue/getProteins/count?uri={uri}
      Example URIs:
      Viewers:
      • tissueCountViewer

        Response Template:
        
        ?ops_item ops:tissueExpressionTotalResults ?count .                  
      • tissueListViewer

        Response Template:
        
        ?item ops-terms:tissue ?tissue ; 
        	ops-terms:protein ?nextprot_target_uri ;
        	obo-rel:has_quality ?quality ;
        	a ?evidence_type ;
        	prv:usedData ?data_used ;
        	wi:evidence ?evidence_qual_uri ;
        	prov:wasDerivedFrom ?derived_from ;
        	prov:wasGeneratedBy ?generated_by ;
        	void:inDataset <http://www.nextprot.org> .
        ?nextprot_target_uri skos:exactMatch ?uniprot_target_uri .
        ?uniprot_target_uri void:inDataset <http://purl.uniprot.org> .
        ?tissue rdfs:label ?tissue_label ;
        	void:inDataset <http://www.nextprot.org/caloha> .
        ?evidence_qual_uri rdfs:label ?evidence_qual_label ;
        	void:inDataset <http://www.nextprot.org> .
                          
    List Endpoints (click to expand):
  • [PREVIEW] Proteins for Tissue: Count List Endpoint

    Example URIs:
    selector filters
    inherited selector filters
    Viewers:
    • tissueCountViewer default viewer

    • tissueListViewer

    Default Viewer
    tissueCountViewer
    Response Template:
    
    ?ops_item ops:tissueExpressionTotalResults ?count .                  
  • Pharmacology Filters API

    An API configuration to return information about normalised Activity types and Units available for filtering.

    SPARQL Endpoint
    http://sparql:8890/sparql/
    voiD Datasets
    Vocabularies:
    Variables
    {activity_unit}
    The unit in which {activity_value} is given. See /pharmacology/filters/units/{activity_type} for allowed valued. For e.g. IC50: /pharmacology/filters/units/IC50
    {activity_type}
    One of the activity types listed at /pharmacology/filters/activities
    {activity_type}
    One of the activity types listed at /pharmacology/filters/activities
    {activity_type}
    One of the activity types listed at /pharmacology/filters/activities
    Item Endpoints (click to expand):
    • Activity Types: Count Item Endpoint

      Description:
      The number of activity types which have been normalised
      URI Template:
      /pharmacology/filters/activities/count
      Example URIs:
      Viewers:
      • pharmacologyFiltersTypesCountViewer

        Response Template:
        
        <http://www.ebi.ac.uk/chembl> ops:activity_type_count ?count                   
    • Activity Units: Count Item Endpoint

      Description:
      A list of activity units which have been normalised
      URI Template:
      /pharmacology/filters/count_units
      Example URIs:
      Viewers:
      • pharmacologyFiltersUnitCountViewer

        Response Template:
        
        <http://www.ebi.ac.uk/chembl> ops:normalised_activity_unit_count ?count .                  
    • Activity Units: Count Item Endpoint

      Description:
      A list of activity units which have been normalised
      URI Template:
      /pharmacology/filters/units/count
      Example URIs:
      Viewers:
      • pharmacologyFiltersUnitCountViewer

        Response Template:
        
        <http://www.ebi.ac.uk/chembl> ops:normalised_activity_unit_count ?count .                  
    • Activity Units for Type Item Endpoint

      Description:
      A list of units that activities of the specified type have been normalised to.
      URI Template:
      /pharmacology/filters/units/{act_name}
      Example URIs:
      Viewers:
      • pharmacologyFiltersUnitViewer

        Response Template:
        
        <http://www.ebi.ac.uk/chembl> ops:normalised_activity_unit ?item .
        ?item rdfs:label ?qudt_label ;
        ops:activity_count ?count .                  
    List Endpoints (click to expand):
    • Activity Types: List List Endpoint

      Example URIs:
      selector filters
      inherited selector filters
      Viewers:
      • pharmacologyFiltersTypesViewer default viewer

      Default Viewer
      pharmacologyFiltersTypesViewer
      Response Template:
      
      <http://www.ebi.ac.uk/chembl> ops:normalised_activity_type ?item .
      ?item rdfs:label ?type_label ;
      ops:activity_count ?count .                  
  • Activity Units: List List Endpoint

    Example URIs:
    selector filters
    inherited selector filters
    Viewers:
    • pharmacologyFiltersUnitViewer default viewer

    Default Viewer
    pharmacologyFiltersUnitViewer
    Response Template:
    
    <http://www.ebi.ac.uk/chembl> ops:normalised_activity_unit ?item .
    ?item rdfs:label ?qudt_label ;
    ops:activity_count ?count .                  
  • Activity Units: List List Endpoint

    Example URIs:
    selector filters
    inherited selector filters
    Viewers:
    • pharmacologyFiltersUnitViewer default viewer

    Default Viewer
    pharmacologyFiltersUnitViewer
    Response Template:
    
    <http://www.ebi.ac.uk/chembl> ops:normalised_activity_unit ?item .
    ?item rdfs:label ?qudt_label ;
    ops:activity_count ?count .                  
  • Concept Class Hierarchies API

    An API configuration to return information about concept class based on hierarchical structures. Currently supported hierarchies are the BioAssay Ontology, the Enzyme Classification, the ChEMBL Target Tree, the ChEBI ontology, the Disease Ontology and the Gene Ontology

    SPARQL Endpoint
    http://sparql:8890/sparql/
    voiD Datasets
    Vocabularies:
    Variables
    {root}
    Restrict results by hierarchy. Currently one of 'bao', 'chembl', 'chebi', 'disease', 'enzyme', 'go'
    {uri}
    A compound URI. e.g.: http://www.conceptwiki.org/concept/38932552-111f-4a4e-a46a-4ed1d7bdf9d5
    Item Endpoints (click to expand):
    • Hierarchies: Root Nodes Item Endpoint

      Description:
      A representation of the root classes in each hierachy. The BioAssay Ontology, the ChEBI Ontology, the Disease Ontology, the Gene Ontology, the Enzyme Classification, and the ChEMBL Target Tree are currently supported.
      URI Template:
      /tree
      Example URIs:
      Viewers:
      • treeRootViewer

        Response Template:
        
        ops:conceptHierarchy dcterms:hasPart ?g_short .
        ?g_short ops:rootNode ?root_node .
        ?root_node skos:prefLabel ?name .
        <http://purl.uniprot.org/enzyme> skos:prefLabel 'Enzyme Classification' .
        <http://www.ebi.ac.uk/chembl/target> skos:prefLabel 'ChEMBL Target Hierarchy' .
        <http://www.ebi.ac.uk/chebi> skos:prefLabel 'ChEBI Ontology' .
        <http://www.geneontology.org> skos:prefLabel 'GeneOntology' .
        <http://www.bioassayontology.org> skos:prefLabel 'BioAssayOntology' .
        <http://purl.obolibrary.org/obo/doid> skos:prefLabel 'Human Disease Ontology' .
                          
    • Hierarchies: Child Nodes Item Endpoint

      Description:
      A representation of all child nodes of the given class in the supportted hierarchies. The BioAssay Ontology, the ChEBI Ontology, the Gene Ontology, the Enzyme Classification, the Human Disease Ontology and the ChEMBL Target Tree are currently supported.
      URI Template:
      /tree/children?uri={uri}
      Example URIs:
      Viewers:
      • treeChildrenViewer

        Response Template:
        
        
        ?ops_item skos:exactMatch ?node_uri .
        ?node_uri ops:childNode ?child_node ;
        	skos:prefLabel ?label ;
        	void:inDataset ?g_short . 
        ?child_node skos:prefLabel ?child_label .
        <http://purl.uniprot.org/enzyme> skos:prefLabel 'Enzyme Classification' .
        <http://www.ebi.ac.uk/chembl/target> skos:prefLabel 'ChEMBL Target Hierarchy' .
        <http://www.ebi.ac.uk/chebi> skos:prefLabel 'ChEBI Ontology' .
        <http://www.geneontology.org> skos:prefLabel 'GeneOntology' .
        <http://www.bioassayontology.org> skos:prefLabel 'BioAssayOntology' .
        <http://purl.obolibrary.org/obo/doid> skos:prefLabel 'Human Disease Ontology' .
                          
    • Hierarchies: Parent Nodes Item Endpoint

      Description:
      A representation of all parent nodes of the given class in the supportted hierarchies. The BioAssay Ontology, ChEBI Ontology, the Gene Ontology, the Enzyme Classification, the ChEMBL Target Tree, and the Human Disease Ontology are currently supported.
      URI Template:
      /tree/parents?uri={uri}
      Example URIs:
      Viewers:
      • treeParentViewer

        Response Template:
        
        
        ?ops_item skos:exactMatch ?node_uri .
        ?node_uri ops:parentNode ?parent_node ;
        	skos:prefLabel ?label ;
        	void:inDataset ?g_short . 
        ?parent_node skos:prefLabel ?parent_label ;
        	skos:prefLabel ?parent_name .
        <http://purl.uniprot.org/enzyme> skos:prefLabel 'Enzyme Classification' .
        <http://www.ebi.ac.uk/chembl/target> skos:prefLabel 'ChEMBL Target Hierarchy' .
        <http://www.ebi.ac.uk/chebi> skos:prefLabel 'ChEBI Ontology' .
        <http://www.geneontology.org> skos:prefLabel 'GeneOntology' .
        <http://www.bioassayontology.org> skos:prefLabel 'BioAssayOntology' .
        <http://purl.obolibrary.org/obo/doid> skos:prefLabel 'Human Disease Ontology' .
                          
    List Endpoints (click to expand):

    Concept Wiki services API

    An API configuration to map free text to a set of concept URLs.

    SPARQL Endpoint
    http://sparql:8890/sparql/
    voiD Datasets
    Vocabularies:
    Variables
    {q}
    Query; required. Mininum length is 3 characters. E.g. water
    {limit}
    Limits the number of results; optional. Minimum value is 1, maximum value is common sense. Default value is 10.
    {branch}
    The search results will be filtered by this source authority; optional. Possible values: 1 = Community, 2 = UMLS, 3 = SwissProt, 4 = ChemSpider, 5 = Computer Inferred, 6 = Pathway Ontology, 7 = WikiPathways
    {uuid}
    UUID of the tag concept; required. Specifies the 'semantic type' required for the search results. E.g. 07a84994-e464-4bbf-812a-a4b96fa3d197 for 'Chemical Viewed Structurally', eda73945-b112-407e-811a-88448966834f for 'Disease or Syndrome', or eeaec894-d856-4106-9fa1-662b1dc6c6f1 for 'Amino Acid, Peptide, or Protein'
    Item Endpoints (click to expand):
    List Endpoints (click to expand):

    Data Sources API

    An API configuration to return information about the loaded data sources

    SPARQL Endpoint
    http://sparql:8890/sparql/
    voiD Datasets
    Vocabularies:
    Variables
    Item Endpoints (click to expand):
    • Data Sources Item Endpoint

      Description:
      (UNDER DEVELOPMENT) Information about currently loaded data sources.
      URI Template:
      /sources
      Example URIs:
      Viewers:
      • dataSourcesViewer

        Response Template:
        
        <http://www.openphacts.org/linked_data_cache> a void:Dataset ;
                                               void:subset ?top_dataset .
        ?top_dataset foaf:isPrimaryTopicOf ?description .
        ?dataset dcterms:title ?title .
        ?dataset dcterms:description ?dctDescription .
        ?dataset dcterms:license ?license .
        ?dataset void:subset ?subset .
        ?dataset prov:wasDerivedFrom ?derivedFrom .
        ?dataset prov:hadPrimarySource ?primarySource .
        ?dataset prov:wasQuotedFrom ?quotedFrom .
        ?dataset prov:wasRevisionOf ?revisionOf .
        ?dataset void:triples ?tripleNo .
        ?dataset void:dataDump ?dataDump .
        ?dataset dcat:landingPage ?landingPage . 
        ?dataset foaf:homepage ?homepage .
        ?dataset a void:Dataset .                   
    List Endpoints (click to expand):

    Patent API

    An API configuration to return information about patents

    SPARQL Endpoint
    http://sparql:8890/sparql/
    voiD Datasets
    Vocabularies:
    Variables
    {uri}
    A compound URI. e.g.: http://www.conceptwiki.org/concept/38932552-111f-4a4e-a46a-4ed1d7bdf9d5
    {score}
    Only return entities mentioned in the patent whose relevance score is equal to this number. An integer between 0 and 3.
    {frequency}
    Only return entites mentioned in the patent with frequency equal to this number. A positive integer.
    {entity_type}
    Only return entities of the specified type (and are mentioned in the patent). One of: 'molecule', 'target', 'disease'.
    {title}
    If set to 'true' the method returns only entities mentioned in the title of the patent.
    {abstract}
    If set to 'true' the method returns only entities mentioned in the abstract of the patent.
    {description}
    If set to 'true' the method returns only entities mentioned in the description section of the patent.
    {claims}
    If set to 'true' the method returns only entities mentioned in the claims section of the patent.
    {image}
    If set to 'true' the method returns only entities in an image in the patent.
    {cwu}
    If set to 'true' the method returns only entities mentioned in a CWU of the patent.
    {entity_type}
    Only return entities of the specified type (and are mentioned in the patent). One of: 'molecule', 'target', 'disease'.
    {title}
    If set to 'true' the method returns only entities mentioned in the title of the patent.
    {abstract}
    If set to 'true' the method returns only entities mentioned in the abstract of the patent.
    {description}
    If set to 'true' the method returns only entities mentioned in the description section of the patent.
    {claims}
    If set to 'true' the method returns only entities mentioned in the claims section of the patent.
    {image}
    If set to 'true' the method returns only entities in an image in the patent.
    {cwu}
    If set to 'true' the method returns only entities mentioned in a CWU of the patent.
    {entity_type}
    Only return entities of the specified type (and are mentioned in the patent). One of: 'molecule', 'target', 'disease'.
    {title}
    If set to 'true' the method returns only entities mentioned in the title of the patent.
    {abstract}
    If set to 'true' the method returns only entities mentioned in the abstract of the patent.
    {description}
    If set to 'true' the method returns only entities mentioned in the description section of the patent.
    {claims}
    If set to 'true' the method returns only entities mentioned in the claims section of the patent.
    {image}
    If set to 'true' the method returns only entities in an image in the patent.
    {cwu}
    If set to 'true' the method returns only entities mentioned in a CWU of the patent.
    {classification}
    Only return patents that have been classified with this classification code. The CPC, IPC and IPCR classification schemes are currently supported.
    {title}
    If set to 'true' the method returns only entities mentioned in the title of the patent.
    {abstract}
    If set to 'true' the method returns only entities mentioned in the abstract of the patent.
    {description}
    If set to 'true' the method returns only entities mentioned in the description section of the patent.
    {claims}
    If set to 'true' the method returns only entities mentioned in the claims section of the patent.
    {image}
    If set to 'true' the method returns only entities in an image in the patent.
    {cwu}
    If set to 'true' the method returns only entities mentioned in a CWU of the patent.
    {classification}
    Only return patents that have been classified with this classification code. The CPC, IPC and IPCR classification schemes are currently supported.
    {title}
    If set to 'true' the method returns only entities mentioned in the title of the patent.
    {abstract}
    If set to 'true' the method returns only entities mentioned in the abstract of the patent.
    {description}
    If set to 'true' the method returns only entities mentioned in the description section of the patent.
    {claims}
    If set to 'true' the method returns only entities mentioned in the claims section of the patent.
    {image}
    If set to 'true' the method returns only entities in an image in the patent.
    {cwu}
    If set to 'true' the method returns only entities mentioned in a CWU of the patent.
    {classification}
    Only return patents that have been classified with this classification code. The CPC, IPC and IPCR classification schemes are currently supported.
    {title}
    If set to 'true' the method returns only entities mentioned in the title of the patent.
    {abstract}
    If set to 'true' the method returns only entities mentioned in the abstract of the patent.
    {description}
    If set to 'true' the method returns only entities mentioned in the description section of the patent.
    {claims}
    If set to 'true' the method returns only entities mentioned in the claims section of the patent.
    {}
    {}
    {classification}
    Only return patents that have been classified with this classification code. The CPC, IPC and IPCR classification schemes are currently supported.
    {title}
    If set to 'true' the method returns only entities mentioned in the title of the patent.
    {abstract}
    If set to 'true' the method returns only entities mentioned in the abstract of the patent.
    {description}
    If set to 'true' the method returns only entities mentioned in the description section of the patent.
    {claims}
    If set to 'true' the method returns only entities mentioned in the claims section of the patent.
    {}
    {}
    {classification}
    Only return patents that have been classified with this classification code. The CPC, IPC and IPCR classification schemes are currently supported.
    {title}
    If set to 'true' the method returns only entities mentioned in the title of the patent.
    {abstract}
    If set to 'true' the method returns only entities mentioned in the abstract of the patent.
    {description}
    If set to 'true' the method returns only entities mentioned in the description section of the patent.
    {claims}
    If set to 'true' the method returns only entities mentioned in the claims section of the patent.
    {}
    {}
    {classification}
    Only return patents that have been classified with this classification code. The CPC, IPC and IPCR classification schemes are currently supported.
    {title}
    If set to 'true' the method returns only entities mentioned in the title of the patent.
    {abstract}
    If set to 'true' the method returns only entities mentioned in the abstract of the patent.
    {description}
    If set to 'true' the method returns only entities mentioned in the description section of the patent.
    {claims}
    If set to 'true' the method returns only entities mentioned in the claims section of the patent.
    {}
    {}
    Item Endpoints (click to expand):
    • Patent Information Item Endpoint

      Description:
      Information about a single patent.
      URI Template:
      /patent?uri={uri}
      Example URIs:
      Viewers:
      • patentViewer

        Response Template:
        
        
        ?patent_uri dct:title ?title ;
        	ops:datePublished ?date ;
        	ops:classification ?class_res ;
        	void:inDataset <http://www.ebi.ac.uk/surechembl> .
        ?class_res ops:classificationCode ?class_code ;
        	ops:classificationSystem ?class_sys ;
        	void:inDataset <http://www.ebi.ac.uk/surechembl> .
        ?patent_uri prov:alternateOf ?related_patent .
                          
    • Patent Information: Get Entities Item Endpoint

      Description:
      Retrieves a list of entities that are mentioned in the user specified patent.
      URI Template:
      /patent/getEntities?uri={uri}
      Example URIs:
      Viewers:
      • patentEntitiesViewer

        Response Template:
        
        
        ?patent_uri dct:title ?title ;
        	ops:datePublished ?date ;
        	void:inDataset <http://www.ebi.ac.uk/surechembl> .
        ?item a ?entity_type ;
        	ops:occursInPatent ?patent_uri ;
        	skos:prefLabel ?entity_name ;
        	ops:smiles ?entity_smiles ;
        	ops:relevanceScore ?rel_score ;
        	ops:frequency ?freq ;
        	ops:occursInPatentTitle ?title_occ;
        	ops:occursInPatentAbstract ?abstract_occ ;
        	ops:occursInPatentDescription ?desc_occ ;
        	ops:occursInPatentClaims ?claims_occ ;
        	ops:occursInPatentImage ?image_occ ;
        	ops:occursInPatentCWU ?cwu_occ ;
        	void:inDataset <http://www.ebi.ac.uk/surechembl> .
        <http://rdf.ebi.ac.uk/terms/surechembl#SCCO_000010> skos:prefLabel 'Molecule' ;
        	void:inDataset <http://www.ebi.ac.uk/surechembl> .
        <http://rdf.ebi.ac.uk/terms/surechembl#SCCO_000035> skos:prefLabel 'Target' ;
                void:inDataset <http://www.ebi.ac.uk/surechembl> .
        <http://rdf.ebi.ac.uk/terms/surechembl#SCCO_000036> skos:prefLabel 'Disease' ;
                void:inDataset <http://www.ebi.ac.uk/surechembl> .
                          
    • Patent Entities: Count Item Endpoint

      Description:
      Returns the number of entities that are mentioned in the user specified patent.
      URI Template:
      /patent/entities/count?uri={uri}
      Example URIs:
      Viewers:
      • patentEntitiesCountViewer

        Response Template:
        
        
        ?patent_uri ops:entityCount ?count ;
        	void:inDataset <http://www.ebi.ac.uk/surechembl> .
                          
    • Patents for Compound: Count Item Endpoint

      Description:
      The total number of patents which mention the Compound specified
      URI Template:
      /patent/byCompound/count?uri={uri}
      Example URIs:
      Viewers:
      • patentByCompoundViewer

        Response Template:
        
        
        ?ops_item ops:patent_count ?count ;
        	void:inDataset <http://www.ebi.ac.uk/surechembl> .
                          
    • Patents for Target: Count Item Endpoint

      Description:
      The total number of patents which mention the Target specified
      URI Template:
      /patent/byTarget/count?uri={uri}
      Example URIs:
      Viewers:
      • patentByTargetViewer

        Response Template:
        
        
        ?ops_item ops:patent_count ?count ;
        	void:inDataset <http://www.ebi.ac.uk/surechembl> .
                          
    • Patents for Disease: Count Item Endpoint

      Description:
      The total number of patents which mention the Disease specified
      URI Template:
      /patent/byDisease/count?uri={uri}
      Example URIs:
      Viewers:
      • patentByDiseaseViewer

        Response Template:
        
        
        ?ops_item ops:patent_count ?count ;
        	void:inDataset <http://www.ebi.ac.uk/surechembl> .
                          
    List Endpoints (click to expand):
    • Patent Entities: List List Endpoint

      Example URIs:
      selector filters
      inherited selector filters
      Viewers:
      • patentEntitiesViewer default viewer

      Default Viewer
      patentEntitiesViewer
      Response Template:
      
      
      ?patent_uri dct:title ?title ;
      	ops:datePublished ?date ;
      	void:inDataset <http://www.ebi.ac.uk/surechembl> .
      ?item a ?entity_type ;
      	ops:occursInPatent ?patent_uri ;
      	skos:prefLabel ?entity_name ;
      	ops:smiles ?entity_smiles ;
      	ops:relevanceScore ?rel_score ;
      	ops:frequency ?freq ;
      	ops:occursInPatentTitle ?title_occ;
      	ops:occursInPatentAbstract ?abstract_occ ;
      	ops:occursInPatentDescription ?desc_occ ;
      	ops:occursInPatentClaims ?claims_occ ;
      	ops:occursInPatentImage ?image_occ ;
      	ops:occursInPatentCWU ?cwu_occ ;
      	void:inDataset <http://www.ebi.ac.uk/surechembl> .
      <http://rdf.ebi.ac.uk/terms/surechembl#SCCO_000010> skos:prefLabel 'Molecule' ;
      	void:inDataset <http://www.ebi.ac.uk/surechembl> .
      <http://rdf.ebi.ac.uk/terms/surechembl#SCCO_000035> skos:prefLabel 'Target' ;
              void:inDataset <http://www.ebi.ac.uk/surechembl> .
      <http://rdf.ebi.ac.uk/terms/surechembl#SCCO_000036> skos:prefLabel 'Disease' ;
              void:inDataset <http://www.ebi.ac.uk/surechembl> .
                        
  • Patents for Compound: List List Endpoint

    Example URIs:
    selector filters
    inherited selector filters
    Viewers:
    • patentByCompoundViewer default viewer

    Default Viewer
    patentByCompoundViewer
    Response Template:
    
    
    ?item dct:title ?title ;
    	ops:datePublished ?date ;
    	ops:mentions ?schembl_compound_uri ;
            ops:relevanceScore ?rel_score ;
            ops:frequency ?freq ;
            ops:occursInPatentTitle ?title_occ;
            ops:occursInPatentAbstract ?abstract_occ ;
            ops:occursInPatentDescription ?desc_occ ;
            ops:occursInPatentClaims ?claims_occ ;
            ops:occursInPatentImage ?image_occ ;
            ops:occursInPatentCWU ?cwu_occ ;
    	void:inDataset <http://www.ebi.ac.uk/surechembl> .
    ?schembl_compound_uri a schembl:SCCO_000035 ;
    	ops:smiles ?compound_smiles ;
    	void:inDataset <http://www.ebi.ac.uk/surechembl> .
    schembl:SCCO_000035 skos:prefLabel 'Compound' ;
            void:inDataset <http://www.ebi.ac.uk/surechembl> .
                      
  • Patents for Target: List List Endpoint

    Example URIs:
    selector filters
    inherited selector filters
    Viewers:
    • patentByTargetViewer default viewer

    Default Viewer
    patentByTargetViewer
    Response Template:
    
    
    ?item dct:title ?title ;
    	ops:datePublished ?date ;
    	ops:mentions ?schembl_target_uri ;
            ops:relevanceScore ?rel_score ;
            ops:frequency ?freq ;
            ops:occursInPatentTitle ?title_occ;
            ops:occursInPatentAbstract ?abstract_occ ;
            ops:occursInPatentDescription ?desc_occ ;
            ops:occursInPatentClaims ?claims_occ ;
            ops:occursInPatentImage ?image_occ ;
            ops:occursInPatentCWU ?cwu_occ ;
    	void:inDataset <http://www.ebi.ac.uk/surechembl> .
    ?schembl_target_uri a schembl:SCCO_000035 ;
    	skos:prefLabel ?target_name ;
    	void:inDataset <http://www.ebi.ac.uk/surechembl> .
    schembl:SCCO_000035 skos:prefLabel 'Target' ;
            void:inDataset <http://www.ebi.ac.uk/surechembl> .
                      
  • Patents for Disease: List List Endpoint

    Example URIs:
    selector filters
    inherited selector filters
    Viewers:
    • patentByDiseaseViewer default viewer

    Default Viewer
    patentByDiseaseViewer
    Response Template:
    
    
    ?item dct:title ?title ;
    	ops:datePublished ?date ;
    	ops:mentions ?schembl_disease_uri ;
            ops:relevanceScore ?rel_score ;
            ops:frequency ?freq ;
            ops:occursInPatentTitle ?title_occ;
            ops:occursInPatentAbstract ?abstract_occ ;
            ops:occursInPatentDescription ?desc_occ ;
            ops:occursInPatentClaims ?claims_occ ;
            ops:occursInPatentImage ?image_occ ;
            ops:occursInPatentCWU ?cwu_occ ;
    	void:inDataset <http://www.ebi.ac.uk/surechembl> .
    ?schembl_disease_uri a schembl:SCCO_000035 ;
    	skos:prefLabel ?disease_name ;
    	void:inDataset <http://www.ebi.ac.uk/surechembl> .
    schembl:SCCO_000035 skos:prefLabel 'Disease' ;
            void:inDataset <http://www.ebi.ac.uk/surechembl> .
                      
  • Assay API

    An API configuration to return information about assays

    SPARQL Endpoint
    http://sparql:8890/sparql/
    voiD Datasets
    Vocabularies:
    Variables
    {uri}
    A compound URI. e.g.: http://www.conceptwiki.org/concept/38932552-111f-4a4e-a46a-4ed1d7bdf9d5
    {organism_uri}
    An identifiers.org taxonomy URI e.g. http://identifiers.org/taxonomy/9606
    {target_conf_score}
    ChEMBL Target confidence score. An integer denoting the confidence of the target assigned. 0: Default value - Target unknown or has yet to be assigned; 1: Target assigned is non-molecular; 2: Target assigned is subcellular fraction; 3: Target assigned is molecular non-protein target; 4: Multiple homologous protein targets may be assigned; 5: Multiple direct protein targets may be assigned; 6: Homologous protein complex subunits assigned; 7: Direct protein complex subunits assigned; 8: Homologous single protein target assigned; 9: Direct single protein target assigned
    {target_rel_type}
    ChEMBL Assay relationship type annotation. A single capital letter as follows. U: Default value - Target has yet to be curated; D: Direct protein target assigned; H: Homologous protein target assigned; M: Molecular target other than protein assigned; N: Non-molecular target assigned; S: Subcellular target assigned
    {dataset}
    The dataset to retrieve Assays from. One of: chembl, opddr, opddr-pubchem
    {dataset}
    The dataset to retrieve Assays from. One of: chembl, opddr, opddr-pubchem
    Item Endpoints (click to expand):
    • Assay Information Item Endpoint

      Description:
      Information about a single assay.
      URI Template:
      /assay?uri={uri}
      Example URIs:
      Viewers:
      • assayViewer

        Response Template:
        
        
        ?chembl_assay_uri dct:description ?assay_description ;
        	ops:assayFormat ?assay_format ;
        	chembl:assayType ?chembl_type ;
                chembl:taxonomy ?organism ;
                chembl:targetConfDesc ?conf_desc ;
                ops:targetConfScore ?conf_score ;
                ops:targetRelType ?rel_type ;
                chembl:targetRelDesc ?rel_desc ;
        	void:inDataset <http://www.ebi.ac.uk/chembl> .
        ?organism rdfs:label ?organism_name;
                void:inDataset <http://www.ebi.ac.uk/chembl> .
        ?oidd_assay_uri a ?bao_type ;
        	skos:exactMatch ?pubchem_assay ;
        	void:inDataset <http://rdf.ncats.nih.gov/opddr> .
        ?pubchem_assay dct:title ?assay_title ;
        	ops:assayStage ?assay_stage ;
        	void:inDataset <http://rdf.ncats.nih.gov/opddr/pubchem> .
        ?assay_format rdfs:label ?assay_format_label ;
        	ops:definition ?assay_format_def ;
        	void:inDataset <http://www.bioassayontology.org> .
        ?bao_type rdfs:label ?bao_label ;
        	ops:definition ?bao_def ;
                void:inDataset <http://www.bioassayontology.org> .
        ?assay_stage rdfs:label ?assay_stage_label ;
        	ops:definition ?assay_stage_def;
                void:inDataset <http://www.bioassayontology.org> .
                          
    • Assay Class Members: Count Item Endpoint

      Description:
      A list of assays classified with the given class in the supported hierarchies. Currently the only supported hierarchy is the BioAssay Ontology.
      URI Template:
      /assay/members/count?uri={uri}
      Example URIs:
      Viewers:
      • assayMemberCountViewer

        Response Template:
        
        
        ?ops_item ops:memberCount ?count .
                          
    List Endpoints (click to expand):
    • Assay Class Members: List List Endpoint

      Example URIs:
      selector filters
      inherited selector filters
      Viewers:
      • assayMemberViewer default viewer

      Default Viewer
      assayMemberViewer
      Response Template:
      
      
      ?item dct:description ?assay_description ;
              ops:assayFormat ?assay_format ;
              chembl:assayType ?chembl_type ;
              chembl:taxonomy ?organism ;
              chembl:targetConfDesc ?conf_desc ;
              ops:targetConfScore ?conf_score ;
              ops:targetRelType ?rel_type ;
              chembl:targetRelDesc ?rel_desc ;
              void:inDataset ?dataset .
      ?organism rdfs:label ?organism_name;
              void:inDataset <http://www.ebi.ac.uk/chembl> .
      ?item a ?bao_type ;
              skos:exactMatch ?pubchem_assay .
      ?pubchem_assay dct:title ?assay_title ;
              ops:assayStage ?assay_stage ;
              void:inDataset <http://rdf.ncats.nih.gov/opddr/pubchem> .
      ?assay_format rdfs:label ?assay_format_label ;
              ops:definition ?assay_format_def ;
              void:inDataset <http://www.bioassayontology.org> .
      ?bao_type rdfs:label ?bao_label ;
              ops:definition ?bao_def ;
              void:inDataset <http://www.bioassayontology.org> .
      ?assay_stage rdfs:label ?assay_stage_label ;
              ops:definition ?assay_stage_def;
              void:inDataset <http://www.bioassayontology.org> .