{
  "version": "https://jsonfeed.org/version/1.1",
  "title": "chem-bla-ics",
  "description": "Chemblaics (pronounced chem-bla-ics) is the science that uses open science and computers to solve problems in chemistry, biochemistry and related fields.",
  "home_page_url": "https://chem-bla-ics.linkedchemistry.info/",
  "feed_url": "https://chem-bla-ics.linkedchemistry.info/2010/01/28/semantic-web-features-in-bioclipse-22.json",
  "icon": "https://chem-bla-ics.linkedchemistry.info/assets/images/chem-bla-ics_logo.png",
  "language": "en",
  "authors": [
    {
      "name": "Egon Willighagen",
      "url": "https://orcid.org/0000-0001-7542-0286",
      "_orcid": "0000-0001-7542-0286"
    }
  ],
  "items": [

    {
      "id": "https://doi.org/10.59350/6m8qd-xed40",
      "url": "https://chem-bla-ics.linkedchemistry.info/2010/01/28/semantic-web-features-in-bioclipse-22.html",
      "title": "Semantic Web features in Bioclipse 2.2",
      "content_html": "<p><a href=\"http://www.blogger.com/profile/10379047094508592338\">Ola</a> is releasing <a href=\"http://web.archive.org/web/20100111032721/https://bioclipse.net/\">Bioclipse <i class=\"fa-solid fa-box-archive fa-xs\"></i></a>\n<a href=\"http://sourceforge.net/projects/bioclipse/files/bioclipse2/bioclipse2.2.0/\">2.2.0</a>\ntoday, and asked me to show case the semantic web functionality in Bioclipse. I realized that I do not have a nice page showing the semantic web overview. But I did blog a lot about RDF functionality, so here’s a list of pointers:</p>\n\n<ul>\n  <li><a href=\"https://chem-bla-ics.linkedchemistry.info/2009/11/04/bioclipse-manager-for-myexperimentorg.html\">Bioclipse Manager for MyExperiment.org <i class=\"fa-solid fa-recycle fa-xs\"></i></a></li>\n  <li><a href=\"http://chem-bla-ics.blogspot.com/2009/09/bioclipse-rdf-and-defeasible-reasoning.html\">Bioclipse, RDF and defeasible reasoning</a> (see also <a href=\"http://saml.rilspace.com/\">Samuel’s blog</a>)</li>\n  <li><a href=\"https://chem-bla-ics.linkedchemistry.info/2009/08/21/bioclipse-and-sparql-end-points-2.html\">Bioclipse and SPARQL end points #2: MyExperiment <i class=\"fa-solid fa-recycle fa-xs\"></i></a></li>\n  <li><a href=\"https://chem-bla-ics.linkedchemistry.info/2009/08/16/bioclipse-and-sparql-end-points.html\">Bioclipse and SPARQL end points <i class=\"fa-solid fa-recycle fa-xs\"></i></a></li>\n  <li><a href=\"https://chem-bla-ics.linkedchemistry.info/2009/02/22/solubility-data-in-bioclipse-2-handling.html\">Solubility Data in Bioclipse #2: handling RDF <i class=\"fa-solid fa-recycle fa-xs\"></i></a></li>\n  <li><a href=\"https://chem-bla-ics.linkedchemistry.info/2009/02/27/solubility-data-in-bioclipse-3-finding.html\">Solubility Data in Bioclipse #3: Finding ChEBI IDs <i class=\"fa-solid fa-recycle fa-xs\"></i></a></li>\n  <li><a href=\"http://chem-bla-ics.blogspot.com/2009/03/solubility-data-in-bioclipse-4-finding.html\">Solubility Data in Bioclipse #4: Finding ChEBI IDs (Again, but better)</a></li>\n  <li><a href=\"http://chem-bla-ics.blogspot.com/2009/05/me-is-having-bioclipsexmpprdf-fun.html\">/me is having Bioclipse/XMPP/RDF fun</a></li>\n</ul>\n\n<p>Or check this screenshot from <a href=\"http://web.archive.org/web/20130310013833/http://egonw.posterous.com/molecules-in-dbpedia-visualized-with-bioclips\">a Posterous post about a MyExperiment workflow\n<i class=\"fa-solid fa-box-archive fa-xs\"></i></a>:</p>\n\n<p><img src=\"/assets/images/dbPediaMolTable.png\" alt=\"\" /></p>\n\n<p>One thing I have not blogged about yet (I think), is that the Bioclipse RDF manager also understands RDFa now. Well, sort of… it relies on a webservice, but this is what the script looks like:</p>\n\n<div class=\"language-javascript highlighter-rouge\"><div class=\"highlight\"><pre class=\"highlight\"><code><span class=\"nx\">model</span> <span class=\"o\">=</span> <span class=\"nx\">rdf</span><span class=\"p\">.</span><span class=\"nf\">createStore</span><span class=\"p\">()</span>\n<span class=\"nx\">rdf</span><span class=\"p\">.</span><span class=\"nf\">importRDFa</span><span class=\"p\">(</span><span class=\"nx\">model</span><span class=\"p\">,</span> <span class=\"dl\">\"</span><span class=\"s2\">http://egonw.github.com/</span><span class=\"dl\">\"</span><span class=\"p\">)</span>\n<span class=\"nx\">rdf</span><span class=\"p\">.</span><span class=\"nf\">saveRDFN3</span><span class=\"p\">(</span><span class=\"nx\">model</span><span class=\"p\">,</span> <span class=\"dl\">\"</span><span class=\"s2\">/Virtual/egonw.n3</span><span class=\"dl\">\"</span><span class=\"p\">)</span>\n</code></pre></div></div>\n\n<p>With support of SPARQL end points, and reading RDF from web resources directly (RDF/XML, N3, RDFa), Bioclipse is ready for the chemical semantic web.</p>",
      "summary": "Ola is releasing Bioclipse 2.2.0 today, and asked me to show case the semantic web functionality in Bioclipse. I realized that I do not have a nice page showing the semantic web overview. But I did blog a lot about RDF functionality, so here’s a list of pointers:",
      "image": "https://chem-bla-ics.linkedchemistry.info/assets/images/dbPediaMolTable.png",
      "date_published": "2010-01-28T00:00:00+00:00",
      "date_modified": "2026-04-19T00:00:00+00:00",
      "tags": ["java","bioclipse","rdf","sparql","rdfa"],
      
      
      
      
      
      
        "authors": [ { "name": "Egon Willighagen", "url": "https://orcid.org/0000-0001-7542-0286" } ]
      
    }

  ]
}