neXtProt

Usefulness / Support for HTML Data Format

Started at: 2025-01-27 19:26:26 UTC
Finished at: 2025-01-27 19:26:44 UTC

The endpoint supports content negotiation for text/html

Elapsed time12.106 [s]
RequestMethod
POST
URL
https://sparql.nextprot.org/
Headers
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ResponseURL
https://sparql.nextprot.org/
Status
200
Headers
Date: Mon, 27 Jan 2025 19:26:38 GMT
Server: Virtuoso/07.20.3233 (Linux) x86_64-pc-linux-gnu
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{ "head": { "link": [], "vars": ["s"] },
  "results": { "distinct": false, "ordered": true, "bindings": [
    { "s": { "type": "uri", "value": "http://nextprot.org/rdf/entry/NX_Q9UII5" }} ] } }
Elapsed time3.419 [s]
RequestMethod
GET
URL
http://nextprot.org/rdf/entry/NX_Q9UII5
Headers
User-Agent: Umaka-Crawler/1.0.0 by DBCLS (umakadata@dbcls.jp)
Accept: text/html
Body
ResponseURL
https://www.nextprot.org/entry/NX_Q9UII5
Status
200
Headers
Date: Mon, 27 Jan 2025 19:26:41 GMT
Server: Apache
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Content-Type: text/html; charset=UTF-8
Body
<!doctype html>
<html lang="en" ng-app="np" ng-controller="npCtrl as nm" xmlns:flash="">

<head>
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    <meta name="keywords" content="nextprot,UniProt,Human,Proteins,Proteome,Proteomics,protein database,protein knowledgebase,protein resource,human protein,human proteome,cancer variants portal,ion channels variants portal,function,medical,disease,expression,interactions,sequence,isoform,mutation,variant,phenotypes,proteomics,peptide,structure,3D,unicity checker,peptide uniqueness checker,annotation,biocuration,chromosomes,protein validation,protein-coding genes,post-translational modifications,ptm,data integration,systems biology,genetic variations,RDF data model,SPARQL endpoint,api,rest">

    <!--    <meta name="description" content="A knowledge platform on human proteins. It strives to be a comprehensive resource that provides a variety of types of information on human proteins.">-->
    <meta name="description" content="{{nm.description}}">
    <meta name="author" content="CALIPHO Team - SIB - Swiss Institute of Bioinformatics">
    <meta name="fragment" content="!">
    <meta http-equiv="expires" content="0">
    <!-- <link href='/elements/external-elements_1708504911528.html' rel='import' type='text/html'> -->
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    <link rel="icon" href="./img/np-x.png">

    <!--<base href="/protosearch/" />-->
    <base href="/">

    <title ng-bind="nm.title"></title>
    <!--    <title>neXtProt - exploring the universe of human proteins</title>-->

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    <script type="application/ld+json">{
        "@context" : [ "https://schema.org/" ],
        "@type" : "Organization",
        "url" : "https://www.nextprot.org",
        "name": "neXtProt",
        "logo" : "https://www.nextprot.org/img/np2.png",
        "memberof" : {
            "@type" : "NGO",
            "name"  : "SIB Swiss Institute of Bioinformatics",
            "url"   : "https://sib.swiss/"
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            "@graph": [
                {
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                    "@id": "http://identifiers.org/nextprot/",
                    "name": "neXtProt Data Catalog",
                    "description": "neXtProt dataset in different data formats",
                    "url": "https://www.nextprot.org/",
                    "keywords": "nextprot,UniProt,Human,Proteins,Proteome,Proteomics,protein database,protein knowledgebase,protein resource,human protein,human proteome,cancer variants portal,ion channels variants portal,function,medical,disease,expression,interactions,sequence,isoform,mutation,variant,phenotypes,proteomics,peptide,structure,3D,unicity checker,peptide uniqueness checker,annotation,biocuration,chromosomes,protein validation,protein-coding genes,post-translational modifications,ptm,data integration,systems biology,genetic variations,RDF data model,SPARQL endpoint,api,rest",
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                        "name": "SIB Swiss Institute of Bioinformatics",
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                        "logo": "https://www.nextprot.org/img/sib.png"
                    },
                    "citation": {
                        "@type": "ScholarlyArticle",
                        "headline": "The neXtProt knowledgebase in 2020: data, tools and usability improvements.",
                        "author" : [
                            {"@type": "Person", "name": "Zahn-Zabal M"},
                            {"@type": "Person", "name": "Michel PA"},
                            {"@type": "Person", "name": "Gateau A"},
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                            {"@type": "Person", "name": "Schaeffer M"},
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                            {"@type": "Person", "name": "Samarasinghe K"},
                            {"@type": "Person", "name": "Bairoch A"},
                            {"@type": "Person", "name": "Lane L"}
                        ],
                        "isPartOf": [
                            {"@type": "Periodical", "name": "Nucleic acids research"},
                            {"@type": "PublicationVolume", "volumeNumber": "48"},
                            {"@type": "PublicationIssue", "datePublished": "2020", "issueNumber": "D1"}
                        ],
                        "sameAs": [
                            "https://doi.org/10.1093/nar/gkz995",
                            "http://europepmc.org/abstract/MED/31724716",
                            "https://www.ncbi.nlm.nih.gov/pubmed/31724716",
                            "https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5210547"
                        ],
                        "datePublished" : "2020",
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                        "publisher" : {
                            "@type" : "Organization",
                            "name" : "Oxford University Press"
                        }
                    },
                    "dataset": [
                        {
                            "@type": "Dataset",
                            "name": "neXtProt entries",
                            "creator": {
                                "@type": "Organization",
                                "sameAs": "https://www.nextprot.org",
                                "name": "neXtProt"
                            },
                            "description": "The collection of neXtProt entries for human proteins",
                            "url": "https://www.nextprot.org",
                            "keywords": "nextprot,Human,Proteins,Proteome,Proteomics,protein database,protein knowledgebase,protein resource,human protein,human proteome,function,medical,disease,expression,interactions,sequence,isoform,mutation,variant,phenotypes,proteomics,peptide,structure,3D,annotation,biocuration,chromosomes,protein validation,protein-coding genes,post-translational modifications,ptm,data integration,systems biology,genetic variations,UniProt",
                            "distribution": [
                                {"@type": "DataDownload", "contentUrl": "https://download.nextprot.org/pub/current_release/xml/nextprot_all.xml.gz", "fileFormat": "XML", "encodingFormat" : "XML"},
                                {"@type": "DataDownload", "contentUrl": "https://download.nextprot.org/pub/current_release/rdf/schema.ttl.gz" ,"fileFormat": "TTL", "encodingFormat" : "TXT"},
                                {"@type": "DataDownload", "contentUrl": "https://download.nextprot.org/pub/current_release/peff/nextprot_all.peff.gz", "fileFormat": "PEFF", "encodingFormat" : "TXT"},
                                {"@type": "DataDownload", "contentUrl": "https://download.nextprot.org/pub/current_release/md5/nextprot_sequence_md5.txt", "fileFormat": "TXT", "encodingFormat" : "TXT"},
                                {"@type": "DataDownload", "contentUrl": "https://api.nextprot.org/export/entries/all.fasta", "fileFormat": "FASTA", "encodingFormat" : "TXT"}
                            ],
                            "potentialAction": {
                                "@type": "SearchAction",
                                "target": …
[Trailing bodies are truncated]
Elapsed time0.251 [s]
RequestMethod
POST
URL
https://sparql.nextprot.org/
Headers
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Body
query=SELECT+%3Fs+WHERE+%7B+GRAPH+%3Fg+%7B+%3Fs+%3Fp+%3Fo+.+FILTER%28STRSTARTS%28STR%28%3Fs%29%2C+%22http%3A%2F%2Fnextprot.org%2Frdf%23%22%29%29+%7D+%7D+LIMIT+1
ResponseURL
https://sparql.nextprot.org/
Status
200
Headers
Date: Mon, 27 Jan 2025 19:26:42 GMT
Server: Virtuoso/07.20.3233 (Linux) x86_64-pc-linux-gnu
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{ "head": { "link": [], "vars": ["s"] },
  "results": { "distinct": false, "ordered": true, "bindings": [
    { "s": { "type": "uri", "value": "http://nextprot.org/rdf#assignedBy" }} ] } }
Elapsed time2.662 [s]
RequestMethod
GET
URL
http://nextprot.org/rdf
Headers
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Accept: text/html
Body
ResponseURL
https://www.nextprot.org/rdf/
Status
200
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Date: Mon, 27 Jan 2025 19:26:44 GMT
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<!DOCTYPE html>
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<head>
    <title>neXtProt ontology</title>
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    "@id": "http://nextprot.org/rdf",
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    ],
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      {
        "@value": "<p>The neXtProt ontology is used to represent various evidence based statements (multiple annotation types) regarding human proteins</p>"
      }
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</head>
<body>
  <div id="pylode">made by <a href="http://github.com/rdflib/pyLODE">
    <span style="color:#329545;">p</span><span style="color:#f9cb33;">y</span>LODE</a>
    <span style="font-size:smaller;">2.13.2</span>
  </div>
  <h1>neXtProt ontology</h1>
<section id="metadata">
    <h2 style="display:none;">Metadata</h2>
    <dl>
        <dt>URI</dt>
        <dd><code>http://nextprot.org/rdf</code></dd>
        <dt><a class="proplink" href="https://www.dublincore.org/specifications/dublin-core/dcmi-terms/#http://purl.org/dc/terms/creator">Creator</a>(s)</dt>
        <dd>
            
    CALIPHO team
    (<a href="mailto:support@nextprot.org">support@nextprot.org</a>)<br/>
        </dd>
        <dt><a class="proplink" href="https://www.dublincore.org/specifications/dublin-core/dcmi-terms/#http://purl.org/dc/terms/created">Created</a></dt>
        <dd>2015-05-12</dd>
        <dt><a class="proplink" href="https://www.dublincore.org/specifications/dublin-core/dcmi-terms/#http://purl.org/dc/terms/modified">Modified</a></dt>
        <dd>2023-05-31</dd>
        <dt>Version Information</dt>
        <dd>Current release</dd>
        <dt>License</dt>
        <dd><a href="http://creativecommons.org/licenses/by/4.0">http://creativecommons.org/licenses/by/4.0</a></dd>
        <dt>Ontology RDF</dt>
        <dd><a href="schema.ttl">RDF (turtle)</a></dd>
    </dl>
    <h2>Description</h2>
    <div id="description">
        <p>The neXtProt ontology is used to represent various evidence based statements (multiple annotation types) regarding human proteins</p>
    </div>
</section>
<section id="toc">
    <h2>Table of Contents</h2>
    <ol>
        <li><a href="#classes">Classes</a></li>
        <li><a href="#objectproperties">Object Properties</a></li>
        <li><a href="#functionalproperties">Functional Properties</a></li>
        <li><a href="#datatypeproperties">Datatype Properties</a></li>
        <li><a href="#properties">Properties</a></li>
        <li><a href="#namedindividuals">Named Individuals</a></li>
        <li><a href="#namespaces">Namespaces</a></li>
        <li><a href="#legend">Legend</a></li>
    </ol>
</section>
<section id="overview">
 <img src="nx-model-v2.png" style="max-width:100%;height:auto;"/> 
 <div class="figure" style="display:none;"> 
        <div style="width:500px; height:50px; background-color: lightgrey; border:solid 2px grey; padding:10px;margin-bottom:5px; text-align:center;">Pictures say 1,000 words</div>
        <div class="caption"><strong>Figure 1:</strong> Ontology overview</div>
    </div>
</section>
  <section id="classes">
    <h2>Classes <span style="float:right; font-size:smaller;"><a href="">&uparrow;</a></span></h2>
    <ul class="hlist">
      <li><a href="#Absorptionmax">Absorption max</a></li>
      <li><a href="#Absorptionnote">Absorption note</a></li>
      <li><a href="#Activesite">Active site</a></li>
      <li><a href="#Activityregulation">Activity regulation</a></li>
      <li><a href="#Allergen">Allergen</a></li>
      <li><a href="#Allergenname">Allergen name</a></li>
      <li><a href="#Annotation">Annotation</a></li>
      <li><a href="#Antibodymapping">Antibody mapping</a></li>
      <li><a href="#Betastrand">Beta strand</a></li>
      <li><a href="#Bgeedevelopmentalstageterm">Bgee developmental stage term</a></li>
      <li><a href="#Binaryinteraction">Binary interaction</a></li>
      <li><a href="#Bindingsite">Binding site</a></li>
      <li><a href="#Biophysicochemicalproperty">Biophysicochemical property</a></li>
      <li><a href="#CDAntigenname">CD Antigen name</a></li>
      <li><a href="#Calcium-bindingregion">Calcium-binding region</a></li>
      <li><a href="#Catalyticactivity">Catalytic activity</a></li>
      <li><a href="#Caution">Caution</a></li>
      <li><a href="#Cellularcomponent">Cellular component</a></li>
      <li><a href="#Cleavagesite">Cleavage site</a></li>
      <li><a href="#Cleavedregio…
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