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Partager, découvrir et réutiliser les données liées n'a jamais été aussi facile avec une plateforme LinkedWiki.

  1. Jeux de données
  2. Uniprot
  3. Requêtes
  4. Common prefixes with UniProt
Common prefixes

Réutilisez ces données dans votre code

Requête, point d'accès et code permettant de réutiliser les mêmes données
https://sparql.uniprot.org/sparql
PREFIX xsd: <http://www.w3.org/2001/XMLSchema#>
PREFIX vg: <http://biohackathon.org/resource/vg#>
PREFIX up: <http://purl.uniprot.org/core/>
PREFIX uniprotkb: <http://purl.uniprot.org/uniprot/>
PREFIX uberon: <http://purl.obolibrary.org/obo/uo#>
PREFIX taxon: <http://purl.uniprot.org/taxonomy/>
PREFIX sp: <http://spinrdf.org/sp#>
PREFIX SLM: <https://swisslipids.org/rdf/>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX sio: <http://semanticscience.org/resource/>
PREFIX sh: <http://www.w3.org/ns/shacl#>
PREFIX schema: <http://schema.org/>
PREFIX rh: <http://rdf.rhea-db.org/>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX pubmed: <http://rdf.ncbi.nlm.nih.gov/pubmed/>
PREFIX patent: <http://data.epo.org/linked-data/def/patent/>
PREFIX owl: <http://www.w3.org/2002/07/owl#>
PREFIX orthodbGroup: <http://purl.orthodb.org/odbgroup/>
PREFIX orthodb: <http://purl.orthodb.org/>
PREFIX orth: <http://purl.org/net/orth#>
PREFIX np: <http://nextprot.org/rdf#>
PREFIX nextprot: <http://nextprot.org/rdf/entry/>
PREFIX mnx: <https://rdf.metanetx.org/schema/>
PREFIX mnet: <https://rdf.metanetx.org/mnet/>
PREFIX mesh: <http://id.nlm.nih.gov/mesh/>
PREFIX lscr: <http://purl.org/lscr#>
PREFIX keywords: <http://purl.uniprot.org/keywords/>
PREFIX insdc: <http://identifiers.org/insdc/>
PREFIX identifiers: <http://identifiers.org/>
PREFIX glyconnect: <https://purl.org/glyconnect/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX genex: <http://purl.org/genex#>
PREFIX foaf: <http://xmlns.com/foaf/0.1/>
PREFIX faldo: <http://biohackathon.org/resource/faldo#>
PREFIX eunisSpecies: <http://eunis.eea.europa.eu/rdf/species-schema.rdf#>
PREFIX ensembltranscript: <http://rdf.ebi.ac.uk/resource/ensembl.transcript/>
PREFIX ensemblterms: <http://rdf.ebi.ac.uk/terms/ensembl/>
PREFIX ensemblprotein: <http://rdf.ebi.ac.uk/resource/ensembl.protein/>
PREFIX ensemblexon: <http://rdf.ebi.ac.uk/resource/ensembl.exon/>
PREFIX ensembl: <http://rdf.ebi.ac.uk/resource/ensembl/>
PREFIX ec: <http://purl.uniprot.org/enzyme/>
PREFIX dc: <http://purl.org/dc/terms/>
PREFIX cco: <http://rdf.ebi.ac.uk/terms/chembl#>
PREFIX chebihash: <http://purl.obolibrary.org/obo/chebi#>
PREFIX CHEBI: <http://purl.obolibrary.org/obo/CHEBI_>
PREFIX bibo: <http://purl.org/ontology/bibo/>
PREFIX allie: <http://allie.dbcls.jp/>
PREFIX GO: <http://purl.obolibrary.org/obo/GO_>
PREFIX obo: <http://purl.obolibrary.org/obo/>

SELECT *
WHERE
{
	?s ?p ?v .
} 
limit 10
Comment écrire une requête SPARQL ? 
{{#sparql:PREFIX xsd: <http://www.w3.org/2001/XMLSchema#>
PREFIX vg: <http://biohackathon.org/resource/vg#>
PREFIX up: <http://purl.uniprot.org/core/>
PREFIX uniprotkb: <http://purl.uniprot.org/uniprot/>
PREFIX uberon: <http://purl.obolibrary.org/obo/uo#>
PREFIX taxon: <http://purl.uniprot.org/taxonomy/>
PREFIX sp: <http://spinrdf.org/sp#>
PREFIX SLM: <https://swisslipids.org/rdf/>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX sio: <http://semanticscience.org/resource/>
PREFIX sh: <http://www.w3.org/ns/shacl#>
PREFIX schema: <http://schema.org/>
PREFIX rh: <http://rdf.rhea-db.org/>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX pubmed: <http://rdf.ncbi.nlm.nih.gov/pubmed/>
PREFIX patent: <http://data.epo.org/linked-data/def/patent/>
PREFIX owl: <http://www.w3.org/2002/07/owl#>
PREFIX orthodbGroup: <http://purl.orthodb.org/odbgroup/>
PREFIX orthodb: <http://purl.orthodb.org/>
PREFIX orth: <http://purl.org/net/orth#>
PREFIX np: <http://nextprot.org/rdf#>
PREFIX nextprot: <http://nextprot.org/rdf/entry/>
PREFIX mnx: <https://rdf.metanetx.org/schema/>
PREFIX mnet: <https://rdf.metanetx.org/mnet/>
PREFIX mesh: <http://id.nlm.nih.gov/mesh/>
PREFIX lscr: <http://purl.org/lscr#>
PREFIX keywords: <http://purl.uniprot.org/keywords/>
PREFIX insdc: <http://identifiers.org/insdc/>
PREFIX identifiers: <http://identifiers.org/>
PREFIX glyconnect: <https://purl.org/glyconnect/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX genex: <http://purl.org/genex#>
PREFIX foaf: <http://xmlns.com/foaf/0.1/>
PREFIX faldo: <http://biohackathon.org/resource/faldo#>
PREFIX eunisSpecies: <http://eunis.eea.europa.eu/rdf/species-schema.rdf#>
PREFIX ensembltranscript: <http://rdf.ebi.ac.uk/resource/ensembl.transcript/>
PREFIX ensemblterms: <http://rdf.ebi.ac.uk/terms/ensembl/>
PREFIX ensemblprotein: <http://rdf.ebi.ac.uk/resource/ensembl.protein/>
PREFIX ensemblexon: <http://rdf.ebi.ac.uk/resource/ensembl.exon/>
PREFIX ensembl: <http://rdf.ebi.ac.uk/resource/ensembl/>
PREFIX ec: <http://purl.uniprot.org/enzyme/>
PREFIX dc: <http://purl.org/dc/terms/>
PREFIX cco: <http://rdf.ebi.ac.uk/terms/chembl#>
PREFIX chebihash: <http://purl.obolibrary.org/obo/chebi#>
PREFIX CHEBI: <http://purl.obolibrary.org/obo/CHEBI_>
PREFIX bibo: <http://purl.org/ontology/bibo/>
PREFIX allie: <http://allie.dbcls.jp/>
PREFIX GO: <http://purl.obolibrary.org/obo/GO_>
PREFIX obo: <http://purl.obolibrary.org/obo/>

SELECT *
WHERE
{
	?s ?p ?v .
} 
limit 10
| endpoint = https://sparql.uniprot.org/sparql
| chart=bordercloud.visualization.DataTable
| options=
| log=2
}}
Comment installer LinkedWiki dans mon wiki ? Comment insérer ce graphique dans mon wiki ?
Tester ce script dans un nouvel onglet. 
<html>
    <head>
        <script src="https://ajax.googleapis.com/ajax/libs/jquery/3.4.1/jquery.min.js"  async></script>
    </head>
    <body onload="testQuery();">
        <script>
function testQuery(){
    var endpoint = "https://sparql.uniprot.org/sparql";
    var query = `PREFIX xsd: <http://www.w3.org/2001/XMLSchema#>
PREFIX vg: <http://biohackathon.org/resource/vg#>
PREFIX up: <http://purl.uniprot.org/core/>
PREFIX uniprotkb: <http://purl.uniprot.org/uniprot/>
PREFIX uberon: <http://purl.obolibrary.org/obo/uo#>
PREFIX taxon: <http://purl.uniprot.org/taxonomy/>
PREFIX sp: <http://spinrdf.org/sp#>
PREFIX SLM: <https://swisslipids.org/rdf/>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX sio: <http://semanticscience.org/resource/>
PREFIX sh: <http://www.w3.org/ns/shacl#>
PREFIX schema: <http://schema.org/>
PREFIX rh: <http://rdf.rhea-db.org/>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX pubmed: <http://rdf.ncbi.nlm.nih.gov/pubmed/>
PREFIX patent: <http://data.epo.org/linked-data/def/patent/>
PREFIX owl: <http://www.w3.org/2002/07/owl#>
PREFIX orthodbGroup: <http://purl.orthodb.org/odbgroup/>
PREFIX orthodb: <http://purl.orthodb.org/>
PREFIX orth: <http://purl.org/net/orth#>
PREFIX np: <http://nextprot.org/rdf#>
PREFIX nextprot: <http://nextprot.org/rdf/entry/>
PREFIX mnx: <https://rdf.metanetx.org/schema/>
PREFIX mnet: <https://rdf.metanetx.org/mnet/>
PREFIX mesh: <http://id.nlm.nih.gov/mesh/>
PREFIX lscr: <http://purl.org/lscr#>
PREFIX keywords: <http://purl.uniprot.org/keywords/>
PREFIX insdc: <http://identifiers.org/insdc/>
PREFIX identifiers: <http://identifiers.org/>
PREFIX glyconnect: <https://purl.org/glyconnect/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX genex: <http://purl.org/genex#>
PREFIX foaf: <http://xmlns.com/foaf/0.1/>
PREFIX faldo: <http://biohackathon.org/resource/faldo#>
PREFIX eunisSpecies: <http://eunis.eea.europa.eu/rdf/species-schema.rdf#>
PREFIX ensembltranscript: <http://rdf.ebi.ac.uk/resource/ensembl.transcript/>
PREFIX ensemblterms: <http://rdf.ebi.ac.uk/terms/ensembl/>
PREFIX ensemblprotein: <http://rdf.ebi.ac.uk/resource/ensembl.protein/>
PREFIX ensemblexon: <http://rdf.ebi.ac.uk/resource/ensembl.exon/>
PREFIX ensembl: <http://rdf.ebi.ac.uk/resource/ensembl/>
PREFIX ec: <http://purl.uniprot.org/enzyme/>
PREFIX dc: <http://purl.org/dc/terms/>
PREFIX cco: <http://rdf.ebi.ac.uk/terms/chembl#>
PREFIX chebihash: <http://purl.obolibrary.org/obo/chebi#>
PREFIX CHEBI: <http://purl.obolibrary.org/obo/CHEBI_>
PREFIX bibo: <http://purl.org/ontology/bibo/>
PREFIX allie: <http://allie.dbcls.jp/>
PREFIX GO: <http://purl.obolibrary.org/obo/GO_>
PREFIX obo: <http://purl.obolibrary.org/obo/>

SELECT *
WHERE
{
	?s ?p ?v .
} 
limit 10`;

   // $('#bodyContentResearch').append(queryDataset);
    $.ajax({
                url: endpoint,
                dataType: 'json',
                data: {
                    queryLn: 'SPARQL',
                    query: query ,
                    limit: 'none',
                    infer: 'true',
                    Accept: 'application/sparql-results+json'
                },
                success: displayResult,
                error: displayError
        });
}

function displayError(xhr, textStatus, errorThrown) {
    console.log(textStatus);
    console.log(errorThrown);
}

function displayResult(data) {
    $.each(data.results.bindings, function(index, bs) {
        console.log(bs);
        $("body").append(JSON.stringify(bs) + "<hr/>");
    });
}

        </script>
    </body>
</html>
Tester ce script dans un nouvel onglet. 
<html>
    <head>
        <script src="https://ajax.googleapis.com/ajax/libs/jquery/3.4.1/jquery.min.js"  async></script>
    </head>
    <body onload="testQuery();">
        <script>
function testQuery(){
    var url = new URL("https://sparql.uniprot.org/sparql");
    var params = {query:`PREFIX xsd: <http://www.w3.org/2001/XMLSchema#>
PREFIX vg: <http://biohackathon.org/resource/vg#>
PREFIX up: <http://purl.uniprot.org/core/>
PREFIX uniprotkb: <http://purl.uniprot.org/uniprot/>
PREFIX uberon: <http://purl.obolibrary.org/obo/uo#>
PREFIX taxon: <http://purl.uniprot.org/taxonomy/>
PREFIX sp: <http://spinrdf.org/sp#>
PREFIX SLM: <https://swisslipids.org/rdf/>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX sio: <http://semanticscience.org/resource/>
PREFIX sh: <http://www.w3.org/ns/shacl#>
PREFIX schema: <http://schema.org/>
PREFIX rh: <http://rdf.rhea-db.org/>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX pubmed: <http://rdf.ncbi.nlm.nih.gov/pubmed/>
PREFIX patent: <http://data.epo.org/linked-data/def/patent/>
PREFIX owl: <http://www.w3.org/2002/07/owl#>
PREFIX orthodbGroup: <http://purl.orthodb.org/odbgroup/>
PREFIX orthodb: <http://purl.orthodb.org/>
PREFIX orth: <http://purl.org/net/orth#>
PREFIX np: <http://nextprot.org/rdf#>
PREFIX nextprot: <http://nextprot.org/rdf/entry/>
PREFIX mnx: <https://rdf.metanetx.org/schema/>
PREFIX mnet: <https://rdf.metanetx.org/mnet/>
PREFIX mesh: <http://id.nlm.nih.gov/mesh/>
PREFIX lscr: <http://purl.org/lscr#>
PREFIX keywords: <http://purl.uniprot.org/keywords/>
PREFIX insdc: <http://identifiers.org/insdc/>
PREFIX identifiers: <http://identifiers.org/>
PREFIX glyconnect: <https://purl.org/glyconnect/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX genex: <http://purl.org/genex#>
PREFIX foaf: <http://xmlns.com/foaf/0.1/>
PREFIX faldo: <http://biohackathon.org/resource/faldo#>
PREFIX eunisSpecies: <http://eunis.eea.europa.eu/rdf/species-schema.rdf#>
PREFIX ensembltranscript: <http://rdf.ebi.ac.uk/resource/ensembl.transcript/>
PREFIX ensemblterms: <http://rdf.ebi.ac.uk/terms/ensembl/>
PREFIX ensemblprotein: <http://rdf.ebi.ac.uk/resource/ensembl.protein/>
PREFIX ensemblexon: <http://rdf.ebi.ac.uk/resource/ensembl.exon/>
PREFIX ensembl: <http://rdf.ebi.ac.uk/resource/ensembl/>
PREFIX ec: <http://purl.uniprot.org/enzyme/>
PREFIX dc: <http://purl.org/dc/terms/>
PREFIX cco: <http://rdf.ebi.ac.uk/terms/chembl#>
PREFIX chebihash: <http://purl.obolibrary.org/obo/chebi#>
PREFIX CHEBI: <http://purl.obolibrary.org/obo/CHEBI_>
PREFIX bibo: <http://purl.org/ontology/bibo/>
PREFIX allie: <http://allie.dbcls.jp/>
PREFIX GO: <http://purl.obolibrary.org/obo/GO_>
PREFIX obo: <http://purl.obolibrary.org/obo/>

SELECT *
WHERE
{
	?s ?p ?v .
} 
limit 10`};

    url.search = new URLSearchParams(params).toString();

    var myHeaders = new Headers();
    myHeaders.append("Accept", "application/sparql-results+json");

    var requestOptions = {
      method: 'GET',
      headers: myHeaders,
      redirect: 'follow'
    };

    fetch(url, requestOptions)
        .then(response => response.json())
        .then(result => displayResult(result))
        .catch(error => displayError(error));
}

function displayError(error) {
    console.log(error);
}

function displayResult(data) {
    data.results.bindings.forEach(bs => {
            console.log(bs);
            $("body").append(JSON.stringify(bs) + "<hr/>");
    });
}
        </script>
    </body>
</html>
Tester ce script dans un nouvel onglet (attention, plusieurs graphiques nécessitent une clé API).
Comment insérer ce graphique dans ma page HTML ? 
<html>
    <head>
     <link rel="stylesheet" href="https://stackpath.bootstrapcdn.com/bootstrap/4.3.1/css/bootstrap.min.css" integrity="sha384-ggOyR0iXCbMQv3Xipma34MD+dH/1fQ784/j6cY/iJTQUOhcWr7x9JvoRxT2MZw1T" crossorigin="anonymous">

     <link rel="stylesheet" href="https://cdnjs.cloudflare.com/ajax/libs/font-awesome/5.9.0/css/all.min.css">

     <script
            src="https://code.jquery.com/jquery-3.4.1.min.js"
            integrity="sha256-CSXorXvZcTkaix6Yvo6HppcZGetbYMGWSFlBw8HfCJo="
            crossorigin="anonymous"> </script>
     <script src="https://cdnjs.cloudflare.com/ajax/libs/popper.js/1.14.7/umd/popper.min.js" integrity="sha384-UO2eT0CpHqdSJQ6hJty5KVphtPhzWj9WO1clHTMGa3JDZwrnQq4sF86dIHNDz0W1" crossorigin="anonymous"> </script>
     <script src="https://stackpath.bootstrapcdn.com/bootstrap/4.3.1/js/bootstrap.min.js" integrity="sha384-JjSmVgyd0p3pXB1rRibZUAYoIIy6OrQ6VrjIEaFf/nJGzIxFDsf4x0xIM+B07jRM" crossorigin="anonymous"> </script>

     <script type="text/javascript" src="https://bordercloud.github.io/sgvizler2/sgvizler2/sgvizler2.js" defer> </script>
     <script type="text/javascript" src="https://linkedwiki.com/js/initExampleHTML.js"  defer > </script>
    </head>
<body style="margin:0;">
<div id="sgvzl_example_query"
   data-sgvizler-endpoint="https://sparql.uniprot.org/sparql"
   data-sgvizler-query="PREFIX xsd: &lt;http://www.w3.org/2001/XMLSchema#&gt;
PREFIX vg: &lt;http://biohackathon.org/resource/vg#&gt;
PREFIX up: &lt;http://purl.uniprot.org/core/&gt;
PREFIX uniprotkb: &lt;http://purl.uniprot.org/uniprot/&gt;
PREFIX uberon: &lt;http://purl.obolibrary.org/obo/uo#&gt;
PREFIX taxon: &lt;http://purl.uniprot.org/taxonomy/&gt;
PREFIX sp: &lt;http://spinrdf.org/sp#&gt;
PREFIX SLM: &lt;https://swisslipids.org/rdf/&gt;
PREFIX skos: &lt;http://www.w3.org/2004/02/skos/core#&gt;
PREFIX sio: &lt;http://semanticscience.org/resource/&gt;
PREFIX sh: &lt;http://www.w3.org/ns/shacl#&gt;
PREFIX schema: &lt;http://schema.org/&gt;
PREFIX rh: &lt;http://rdf.rhea-db.org/&gt;
PREFIX rdfs: &lt;http://www.w3.org/2000/01/rdf-schema#&gt;
PREFIX rdf: &lt;http://www.w3.org/1999/02/22-rdf-syntax-ns#&gt;
PREFIX pubmed: &lt;http://rdf.ncbi.nlm.nih.gov/pubmed/&gt;
PREFIX patent: &lt;http://data.epo.org/linked-data/def/patent/&gt;
PREFIX owl: &lt;http://www.w3.org/2002/07/owl#&gt;
PREFIX orthodbGroup: &lt;http://purl.orthodb.org/odbgroup/&gt;
PREFIX orthodb: &lt;http://purl.orthodb.org/&gt;
PREFIX orth: &lt;http://purl.org/net/orth#&gt;
PREFIX np: &lt;http://nextprot.org/rdf#&gt;
PREFIX nextprot: &lt;http://nextprot.org/rdf/entry/&gt;
PREFIX mnx: &lt;https://rdf.metanetx.org/schema/&gt;
PREFIX mnet: &lt;https://rdf.metanetx.org/mnet/&gt;
PREFIX mesh: &lt;http://id.nlm.nih.gov/mesh/&gt;
PREFIX lscr: &lt;http://purl.org/lscr#&gt;
PREFIX keywords: &lt;http://purl.uniprot.org/keywords/&gt;
PREFIX insdc: &lt;http://identifiers.org/insdc/&gt;
PREFIX identifiers: &lt;http://identifiers.org/&gt;
PREFIX glyconnect: &lt;https://purl.org/glyconnect/&gt;
PREFIX glycan: &lt;http://purl.jp/bio/12/glyco/glycan#&gt;
PREFIX genex: &lt;http://purl.org/genex#&gt;
PREFIX foaf: &lt;http://xmlns.com/foaf/0.1/&gt;
PREFIX faldo: &lt;http://biohackathon.org/resource/faldo#&gt;
PREFIX eunisSpecies: &lt;http://eunis.eea.europa.eu/rdf/species-schema.rdf#&gt;
PREFIX ensembltranscript: &lt;http://rdf.ebi.ac.uk/resource/ensembl.transcript/&gt;
PREFIX ensemblterms: &lt;http://rdf.ebi.ac.uk/terms/ensembl/&gt;
PREFIX ensemblprotein: &lt;http://rdf.ebi.ac.uk/resource/ensembl.protein/&gt;
PREFIX ensemblexon: &lt;http://rdf.ebi.ac.uk/resource/ensembl.exon/&gt;
PREFIX ensembl: &lt;http://rdf.ebi.ac.uk/resource/ensembl/&gt;
PREFIX ec: &lt;http://purl.uniprot.org/enzyme/&gt;
PREFIX dc: &lt;http://purl.org/dc/terms/&gt;
PREFIX cco: &lt;http://rdf.ebi.ac.uk/terms/chembl#&gt;
PREFIX chebihash: &lt;http://purl.obolibrary.org/obo/chebi#&gt;
PREFIX CHEBI: &lt;http://purl.obolibrary.org/obo/CHEBI_&gt;
PREFIX bibo: &lt;http://purl.org/ontology/bibo/&gt;
PREFIX allie: &lt;http://allie.dbcls.jp/&gt;
PREFIX GO: &lt;http://purl.obolibrary.org/obo/GO_&gt;
PREFIX obo: &lt;http://purl.obolibrary.org/obo/&gt;

SELECT *
WHERE
{
	?s ?p ?v .
} 
limit 10"
    data-sgvizler-chart='bordercloud.visualization.DataTable'
    data-sgvizler-chart-options=''
    data-sgvizler-endpoint_output_format='json'
    data-sgvizler-log='2'
    style='width:100%; height:auto;'
    lang='fr'
   />

<script>
/*$(function() {
   sgvizler2.containerDrawAll({
       // Google Api key
       googleApiKey : "GOOGLE_MAP_API_KEY",
       // OpenStreetMap Access Token
       //  https://www.mapbox.com/api-documentation/#access-tokens
       osmAccessToken : "OSM_MAP_API_KEY"
     });
});*/
</script>

</body>
</html>

from SPARQLWrapper import SPARQLWrapper, JSON

sparql = SPARQLWrapper("https://sparql.uniprot.org/sparql")
sparql.setQuery("""
    PREFIX xsd: <http://www.w3.org/2001/XMLSchema#>
PREFIX vg: <http://biohackathon.org/resource/vg#>
PREFIX up: <http://purl.uniprot.org/core/>
PREFIX uniprotkb: <http://purl.uniprot.org/uniprot/>
PREFIX uberon: <http://purl.obolibrary.org/obo/uo#>
PREFIX taxon: <http://purl.uniprot.org/taxonomy/>
PREFIX sp: <http://spinrdf.org/sp#>
PREFIX SLM: <https://swisslipids.org/rdf/>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX sio: <http://semanticscience.org/resource/>
PREFIX sh: <http://www.w3.org/ns/shacl#>
PREFIX schema: <http://schema.org/>
PREFIX rh: <http://rdf.rhea-db.org/>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX pubmed: <http://rdf.ncbi.nlm.nih.gov/pubmed/>
PREFIX patent: <http://data.epo.org/linked-data/def/patent/>
PREFIX owl: <http://www.w3.org/2002/07/owl#>
PREFIX orthodbGroup: <http://purl.orthodb.org/odbgroup/>
PREFIX orthodb: <http://purl.orthodb.org/>
PREFIX orth: <http://purl.org/net/orth#>
PREFIX np: <http://nextprot.org/rdf#>
PREFIX nextprot: <http://nextprot.org/rdf/entry/>
PREFIX mnx: <https://rdf.metanetx.org/schema/>
PREFIX mnet: <https://rdf.metanetx.org/mnet/>
PREFIX mesh: <http://id.nlm.nih.gov/mesh/>
PREFIX lscr: <http://purl.org/lscr#>
PREFIX keywords: <http://purl.uniprot.org/keywords/>
PREFIX insdc: <http://identifiers.org/insdc/>
PREFIX identifiers: <http://identifiers.org/>
PREFIX glyconnect: <https://purl.org/glyconnect/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX genex: <http://purl.org/genex#>
PREFIX foaf: <http://xmlns.com/foaf/0.1/>
PREFIX faldo: <http://biohackathon.org/resource/faldo#>
PREFIX eunisSpecies: <http://eunis.eea.europa.eu/rdf/species-schema.rdf#>
PREFIX ensembltranscript: <http://rdf.ebi.ac.uk/resource/ensembl.transcript/>
PREFIX ensemblterms: <http://rdf.ebi.ac.uk/terms/ensembl/>
PREFIX ensemblprotein: <http://rdf.ebi.ac.uk/resource/ensembl.protein/>
PREFIX ensemblexon: <http://rdf.ebi.ac.uk/resource/ensembl.exon/>
PREFIX ensembl: <http://rdf.ebi.ac.uk/resource/ensembl/>
PREFIX ec: <http://purl.uniprot.org/enzyme/>
PREFIX dc: <http://purl.org/dc/terms/>
PREFIX cco: <http://rdf.ebi.ac.uk/terms/chembl#>
PREFIX chebihash: <http://purl.obolibrary.org/obo/chebi#>
PREFIX CHEBI: <http://purl.obolibrary.org/obo/CHEBI_>
PREFIX bibo: <http://purl.org/ontology/bibo/>
PREFIX allie: <http://allie.dbcls.jp/>
PREFIX GO: <http://purl.obolibrary.org/obo/GO_>
PREFIX obo: <http://purl.obolibrary.org/obo/>

SELECT *
WHERE
{
	?s ?p ?v .
} 
limit 10""")
sparql.setReturnFormat(JSON)
results = sparql.query().convert()

for result in results["results"]["bindings"]:
    print(result)
    #print(result["label"]["value"])
Howto use SPARQL with Python ? 
library(SPARQL) # SPARQL querying package
library(ggplot2)

# Step 1 - Set up preliminaries and define query
# Define the data.gov endpoint
    endpoint <- "https://sparql.uniprot.org/sparql"
# create query statement
    query <- "PREFIX xsd: <http://www.w3.org/2001/XMLSchema#>
PREFIX vg: <http://biohackathon.org/resource/vg#>
PREFIX up: <http://purl.uniprot.org/core/>
PREFIX uniprotkb: <http://purl.uniprot.org/uniprot/>
PREFIX uberon: <http://purl.obolibrary.org/obo/uo#>
PREFIX taxon: <http://purl.uniprot.org/taxonomy/>
PREFIX sp: <http://spinrdf.org/sp#>
PREFIX SLM: <https://swisslipids.org/rdf/>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX sio: <http://semanticscience.org/resource/>
PREFIX sh: <http://www.w3.org/ns/shacl#>
PREFIX schema: <http://schema.org/>
PREFIX rh: <http://rdf.rhea-db.org/>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX pubmed: <http://rdf.ncbi.nlm.nih.gov/pubmed/>
PREFIX patent: <http://data.epo.org/linked-data/def/patent/>
PREFIX owl: <http://www.w3.org/2002/07/owl#>
PREFIX orthodbGroup: <http://purl.orthodb.org/odbgroup/>
PREFIX orthodb: <http://purl.orthodb.org/>
PREFIX orth: <http://purl.org/net/orth#>
PREFIX np: <http://nextprot.org/rdf#>
PREFIX nextprot: <http://nextprot.org/rdf/entry/>
PREFIX mnx: <https://rdf.metanetx.org/schema/>
PREFIX mnet: <https://rdf.metanetx.org/mnet/>
PREFIX mesh: <http://id.nlm.nih.gov/mesh/>
PREFIX lscr: <http://purl.org/lscr#>
PREFIX keywords: <http://purl.uniprot.org/keywords/>
PREFIX insdc: <http://identifiers.org/insdc/>
PREFIX identifiers: <http://identifiers.org/>
PREFIX glyconnect: <https://purl.org/glyconnect/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX genex: <http://purl.org/genex#>
PREFIX foaf: <http://xmlns.com/foaf/0.1/>
PREFIX faldo: <http://biohackathon.org/resource/faldo#>
PREFIX eunisSpecies: <http://eunis.eea.europa.eu/rdf/species-schema.rdf#>
PREFIX ensembltranscript: <http://rdf.ebi.ac.uk/resource/ensembl.transcript/>
PREFIX ensemblterms: <http://rdf.ebi.ac.uk/terms/ensembl/>
PREFIX ensemblprotein: <http://rdf.ebi.ac.uk/resource/ensembl.protein/>
PREFIX ensemblexon: <http://rdf.ebi.ac.uk/resource/ensembl.exon/>
PREFIX ensembl: <http://rdf.ebi.ac.uk/resource/ensembl/>
PREFIX ec: <http://purl.uniprot.org/enzyme/>
PREFIX dc: <http://purl.org/dc/terms/>
PREFIX cco: <http://rdf.ebi.ac.uk/terms/chembl#>
PREFIX chebihash: <http://purl.obolibrary.org/obo/chebi#>
PREFIX CHEBI: <http://purl.obolibrary.org/obo/CHEBI_>
PREFIX bibo: <http://purl.org/ontology/bibo/>
PREFIX allie: <http://allie.dbcls.jp/>
PREFIX GO: <http://purl.obolibrary.org/obo/GO_>
PREFIX obo: <http://purl.obolibrary.org/obo/>

SELECT *
WHERE
{
	?s ?p ?v .
} 
limit 10"
# Step 2 - Use SPARQL package to submit query and save results to a data frame
qd <- SPARQL(endpoint,query,curl_args=list(useragent=R.version.string))
df <- qd$results
SPARQL with R in less than 5 minutes 
#!/usr/bin/env ruby
#
# Install sparql for Ruby
#   gem update --system
#   gem install sparql
#
require 'sparql/client'

endpoint = "https://sparql.uniprot.org/sparql"
sparql = <<-EOT
PREFIX xsd: <http://www.w3.org/2001/XMLSchema#>
PREFIX vg: <http://biohackathon.org/resource/vg#>
PREFIX up: <http://purl.uniprot.org/core/>
PREFIX uniprotkb: <http://purl.uniprot.org/uniprot/>
PREFIX uberon: <http://purl.obolibrary.org/obo/uo#>
PREFIX taxon: <http://purl.uniprot.org/taxonomy/>
PREFIX sp: <http://spinrdf.org/sp#>
PREFIX SLM: <https://swisslipids.org/rdf/>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX sio: <http://semanticscience.org/resource/>
PREFIX sh: <http://www.w3.org/ns/shacl#>
PREFIX schema: <http://schema.org/>
PREFIX rh: <http://rdf.rhea-db.org/>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX pubmed: <http://rdf.ncbi.nlm.nih.gov/pubmed/>
PREFIX patent: <http://data.epo.org/linked-data/def/patent/>
PREFIX owl: <http://www.w3.org/2002/07/owl#>
PREFIX orthodbGroup: <http://purl.orthodb.org/odbgroup/>
PREFIX orthodb: <http://purl.orthodb.org/>
PREFIX orth: <http://purl.org/net/orth#>
PREFIX np: <http://nextprot.org/rdf#>
PREFIX nextprot: <http://nextprot.org/rdf/entry/>
PREFIX mnx: <https://rdf.metanetx.org/schema/>
PREFIX mnet: <https://rdf.metanetx.org/mnet/>
PREFIX mesh: <http://id.nlm.nih.gov/mesh/>
PREFIX lscr: <http://purl.org/lscr#>
PREFIX keywords: <http://purl.uniprot.org/keywords/>
PREFIX insdc: <http://identifiers.org/insdc/>
PREFIX identifiers: <http://identifiers.org/>
PREFIX glyconnect: <https://purl.org/glyconnect/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX genex: <http://purl.org/genex#>
PREFIX foaf: <http://xmlns.com/foaf/0.1/>
PREFIX faldo: <http://biohackathon.org/resource/faldo#>
PREFIX eunisSpecies: <http://eunis.eea.europa.eu/rdf/species-schema.rdf#>
PREFIX ensembltranscript: <http://rdf.ebi.ac.uk/resource/ensembl.transcript/>
PREFIX ensemblterms: <http://rdf.ebi.ac.uk/terms/ensembl/>
PREFIX ensemblprotein: <http://rdf.ebi.ac.uk/resource/ensembl.protein/>
PREFIX ensemblexon: <http://rdf.ebi.ac.uk/resource/ensembl.exon/>
PREFIX ensembl: <http://rdf.ebi.ac.uk/resource/ensembl/>
PREFIX ec: <http://purl.uniprot.org/enzyme/>
PREFIX dc: <http://purl.org/dc/terms/>
PREFIX cco: <http://rdf.ebi.ac.uk/terms/chembl#>
PREFIX chebihash: <http://purl.obolibrary.org/obo/chebi#>
PREFIX CHEBI: <http://purl.obolibrary.org/obo/CHEBI_>
PREFIX bibo: <http://purl.org/ontology/bibo/>
PREFIX allie: <http://allie.dbcls.jp/>
PREFIX GO: <http://purl.obolibrary.org/obo/GO_>
PREFIX obo: <http://purl.obolibrary.org/obo/>

SELECT *
WHERE
{
	?s ?p ?v .
} 
limit 10
EOT

#For Wikidata, the method get is required
#For other SPARQL endpoints, the method post is prefered
client = SPARQL::Client.new(endpoint, :method => :get)
rows = client.query(sparql)

puts "Number of rows: #{rows.size}"
for row in rows
  for key,val in row do
    # print "#{key.to_s.ljust(10)}: #{val}\t"
    print "#{key}: #{val}\t"
  end
  print "\n"
end
Doc Ruby for SPARQL 1.1 
endpoint = 'https://sparql.uniprot.org/sparql';

query = ['PREFIX xsd: <http://www.w3.org/2001/XMLSchema#> '...
'PREFIX vg: <http://biohackathon.org/resource/vg#> '...
'PREFIX up: <http://purl.uniprot.org/core/> '...
'PREFIX uniprotkb: <http://purl.uniprot.org/uniprot/> '...
'PREFIX uberon: <http://purl.obolibrary.org/obo/uo#> '...
'PREFIX taxon: <http://purl.uniprot.org/taxonomy/> '...
'PREFIX sp: <http://spinrdf.org/sp#> '...
'PREFIX SLM: <https://swisslipids.org/rdf/> '...
'PREFIX skos: <http://www.w3.org/2004/02/skos/core#> '...
'PREFIX sio: <http://semanticscience.org/resource/> '...
'PREFIX sh: <http://www.w3.org/ns/shacl#> '...
'PREFIX schema: <http://schema.org/> '...
'PREFIX rh: <http://rdf.rhea-db.org/> '...
'PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> '...
'PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> '...
'PREFIX pubmed: <http://rdf.ncbi.nlm.nih.gov/pubmed/> '...
'PREFIX patent: <http://data.epo.org/linked-data/def/patent/> '...
'PREFIX owl: <http://www.w3.org/2002/07/owl#> '...
'PREFIX orthodbGroup: <http://purl.orthodb.org/odbgroup/> '...
'PREFIX orthodb: <http://purl.orthodb.org/> '...
'PREFIX orth: <http://purl.org/net/orth#> '...
'PREFIX np: <http://nextprot.org/rdf#> '...
'PREFIX nextprot: <http://nextprot.org/rdf/entry/> '...
'PREFIX mnx: <https://rdf.metanetx.org/schema/> '...
'PREFIX mnet: <https://rdf.metanetx.org/mnet/> '...
'PREFIX mesh: <http://id.nlm.nih.gov/mesh/> '...
'PREFIX lscr: <http://purl.org/lscr#> '...
'PREFIX keywords: <http://purl.uniprot.org/keywords/> '...
'PREFIX insdc: <http://identifiers.org/insdc/> '...
'PREFIX identifiers: <http://identifiers.org/> '...
'PREFIX glyconnect: <https://purl.org/glyconnect/> '...
'PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#> '...
'PREFIX genex: <http://purl.org/genex#> '...
'PREFIX foaf: <http://xmlns.com/foaf/0.1/> '...
'PREFIX faldo: <http://biohackathon.org/resource/faldo#> '...
'PREFIX eunisSpecies: <http://eunis.eea.europa.eu/rdf/species-schema.rdf#> '...
'PREFIX ensembltranscript: <http://rdf.ebi.ac.uk/resource/ensembl.transcript/> '...
'PREFIX ensemblterms: <http://rdf.ebi.ac.uk/terms/ensembl/> '...
'PREFIX ensemblprotein: <http://rdf.ebi.ac.uk/resource/ensembl.protein/> '...
'PREFIX ensemblexon: <http://rdf.ebi.ac.uk/resource/ensembl.exon/> '...
'PREFIX ensembl: <http://rdf.ebi.ac.uk/resource/ensembl/> '...
'PREFIX ec: <http://purl.uniprot.org/enzyme/> '...
'PREFIX dc: <http://purl.org/dc/terms/> '...
'PREFIX cco: <http://rdf.ebi.ac.uk/terms/chembl#> '...
'PREFIX chebihash: <http://purl.obolibrary.org/obo/chebi#> '...
'PREFIX CHEBI: <http://purl.obolibrary.org/obo/CHEBI_> '...
'PREFIX bibo: <http://purl.org/ontology/bibo/> '...
'PREFIX allie: <http://allie.dbcls.jp/> '...
'PREFIX GO: <http://purl.obolibrary.org/obo/GO_> '...
'PREFIX obo: <http://purl.obolibrary.org/obo/> '...
' '...
'SELECT * '...
'WHERE '...
'{ '...
'	?s ?p ?v . '...
'}  '...
'limit 10 '];

url_head = strcat(endpoint,'?query=');
url_query = urlencode(query);
format = 'text/tab-separated-values';
url_tail = strcat('&format=', format);

url = strcat(url_head, url_query, url_tail);

% get the data from the endpoint
query_results = urlread(url);

% write the data to a file so that tdfread can parse it
fid = fopen('query_results.txt','w');
if fid>=0
    fprintf(fid, '%s\n', query_results)
    fclose(fid)
end

% this reads the tsv file into a struct
sparql_data = tdfread('query_results.txt')
Project Github MatlabSPARQL 
<?php
require __DIR__ . '/../vendor/autoload.php';
use BorderCloud\SPARQL\SparqlClient;

$endpoint ="https://sparql.uniprot.org/sparql";
$sp_readonly = new SparqlClient();
$sp_readonly->setEndpointRead($endpoint);
$q = <<<EOD
PREFIX xsd: <http://www.w3.org/2001/XMLSchema#>
PREFIX vg: <http://biohackathon.org/resource/vg#>
PREFIX up: <http://purl.uniprot.org/core/>
PREFIX uniprotkb: <http://purl.uniprot.org/uniprot/>
PREFIX uberon: <http://purl.obolibrary.org/obo/uo#>
PREFIX taxon: <http://purl.uniprot.org/taxonomy/>
PREFIX sp: <http://spinrdf.org/sp#>
PREFIX SLM: <https://swisslipids.org/rdf/>
PREFIX skos: <http://www.w3.org/2004/02/skos/core#>
PREFIX sio: <http://semanticscience.org/resource/>
PREFIX sh: <http://www.w3.org/ns/shacl#>
PREFIX schema: <http://schema.org/>
PREFIX rh: <http://rdf.rhea-db.org/>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX pubmed: <http://rdf.ncbi.nlm.nih.gov/pubmed/>
PREFIX patent: <http://data.epo.org/linked-data/def/patent/>
PREFIX owl: <http://www.w3.org/2002/07/owl#>
PREFIX orthodbGroup: <http://purl.orthodb.org/odbgroup/>
PREFIX orthodb: <http://purl.orthodb.org/>
PREFIX orth: <http://purl.org/net/orth#>
PREFIX np: <http://nextprot.org/rdf#>
PREFIX nextprot: <http://nextprot.org/rdf/entry/>
PREFIX mnx: <https://rdf.metanetx.org/schema/>
PREFIX mnet: <https://rdf.metanetx.org/mnet/>
PREFIX mesh: <http://id.nlm.nih.gov/mesh/>
PREFIX lscr: <http://purl.org/lscr#>
PREFIX keywords: <http://purl.uniprot.org/keywords/>
PREFIX insdc: <http://identifiers.org/insdc/>
PREFIX identifiers: <http://identifiers.org/>
PREFIX glyconnect: <https://purl.org/glyconnect/>
PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#>
PREFIX genex: <http://purl.org/genex#>
PREFIX foaf: <http://xmlns.com/foaf/0.1/>
PREFIX faldo: <http://biohackathon.org/resource/faldo#>
PREFIX eunisSpecies: <http://eunis.eea.europa.eu/rdf/species-schema.rdf#>
PREFIX ensembltranscript: <http://rdf.ebi.ac.uk/resource/ensembl.transcript/>
PREFIX ensemblterms: <http://rdf.ebi.ac.uk/terms/ensembl/>
PREFIX ensemblprotein: <http://rdf.ebi.ac.uk/resource/ensembl.protein/>
PREFIX ensemblexon: <http://rdf.ebi.ac.uk/resource/ensembl.exon/>
PREFIX ensembl: <http://rdf.ebi.ac.uk/resource/ensembl/>
PREFIX ec: <http://purl.uniprot.org/enzyme/>
PREFIX dc: <http://purl.org/dc/terms/>
PREFIX cco: <http://rdf.ebi.ac.uk/terms/chembl#>
PREFIX chebihash: <http://purl.obolibrary.org/obo/chebi#>
PREFIX CHEBI: <http://purl.obolibrary.org/obo/CHEBI_>
PREFIX bibo: <http://purl.org/ontology/bibo/>
PREFIX allie: <http://allie.dbcls.jp/>
PREFIX GO: <http://purl.obolibrary.org/obo/GO_>
PREFIX obo: <http://purl.obolibrary.org/obo/>

SELECT *
WHERE
{
	?s ?p ?v .
} 
limit 10
EOD;
$rows = $sp_readonly->query($q, 'rows');
$err = $sp_readonly->getErrors();
if ($err) {
      print_r($err);
      throw new Exception(print_r($err, true));
}

foreach ($rows["result"]["variables"] as $variable) {
        printf("%-20.20s",$variable);
        echo '|';
 }
 echo "\n";

foreach ($rows["result"]["rows"] as $row) {
        foreach ($rows["result"]["variables"] as $variable) {
            printf("%-20.20s", $row[$variable]);
            echo '|';
        }
        echo "\n";
 }
 ?>
Project Github BorderCloud/SPARQL 
import com.bordercloud.sparql.*;

import java.net.URI;
import java.net.URISyntaxException;
import java.util.HashMap;

public class Main {

    public static void main(String[] args) {
        try {
            URI endpoint = new URI("https://sparql.uniprot.org/sparql");
            String querySelect  = "PREFIX xsd: <http://www.w3.org/2001/XMLSchema#> \n"
                    + "PREFIX vg: <http://biohackathon.org/resource/vg#> \n"
                    + "PREFIX up: <http://purl.uniprot.org/core/> \n"
                    + "PREFIX uniprotkb: <http://purl.uniprot.org/uniprot/> \n"
                    + "PREFIX uberon: <http://purl.obolibrary.org/obo/uo#> \n"
                    + "PREFIX taxon: <http://purl.uniprot.org/taxonomy/> \n"
                    + "PREFIX sp: <http://spinrdf.org/sp#> \n"
                    + "PREFIX SLM: <https://swisslipids.org/rdf/> \n"
                    + "PREFIX skos: <http://www.w3.org/2004/02/skos/core#> \n"
                    + "PREFIX sio: <http://semanticscience.org/resource/> \n"
                    + "PREFIX sh: <http://www.w3.org/ns/shacl#> \n"
                    + "PREFIX schema: <http://schema.org/> \n"
                    + "PREFIX rh: <http://rdf.rhea-db.org/> \n"
                    + "PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> \n"
                    + "PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#> \n"
                    + "PREFIX pubmed: <http://rdf.ncbi.nlm.nih.gov/pubmed/> \n"
                    + "PREFIX patent: <http://data.epo.org/linked-data/def/patent/> \n"
                    + "PREFIX owl: <http://www.w3.org/2002/07/owl#> \n"
                    + "PREFIX orthodbGroup: <http://purl.orthodb.org/odbgroup/> \n"
                    + "PREFIX orthodb: <http://purl.orthodb.org/> \n"
                    + "PREFIX orth: <http://purl.org/net/orth#> \n"
                    + "PREFIX np: <http://nextprot.org/rdf#> \n"
                    + "PREFIX nextprot: <http://nextprot.org/rdf/entry/> \n"
                    + "PREFIX mnx: <https://rdf.metanetx.org/schema/> \n"
                    + "PREFIX mnet: <https://rdf.metanetx.org/mnet/> \n"
                    + "PREFIX mesh: <http://id.nlm.nih.gov/mesh/> \n"
                    + "PREFIX lscr: <http://purl.org/lscr#> \n"
                    + "PREFIX keywords: <http://purl.uniprot.org/keywords/> \n"
                    + "PREFIX insdc: <http://identifiers.org/insdc/> \n"
                    + "PREFIX identifiers: <http://identifiers.org/> \n"
                    + "PREFIX glyconnect: <https://purl.org/glyconnect/> \n"
                    + "PREFIX glycan: <http://purl.jp/bio/12/glyco/glycan#> \n"
                    + "PREFIX genex: <http://purl.org/genex#> \n"
                    + "PREFIX foaf: <http://xmlns.com/foaf/0.1/> \n"
                    + "PREFIX faldo: <http://biohackathon.org/resource/faldo#> \n"
                    + "PREFIX eunisSpecies: <http://eunis.eea.europa.eu/rdf/species-schema.rdf#> \n"
                    + "PREFIX ensembltranscript: <http://rdf.ebi.ac.uk/resource/ensembl.transcript/> \n"
                    + "PREFIX ensemblterms: <http://rdf.ebi.ac.uk/terms/ensembl/> \n"
                    + "PREFIX ensemblprotein: <http://rdf.ebi.ac.uk/resource/ensembl.protein/> \n"
                    + "PREFIX ensemblexon: <http://rdf.ebi.ac.uk/resource/ensembl.exon/> \n"
                    + "PREFIX ensembl: <http://rdf.ebi.ac.uk/resource/ensembl/> \n"
                    + "PREFIX ec: <http://purl.uniprot.org/enzyme/> \n"
                    + "PREFIX dc: <http://purl.org/dc/terms/> \n"
                    + "PREFIX cco: <http://rdf.ebi.ac.uk/terms/chembl#> \n"
                    + "PREFIX chebihash: <http://purl.obolibrary.org/obo/chebi#> \n"
                    + "PREFIX CHEBI: <http://purl.obolibrary.org/obo/CHEBI_> \n"
                    + "PREFIX bibo: <http://purl.org/ontology/bibo/> \n"
                    + "PREFIX allie: <http://allie.dbcls.jp/> \n"
                    + "PREFIX GO: <http://purl.obolibrary.org/obo/GO_> \n"
                    + "PREFIX obo: <http://purl.obolibrary.org/obo/> \n"
                    + " \n"
                    + "SELECT * \n"
                    + "WHERE \n"
                    + "{ \n"
                    + "	?s ?p ?v . \n"
                    + "}  \n"
                    + "limit 10 \n";
            SparqlClient sc = new SparqlClient(false);
            sc.setEndpointRead(endpoint);
            SparqlResult sr = sc.query(querySelect);
            //sc.printLastQueryAndResult();

            printResult(sr.getModel(),30);
        } catch (URISyntaxException | SparqlClientException e) {
            System.out.println(e);
            e.printStackTrace();
        }
    }

    public static void printResult(SparqlResultModel rs , int size) {
        for (String variable : rs.getVariables()) {
            System.out.print(String.format("%-"+size+"."+size+"s", variable ) + " | ");
        }
        System.out.print("\n");
        for (HashMap row : rs.getRows()) {
            for (String variable : rs.getVariables()) {
                System.out.print(String.format("%-"+size+"."+size+"s", row.get(variable)) + " | ");
            }
            System.out.print("\n");
        }
    }
}
For example, with Gradle : 
apply plugin: 'java'
apply plugin: 'application'

// This comes out to package + '.' + mainClassName
mainClassName = 'Main'

group 'org.example'
version '1.0-SNAPSHOT'

repositories {
    mavenCentral()
}
dependencies {
    compile "com.bordercloud:SPARQL-JAVA:[1.0,)"
}
Project Github BorderCloud/SPARQL-JAVA
Other SPARQL client : RDF4J
You can use the SPARQL clients in Java : BorderCloud/SPARQL-JAVA or RDF4J