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Template:Uniprot
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No headers{{note.import( 'UNIPROT:'..args.uniprot) }}
{{ var key = 'FILTER regex(str(?keyword), "key")'; var compProt = 'FILTER (?keyLabel != "Complete proteome")'; var queryReturn=note.query("PREFIX protein: <http://purl.uniprot.org/uniprot/> PREFIX core: <http://purl.uniprot.org/core/> PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> PREFIX skos: <http://www.w3.org/2004/02/skos/core#>PREFIX rdf: <http://www.w3.org/2000/01/rdf-schema#> SELECT DISTINCT ?mnemonic ?recName ?altName ?subAnn ?funcAnn ?geneName ?altGeneName ?ptm ?keyLabel ?goLabel ?goTerm WHERE { { protein:"..args.uniprot.." core:mnemonic ?mnemonic . } UNION { protein:"..args.uniprot.." core:recommendedName ?tempRecName. ?tempRecName core:fullName ?recName. } UNION { protein:"..args.uniprot.." core:alternativeName ?tempAltName. ?tempAltName core:fullName ?altName. } UNION { protein:"..args.uniprot.." core:annotation ?val. ?val a core:Subunit_Annotation. ?val rdfs:comment ?subAnn. } UNION { protein:"..args.uniprot.." core:annotation ?val. ?val a core:Function_Annotation. ?val rdfs:comment ?funcAnn. } UNION { protein:"..args.uniprot.." core:encodedBy ?tempGene. ?tempGene a core:Gene. { ?tempGene skos:prefLabel ?geneName. } UNION { OPTIONAL { ?tempGene skos:altLabel ?altGeneName. } } } UNION { protein:"..args.uniprot.." core:annotation ?val. ?val a core:PTM_Annotation. ?val rdfs:comment ?ptm. } UNION { protein:"..args.uniprot.." core:classifiedWith ?tempKeyword. ?tempKeyword rdf:seeAlso ?goTerm. ?goTerm a core:Concept. ?goTerm rdf:label ?goLabel. } UNION { protein:"..args.uniprot.." core:classifiedWith ?keyword. ?keyword rdf:label ?keyLabel."..key.." "..compProt.."} }") }}
{{var ebiQuery=note.query("PREFIX protein: <http://purl.uniprot.org/uniprot/> PREFIX core: <http://purl.uniprot.org/core/> PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#> PREFIX skos: <http://www.w3.org/2004/02/skos/core#>PREFIX rdf: <http://www.w3.org/2000/01/rdf-schema#> SELECT ?reactions WHERE { protein:"..args.uniprot.." core:interaction ?interactions. ?interactions core:participant ?reactions. } LIMIT 1")}}
if (#list.collect(queryReturn, 'recName') > 0) {
<b> "Recommended Name: " </b>;
foreach(var line in queryReturn){ line['recName'] }
} <br />;
if (#list.collect(queryReturn, 'altName') > 0) {
<b> "Alternate Name(s):" </b>;
<ul style="list-style:none">;
foreach(var line in queryReturn) {
if (line['altName'] && line['altName'] != '') {
<li> line['altName'] </li>;
}
}
</ul>;
}
|
if (#list.collect(queryReturn, 'geneName') > 0) {
<b> "Gene Name: " </b>;
foreach(var line in queryReturn){ line['geneName'] }
} <br />;
if (#list.collect(queryReturn, 'altGeneName') > 0) {
<b> "Synonyms:" </b>;
<ul style="list-style:none">;
foreach(var line in queryReturn) {
if (line['altGeneName'] && line['altGeneName'] != '') {
<li> line['altGeneName'] </li>;
}
}
</ul>;
} |
if (#list.collect(queryReturn, 'keyLabel') > 0){
var keywords = list.reduce(list.collect(queryReturn, 'keyLabel'),"$value .. ', ' .. $item ");
<b>"Keywords: "</b>; string.substr(keywords, 2);
} | |
if (#list.collect(ebiQuery, 'reactions') > 0) {
"Interaction partners, experimental conditions, and related publications can be found ";
foreach(var line in ebiQuery) {
web.link(line['reactions'], "here", "List of interactions provided by IntAct", "_blank");
}
} | |
if (#list.collect(queryReturn, 'goLabel') > 0) {
var goList = [' '];
foreach(var line in queryReturn) {
if (line['goLabel'] && line['goLabel'] != '') {
let goList ..= [ web.link(line['goTerm'], line['goLabel'], line['goLabel'], "_blank") ];
}
}
var goTerms = list.reduce(goList,"$value .. ', ' .. $item ");
<b> CollapseItem{id:"goTerms",effect:"fade"};
"Gene Ontology" </b>;
<p id="goTerms"> web.html(string.substr(goTerms, 4)) </p>;
} | |
var ptmContent = "";
if (#list.collect(queryReturn, 'ptm') > 0) {
let ptmContent = "<ul id='content1'><hr />";
foreach (var line in queryReturn) {
if (line['ptm'] && line['ptm'] != '') {
let ptmContent ..= "<li>"..line['ptm'].."</li>";}
}
let ptmContent ..= "<hr /></ul>";
<b> CollapseItem{id:"content1",effect:"slide"};
"Post-Translational Modifications"</b>;
web.html(ptmContent);
}
| |
var subAnn = "";
if (#list.collect(queryReturn, 'subAnn') > 0) {
let subAnn = "<ul id='content2'><hr />";
foreach (var line in queryReturn) {
if (line['subAnn'] && line['subAnn'] != '') {
let subAnn ..= line['subAnn'];}
}
let subAnn ..= "<hr /></ul>";
<b> CollapseItem{id:"subunitContent",effect:"slide"};
"Subunit Annotations" </b>;
web.html(subAnn);
}
| |
var funcAnn = "";
if (#list.collect(queryReturn, 'funcAnn') > 0) {
let funcAnn = "<ul id='content3'><hr />";
foreach (var line in queryReturn) {
if (line['funcAnn'] && line['funcAnn'] != '') {
let funcAnn ..= line['funcAnn'];}
}
let funcAnn ..= "<hr /></ul>";
<b> CollapseItem{id:"content3",effect:"slide"};
"Functional Annotations" </b>;
web.html(funcAnn);
}
| |
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