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+<h1>Extending OpenTox to Nano Safety with eNanoMapper</h1>
+
+</div>
+</div>
+<div class="presentation">
+<div class="slide" id="slide0">
+<h1 class="title">Extending OpenTox to Nano Safety with eNanoMapper</h1>
+
+<p class="center">Christoph Helma</p>
+<p class="center">in silico toxicology gmbh</p>
+<img alt="logo.png" class="center" src="logo.png" />
+
+</div>
+<div class="slide" id="basic-idea">
+<h1>Basic idea</h1>
+<p>Webservices as building blocks for computational toxicology</p>
+<blockquote>
+<ul class="simple">
+<li>avoid reinventing the wheel</li>
+<li>reuse existing components</li>
+<li>rapid prototyping</li>
+<li>interoperability</li>
+<li>uses semantic web technologies</li>
+</ul>
+</blockquote>
+</div>
+<div class="slide" id="application-programming-interface-api">
+<h1>Application programming interface (API)</h1>
+<dl class="docutils">
+<dt>Request messages:</dt>
+<dd><ul class="first last simple">
+<li>Representational state transfer (<em>REST</em>, based on HTTP messages)</li>
+</ul>
+</dd>
+<dt>Data exchange:</dt>
+<dd><ul class="first last simple">
+<li>Structure: object dependent</li>
+<li>Format: Resource Description Framework (<em>RDF</em>), JavaScript Object Notation (<em>JSON</em>)</li>
+</ul>
+</dd>
+</dl>
+</div>
+<div class="slide" id="opentox">
+<h1>OpenTox</h1>
+<p><em>Focus on predictive toxicology</em></p>
+<p>Main objects: Compound, Feature, Dataset, Algorithm, Model, Validation</p>
+<p>Helper objects: Task, Authentication and Authorisation, Report, Ontology</p>
+<p>Data format: RDF</p>
+<p><a class="reference external" href="http://opentox.org/dev/apis/api-1.2">http://opentox.org/dev/apis/api-1.2</a></p>
+</div>
+<div class="slide" id="toxbank">
+<h1>ToxBank</h1>
+<p><em>Extensions for capturing bioassay data</em></p>
+<p>Main addition: Investigation (description of biological experiments)</p>
+<p>Helper objects: Alert, Data, Index, Organisation, Project, Protocol, Search, Session, Template, User</p>
+<p>Data format: RDF, ISA-Tab</p>
+<p><a class="reference external" href="http://api.toxbank.net">http://api.toxbank.net</a></p>
+</div>
+<div class="slide" id="enanomapper">
+<h1>eNanoMapper</h1>
+<p><em>Extensions for capturing nanomaterial data</em></p>
+<p>Main addition: Substance (characterisation of nanoparticles)</p>
+<p>Helper objects: Bundle, Myaccount, Property, Query, Substanceowner, Pmml, Bibtex</p>
+<p>Data format: JSON</p>
+</div>
+<div class="slide" id="enanomapper-apis">
+<h1>eNanoMapper APIs</h1>
+<p>IDEA: <a class="reference external" href="http://enanomapper.github.io/API">http://enanomapper.github.io/API</a></p>
+<p>NTUA: <a class="reference external" href="http://app.jaqpot.org:8080/jaqpot/swagger">http://app.jaqpot.org:8080/jaqpot/swagger</a></p>
+<p>IST: <a class="reference external" href="https://enm.in-silico.ch/api/dist">https://enm.in-silico.ch/api/dist</a></p>
+</div>
+<div class="slide" id="technical-problems">
+<h1>Technical problems</h1>
+<ul class="simple">
+<li>(De)Serialisation of large datasets/investigations</li>
+<li>Reliability/availability/compatibility of external services</li>
+<li>Local service deployment (e.g. for in house services)</li>
+</ul>
+</div>
+<div class="slide" id="documentation-problems">
+<h1>Documentation problems</h1>
+<ul class="simple">
+<li>Scattered/outdated documentation</li>
+<li>Difficult to maintain for developers (no suitable cross-platform solution for code-based documentation)</li>
+<li>Limitations of documentation platforms (e.g. SWAGGER) to document important details</li>
+</ul>
+</div>
+<div class="slide" id="api-problems">
+<h1>API problems</h1>
+<ul class="simple">
+<li>Lack of orthogonality (large number of partially redundant helper objects)</li>
+<li>Ad hoc extensions of individual developers</li>
+<li>Undocumented/silent API/data format changes</li>
+</ul>
+</div>
+<div class="slide" id="coordination-problems">
+<h1>Coordination problems</h1>
+<ul class="simple">
+<li>Individual API changes may be necessary and justified</li>
+<li>Conflict resolution works one to one, but leaves out other developers (and consistency)</li>
+<li>No common strategy for conflict resolution and API updates</li>
+<li>Very limited developer base for testing and feedback</li>
+</ul>
+</div>
+<div class="slide" id="opentox-toxbank-enanomapper-apis">
+<h1>OpenTox/ToxBank/eNanoMapper APIs</h1>
+<p><a class="reference external" href="http://opentox.org/dev/apis/api-1.2">http://opentox.org/dev/apis/api-1.2</a></p>
+<p><a class="reference external" href="http://api.toxbank.net">http://api.toxbank.net</a></p>
+<p><a class="reference external" href="http://enanomapper.github.io/API">http://enanomapper.github.io/API</a></p>
+<p><a class="reference external" href="http://app.jaqpot.org:8080/jaqpot/swagger">http://app.jaqpot.org:8080/jaqpot/swagger</a></p>
+<p><a class="reference external" href="https://enm.in-silico.ch/api/dist">https://enm.in-silico.ch/api/dist</a></p>
+</div>
+</div>
+</body>
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