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304 lines
9.0 KiB
304 lines
9.0 KiB
<html xmlns="http://www.w3.org/1999/xhtml">
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<head>
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<meta name="generator"
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content="HTML Tidy for Mac OS X (vers 1st September 2004), see www.w3.org" />
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<meta http-equiv="Content-Type"
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content="text/html; charset=us-ascii" />
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<title>Semantic Web Advanced Development for Europe
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(SWAD-Europe)</title>
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<link href="http://www.w3.org/2001/sw/Europe/style/swad-europe-showcase.css"
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rel="stylesheet" type="text/css" />
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<style type="text/css">/*
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<![CDATA[*/
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body {
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font-family: verdana, helvetica, arial, sans-serif;
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}
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#leftcontent {
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position: absolute;
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left:10px;
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top:20px;
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width:200px;
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background:#fff;
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margin-right:15px;
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padding-bottom:20px;
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}
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#rightcontent {
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position: absolute;
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left:250px;
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top:20px;
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background:#fff;
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padding-right: 50px;
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}
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#mainMenu {
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background-color: #EEE;
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border: 1px solid #CCC;
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color: #000;
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width: 203px;
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}
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#menuList {
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margin: 0px;
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padding: 10px 0px 10px 15px;
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}
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li.menubar {
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background: url(http://www.w3.org/2001/sw/Europe/showcase/square.gif) no-repeat 0em 0.3em;
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line-height: 1.5em;
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list-style: none outside;
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font-size: 12px;
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}
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li.nonexpandingmenubar {
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font-size: 12px;
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line-height: 1.5em;
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list-style: none outside;
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padding-left: 20px;
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}
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.menu {
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margin-left: 15px;
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padding: 0px;
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}
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.menu li {
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background: url(http://www.w3.org/2001/sw/Europe/showcase/square.gif) no-repeat 0em 0.3em;
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list-style: none outside;
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}
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a.actuator {
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background-color: transparent;
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color: #000;
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padding-left: 20px;
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text-decoration: none;
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font-weight: bold;
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}
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.menu li a {
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background-color: transparent;
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color: #000;
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font-size: 12px;
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padding-left: 15px;
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}
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span.key {
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text-decoration: underline;
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}
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/*]]>
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*/</style>
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</head>
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<body>
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<div id="leftcontent" valign="top">
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<div align="center" valign="top">
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<a href="http://www.w3.org/2001/sw/Europe">
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<img alt="SWAD-Europe"
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src="http://www.w3.org/2001/sw/Europe/images/swade100.gif"
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height="75" border="0" /></a>
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<a href="http://www.cordis.lu/ist/">
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<img src="http://www.w3.org/2001/sw/Europe/images/istlogo-thumb.gif"
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alt="EU IST logo" height="75" border="0" /></a>
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</div>
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<div id="mainMenu">
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<ul id="menuList">
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<li class="nonexpandingmenubar">
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<a href="http://www.w3.org/2001/sw/Europe/" id="introMenu"
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name="introMenu">Introduction</a>
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</li>
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<li class="menubar">
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<a id="demosMenuActuator" class="actuator" accesskey="d"
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name="demosMenuActuator">Demonstrators</a>
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<ul id="demosMenu" class="menu">
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/showcase/sem-blog.html">
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Semantic Blogging</a>
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</li>
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/showcase/sem-portal.html">
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Semantic Portals</a>
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</li>
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/showcase/sem-thes.html">
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Thesaurus Browser</a>
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</li>
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/showcase/sem-large.html">
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Scale Demonstrator</a>
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</li>
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</ul>
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</li>
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<li class="menubar">
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<a id="themesMenuActuator" class="actuator" accesskey="t"
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name="themesMenuActuator">Themes</a>
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<ul id="themesMenu" class="menu">
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/showcase/gs.html">Getting
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Started</a>
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</li>
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/reports/tools/">Tools</a>
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</li>
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/showcase/digital-libraries.html">
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Digital Libraries</a>
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</li>
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/showcase/business-integration.html">
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Business Integration</a>
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</li>
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/showcase/images.html">
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Image Description</a>
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</li>
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/reports/community/">
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Community Building</a>
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</li>
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/showcase/history.html">
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Project History</a>
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</li>
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/showcase/future.html">
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Future Directions</a>
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</li>
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</ul>
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</li>
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<li class="menubar">
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<a id="guideMenuActuator" class="actuator" accesskey="g"
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name="guideMenuActuator">Guidelines</a>
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<ul id="guideMenu" class="menu">
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<!--<li><a href="blank.html">Aerospace</a> stilo*</li>-->
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/showcase/lifesci.html">
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Life Science</a>
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</li>
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/showcase/guide-for-librarian.html">
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Librarian</a>
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</li>
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/showcase/coder.html">
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Coder</a>
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</li>
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/showcase/business-guidelines.html">
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Business Integration</a>
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</li>
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/showcase/heritage.html">
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Heritage</a>
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</li>
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</ul>
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</li>
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<li class="menubar">
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<a id="resourcesMenuActuator" class="actuator" accesskey="r"
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name="resourcesMenuActuator">Resources</a>
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<ul id="resourcesMenu" class="menu">
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/reports/intro.html">
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Reports</a>
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</li>
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<li>
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<a href="http://www.w3.org/2001/sw/Europe/showcase/presentations.html">
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Presentations</a>
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</li>
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</ul>
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</li>
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<li class="nonexpandingmenubar">
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<a href="http://www.w3.org/2001/sw/Europe/showcase/contact.html"
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id="contactMenu" name="contactMenu">Contact</a>
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</li>
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</ul>
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</div>
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</div>
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<!-- content goes here -->
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<div id="rightcontent">
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<h1 class="title">Guidelines - Life Science</h1>
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<h2>Guidelines</h2>
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<p>SWAD-Europe guidelines provide pointers into the parts of the
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SWAD-Europe project that we feel are particularly relevant to the
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concerns of particular industry segments or application area. They
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are not intended to be definitive guides to the wider semantic web
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resources relevant to the area.</p>
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<h2>Semantic Web and life science</h2>
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<p>Life science is a very information rich set of activities which
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mesh well with the semantic web capabilities.</p>
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<p>Firstly, there has been huge effort within life science in
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general, and healthcare and drug discovery in particular, to codify
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vocabularies, thesauri and ontologies to facilitate information
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sharing. Well known examples of these include the <a href=
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"http://www.geneontology.org/">Gene Ontology</a>, the <a href=
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"http://www.biopax.org/">BioPax</a> molecular pathway ontology, the
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<a href="http://ncicb.nci.nih.gov/core/EVS">NCI Cancer Ontology</a>
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and the National Library of Medicine <a href=
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"http://www.nlm.nih.gov/research/umls/">UMLS</a> metathesaurus (and
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associated projects <a href="http://skr.nlm.nih.gov/">SKR</a>). The
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semantic web standards for encoding ontologies are very relevant
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here and several of these example ontologies are already available
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in OWL format.</p>
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<p>Secondly, there is huge diversity of information involved in
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areas such as drug discovery - genomics, proteomics, protein
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structure, molecular pathways, assay results, toxicology, clinical
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trial results, peer publications, moderated discussion forums etc.
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What's more many of the information sources are often public or
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cross organizational leading to a requirement for information
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integration and exchange based on open standards. Several
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activities are already underway to explore the use of RDF to
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facilitate this data exchange and integration. These include
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protein sequence data (<a href=
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"http://www.isb-sib.ch/%7Eejain/rdf/">UniProt in RDF</a>),
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publication information (<a href=
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"http://npg.nature.com/npg/servlet/Content?data=xml/02_newsfeed.xml&style=xml/02_newsfeed.xsl">
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Nature Publishing Group newsfeed</a>) and identifiers for life
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science data objects and concepts (<a href=
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"http://www.i3c.org/wgr/ta/resources/lsid/docs/index.asp">LSID</a>).</p>
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<p>Thirdly, there are many online services for processing life
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science information (such as BLAST services for sequence alignment)
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which are being made available as web services. This raises the
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question of whether the semantic web can be exploited to describe
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these web services to both facilitate discovery and, in the long
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term, to enable semiautomatic combination of services. Projects in
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this area based on semantic web approaches include <a href=
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"http://biomoby.org/">BioMoby</a> and <a href=
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"http://www.mygrid.org.uk/">MyGrid</a>.</p>
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<p>There has been sufficiently much activity in this area to prompt
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W3C to host discussions and workshops specific to applying the
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semantic web to life sciences: [<a href=
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"http://lists.w3.org/Archives/Public/public-semweb-lifesci/"
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target="_top">archives</a>] [<a href=
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"http://www.w3.org/2004/07/swls-weblinks.html" target=
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"_top">links</a>] [<a href=
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"http://www.w3.org/2004/07/swls-cfp.html" target=
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"_top">workshop</a>]</p>
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<h3>Relevant SWAD-Europe resources</h3>
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<p>The key SWAD-Europe themes relevant here are:</p>
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<ul>
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<li><a href=
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"http://www.w3.org/2001/sw/Europe/showcase/digital-libraries.html">The
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Digital Library theme</a>, in particular the <a href=
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"http://www.w3.org/2001/sw/Europe/reports/thes/">SKOS thesaurus
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format</a>, for representation of life science vocabularies.</li>
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<li>The <a href=
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"http://www.w3.org/2001/sw/Europe/showcase/business-integration.html">
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Business Integration theme</a> for resources of relevance to the
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data integration problem.</li>
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<li>The <a href=
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"http://www.w3.org/2001/sw/Europe/reports/tools/">tools page</a>
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will be useful for any developer exploring issues such as storage
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and query of RDF data in this domain.</li>
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</ul>
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</div>
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</body>
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</html>
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