diff options
Diffstat (limited to 'presentation/enm-workshop.html')
| -rw-r--r-- | presentation/enm-workshop.html | 445 |
1 files changed, 0 insertions, 445 deletions
diff --git a/presentation/enm-workshop.html b/presentation/enm-workshop.html deleted file mode 100644 index f0c6781..0000000 --- a/presentation/enm-workshop.html +++ /dev/null @@ -1,445 +0,0 @@ -<?xml version="1.0" encoding="utf-8" ?> -<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd"> -<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en"> -<head> -<meta http-equiv="Content-Type" content="text/html; charset=utf-8" /> -<meta name="generator" content="Docutils 0.12: http://docutils.sourceforge.net/" /> -<meta name="version" content="S5 1.1" /> -<title>Read across toxicity predictions with nano-lazar</title> -<style type="text/css"> - -/* -:Author: David Goodger (goodger@python.org) -:Id: $Id: html4css1.css 7614 2013-02-21 15:55:51Z milde $ -:Copyright: This stylesheet has been placed in the public domain. - -Default cascading style sheet for the HTML output of Docutils. - -See http://docutils.sf.net/docs/howto/html-stylesheets.html for how to -customize this style sheet. -*/ - -/* used to remove borders from tables and images */ -.borderless, table.borderless td, table.borderless th { - border: 0 } - -table.borderless td, table.borderless th { - /* Override padding for "table.docutils td" with "! important". - The right padding separates the table cells. */ - padding: 0 0.5em 0 0 ! important } - -.first { - /* Override more specific margin styles with "! important". */ - margin-top: 0 ! important } - -.last, .with-subtitle { - margin-bottom: 0 ! important } - -.hidden { - display: none } - -a.toc-backref { - text-decoration: none ; - color: black } - -blockquote.epigraph { - margin: 2em 5em ; } - -dl.docutils dd { - margin-bottom: 0.5em } - -object[type="image/svg+xml"], object[type="application/x-shockwave-flash"] { - overflow: hidden; -} - -/* Uncomment (and remove this text!) to get bold-faced definition list terms -dl.docutils dt { - font-weight: bold } -*/ - -div.abstract { - margin: 2em 5em } - -div.abstract p.topic-title { - font-weight: bold ; - text-align: center } - -div.admonition, div.attention, div.caution, div.danger, div.error, -div.hint, div.important, div.note, div.tip, div.warning { - margin: 2em ; - border: medium outset ; - padding: 1em } - -div.admonition p.admonition-title, div.hint p.admonition-title, -div.important p.admonition-title, div.note p.admonition-title, -div.tip p.admonition-title { - font-weight: bold ; - font-family: sans-serif } - -div.attention p.admonition-title, div.caution p.admonition-title, -div.danger p.admonition-title, div.error p.admonition-title, -div.warning p.admonition-title, .code .error { - color: red ; - font-weight: bold ; - font-family: sans-serif } - -/* Uncomment (and remove this text!) to get reduced vertical space in - compound paragraphs. -div.compound .compound-first, div.compound .compound-middle { - margin-bottom: 0.5em } - -div.compound .compound-last, div.compound .compound-middle { - margin-top: 0.5em } -*/ - -div.dedication { - margin: 2em 5em ; - text-align: center ; - font-style: italic } - -div.dedication p.topic-title { - font-weight: bold ; - font-style: normal } - -div.figure { - margin-left: 2em ; - margin-right: 2em } - -div.footer, div.header { - clear: both; - font-size: smaller } - -div.line-block { - display: block ; - margin-top: 1em ; - margin-bottom: 1em } - -div.line-block div.line-block { - margin-top: 0 ; - margin-bottom: 0 ; - margin-left: 1.5em } - -div.sidebar { - margin: 0 0 0.5em 1em ; - border: medium outset ; - padding: 1em ; - background-color: #ffffee ; - width: 40% ; - float: right ; - clear: right } - -div.sidebar p.rubric { - font-family: sans-serif ; - font-size: medium } - -div.system-messages { - margin: 5em } - -div.system-messages h1 { - color: red } - -div.system-message { - border: medium outset ; - padding: 1em } - -div.system-message p.system-message-title { - color: red ; - font-weight: bold } - -div.topic { - margin: 2em } - -h1.section-subtitle, h2.section-subtitle, h3.section-subtitle, -h4.section-subtitle, h5.section-subtitle, h6.section-subtitle { - margin-top: 0.4em } - -h1.title { - text-align: center } - -h2.subtitle { - text-align: center } - -hr.docutils { - width: 75% } - -img.align-left, .figure.align-left, object.align-left { - clear: left ; - float: left ; - margin-right: 1em } - -img.align-right, .figure.align-right, object.align-right { - clear: right ; - float: right ; - margin-left: 1em } - -img.align-center, .figure.align-center, object.align-center { - display: block; - margin-left: auto; - margin-right: auto; -} - -.align-left { - text-align: left } - -.align-center { - clear: both ; - text-align: center } - -.align-right { - text-align: right } - -/* reset inner alignment in figures */ -div.align-right { - text-align: inherit } - -/* div.align-center * { */ -/* text-align: left } */ - -ol.simple, ul.simple { - margin-bottom: 1em } - -ol.arabic { - list-style: decimal } - -ol.loweralpha { - list-style: lower-alpha } - -ol.upperalpha { - list-style: upper-alpha } - -ol.lowerroman { - list-style: lower-roman } - -ol.upperroman { - list-style: upper-roman } - -p.attribution { - text-align: right ; - margin-left: 50% } - -p.caption { - font-style: italic } - -p.credits { - font-style: italic ; - font-size: smaller } - -p.label { - white-space: nowrap } - -p.rubric { - font-weight: bold ; - font-size: larger ; - color: maroon ; - text-align: center } - -p.sidebar-title { - font-family: sans-serif ; - font-weight: bold ; - font-size: larger } - -p.sidebar-subtitle { - font-family: sans-serif ; - font-weight: bold } - -p.topic-title { - font-weight: bold } - -pre.address { - margin-bottom: 0 ; - margin-top: 0 ; - font: inherit } - -pre.literal-block, pre.doctest-block, pre.math, pre.code { - margin-left: 2em ; - margin-right: 2em } - -pre.code .ln { color: grey; } /* line numbers */ -pre.code, code { background-color: #eeeeee } -pre.code .comment, code .comment { color: #5C6576 } -pre.code .keyword, code .keyword { color: #3B0D06; font-weight: bold } -pre.code .literal.string, code .literal.string { color: #0C5404 } -pre.code .name.builtin, code .name.builtin { color: #352B84 } -pre.code .deleted, code .deleted { background-color: #DEB0A1} -pre.code .inserted, code .inserted { background-color: #A3D289} - -span.classifier { - font-family: sans-serif ; - font-style: oblique } - -span.classifier-delimiter { - font-family: sans-serif ; - font-weight: bold } - -span.interpreted { - font-family: sans-serif } - -span.option { - white-space: nowrap } - -span.pre { - white-space: pre } - -span.problematic { - color: red } - -span.section-subtitle { - /* font-size relative to parent (h1..h6 element) */ - font-size: 80% } - -table.citation { - border-left: solid 1px gray; - margin-left: 1px } - -table.docinfo { - margin: 2em 4em } - -table.docutils { - margin-top: 0.5em ; - margin-bottom: 0.5em } - -table.footnote { - border-left: solid 1px black; - margin-left: 1px } - -table.docutils td, table.docutils th, -table.docinfo td, table.docinfo th { - padding-left: 0.5em ; - padding-right: 0.5em ; - vertical-align: top } - -table.docutils th.field-name, table.docinfo th.docinfo-name { - font-weight: bold ; - text-align: left ; - white-space: nowrap ; - padding-left: 0 } - -/* "booktabs" style (no vertical lines) */ -table.docutils.booktabs { - border: 0px; - border-top: 2px solid; - border-bottom: 2px solid; - border-collapse: collapse; -} -table.docutils.booktabs * { - border: 0px; -} -table.docutils.booktabs th { - border-bottom: thin solid; - text-align: left; -} - -h1 tt.docutils, h2 tt.docutils, h3 tt.docutils, -h4 tt.docutils, h5 tt.docutils, h6 tt.docutils { - font-size: 100% } - -ul.auto-toc { - list-style-type: none } - -</style> -<!-- configuration parameters --> -<meta name="defaultView" content="slideshow" /> -<meta name="controlVis" content="hidden" /> -<!-- style sheet links --> -<script src="ui/small-white/slides.js" type="text/javascript"></script> -<link rel="stylesheet" href="ui/small-white/slides.css" - type="text/css" media="projection" id="slideProj" /> -<link rel="stylesheet" href="ui/small-white/outline.css" - type="text/css" media="screen" id="outlineStyle" /> -<link rel="stylesheet" href="ui/small-white/print.css" - type="text/css" media="print" id="slidePrint" /> -<link rel="stylesheet" href="ui/small-white/opera.css" - type="text/css" media="projection" id="operaFix" /> - -<style type="text/css"> -#currentSlide {display: none;} -</style> -</head> -<body> -<div class="layout"> -<div id="controls"></div> -<div id="currentSlide"></div> -<div id="header"> - -</div> -<div id="footer"> -<h1>Read across toxicity predictions with nano-lazar</h1> - -</div> -</div> -<div class="presentation"> -<div class="slide" id="slide0"> -<h1 class="title">Read across toxicity predictions with nano-lazar</h1> - -<p class="center">Christoph Helma</p> -<p class="center">in silico toxicology gmbh</p> -<img alt="http://www.enanomapper.net/sites/all/themes/theme807/logo.png" class="center align-center" src="http://www.enanomapper.net/sites/all/themes/theme807/logo.png" /> - -</div> -<div class="slide" id="requirements"> -<h1>Requirements</h1> -<ul class="simple"> -<li>Nanoparticle characterisation</li> -<li>Toxicity measurements</li> -</ul> -</div> -<div class="slide" id="enanomapper-data-import"> -<h1>eNanoMapper data import</h1> -<ul class="incremental simple"> -<li>Nanoparticles imported: 464</li> -<li>Nanoparticles with particle characterisation: 394</li> -<li>Nanoparticles with toxicity data: 167</li> -<li>Nanoparticles with toxicity data and particle characterisation: 160</li> -</ul> -</div> -<div class="slide" id="enanomapper-toxicity-endpoints"> -<h1>eNanoMapper toxicity endpoints</h1> -<ul class="incremental simple"> -<li>Toxicity endpoints: 41</li> -<li>Toxicity endpoints with more than one measurement value: 22</li> -<li>Toxicity endpoints with more than 10 measurements: 2</li> -</ul> -</div> -<div class="slide" id="selected-data"> -<h1>Selected data</h1> -<p>Protein corona dataset Au particles (106 particles) -Toxicity endpoint:</p> -</div> -<div class="slide" id="read-across-procedure"> -<h1>Read across procedure</h1> -<ul class="incremental simple"> -<li>Identify relevant fragments (significant correlation with toxicity) -TODO list of fragments, number</li> -<li>Calculate similarities (weighted cosine similarity, correlation coefficients = weights)</li> -<li>Identify neighbors (particles with more than 0.95 similarity)</li> -<li>Calculate prediction (weighted average from neighbors, similarities = weights)</li> -</ul> -</div> -<div class="slide" id="future-development"> -<h1>Future development</h1> -<ul class="simple"> -<li>Validation of predictions</li> -<li>Applicability domain/reliability of predictions</li> -<li>Accuracy improvements: -- additional data -- feature selection -- similarity calculation -- predictions (local regression models)</li> -<li>Usability improvements: -- additional data (extension of applicability domain, additional endpoints and chemistries) -- inclusion of ontologies -- descriptor calculation directly from core and coating chemistries</li> -</ul> -</div> -<div class="slide" id="webinterface"> -<h1>Webinterface</h1> -<p><a class="reference external" href="https://nano-lazar.in-silico.ch/predict">https://nano-lazar.in-silico.ch/predict</a></p> -<p>Your recommendations?</p> -</div> -<div class="slide" id="source-code"> -<h1>Source code</h1> -<p><a class="reference external" href="https://github.com/opentox/nano-lazar">https://github.com/opentox/nano-lazar</a></p> -</div> -</div> -</body> -</html> |