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Posted to commits@taverna.apache.org by bu...@apache.org on 2015/03/02 10:23:46 UTC
svn commit: r941895 - in /websites/staging/taverna/trunk: cgi-bin/ content/
content/introduction/taverna-in-use/protein-and-proteomics.html
Author: buildbot
Date: Mon Mar 2 09:23:45 2015
New Revision: 941895
Log:
Staging update by buildbot for taverna
Added:
websites/staging/taverna/trunk/content/introduction/taverna-in-use/protein-and-proteomics.html
Modified:
websites/staging/taverna/trunk/cgi-bin/ (props changed)
websites/staging/taverna/trunk/content/ (props changed)
Propchange: websites/staging/taverna/trunk/cgi-bin/
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Added: websites/staging/taverna/trunk/content/introduction/taverna-in-use/protein-and-proteomics.html
==============================================================================
--- websites/staging/taverna/trunk/content/introduction/taverna-in-use/protein-and-proteomics.html (added)
+++ websites/staging/taverna/trunk/content/introduction/taverna-in-use/protein-and-proteomics.html Mon Mar 2 09:23:45 2015
@@ -0,0 +1,236 @@
+<!DOCTYPE html>
+<html lang="en">
+ <head>
+ <meta charset="utf-8">
+ <meta http-equiv="X-UA-Compatible" content="IE=edge">
+ <meta name="viewport" content="width=device-width, initial-scale=1">
+ <title>Apache Taverna - Protein and proteomics</title>
+
+ <meta http-equiv="Content-Type" content="text/html;charset=UTF-8">
+ <meta property="og:image" content="/img/taverna-logo-145x134.png" />
+
+ <link rel="shortcut icon" href="/favicon.ico">
+ <link rel="icon" type="image/png" sizes="145x134" href="/img/taverna-logo-145x134.png">
+ <link rel="apple-touch-icon" sizes="145x134" href="/img/taverna-logo-145x134.png">
+
+ <link rel="stylesheet" href="/lib/bootstrap/css/bootstrap.min.css">
+ <link rel="stylesheet" href="/lib/bootstrap/css/bootstrap-theme.min.css">
+ <link rel="stylesheet" href="/css/sticky-footer-navbar.css">
+ <link rel="stylesheet" href="/css/taverna.css">
+
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+ <!-- Licensed to the Apache Software Foundation (ASF) under one or more contributor license agreements. See the NOTICE file distributed with this work for additional information regarding copyright ownership. The ASF licenses this file to you under the Apache License, Version 2.0 (the "License"); you may not use this file except in compliance with the License. You may obtain a copy of the License at . http://www.apache.org/licenses/LICENSE-2.0 . Unless required by applicable law or agreed to in writing, software distributed under the License is distributed on an "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied. See the License for the specific language governing permissions and limitations under the License. -->
+
+ <!-- JSON-LD markup for Google Structured Data -->
+
+ <!-- generic JSON-LD for this page -->
+ <script type="application/ld+json">
+ {
+ "@context" : "http://schema.org",
+ "@type" : ["CreativeWork"],
+ "@id": "",
+ "name" : "Protein and proteomics",
+ "publisher" : {
+ "@type" : "Organization",
+ "url" : "http://www.apache.org/",
+ "name" : "The Apache Software Foundation (ASF)"
+ },
+ "license": {
+ "@type": "CreativeWork",
+ "@id": "http://www.apache.org/licenses/LICENSE-2.0",
+ "url": "http://www.apache.org/licenses/LICENSE-2.0",
+ "name": "Apache License, Version 2.0"
+ }
+ }
+</script>
+
+ </head>
+
+ <body>
+
+ <!-- Static navbar -->
+ <nav class="navbar navbar-default" role="navigation">
+ <div class="container">
+ <div class="navbar-header">
+ <button type="button" class="navbar-toggle collapsed" data-toggle="collapse" data-target="#navbar" aria-expanded="false" aria-controls="navbar">
+ <span class="sr-only">Toggle navigation</span>
+ <span class="icon-bar"></span>
+ <span class="icon-bar"></span>
+ <span class="icon-bar"></span>
+ </button>
+ <a class="navbar-brand" href="/"><img src="/img/taverna-logo-145x134.png" alt="">Apache Taverna</a>
+
+ </div>
+ <div id="navbar" class="navbar-collapse collapse">
+ <ul class="nav navbar-nav">
+ <li class="dropdown">
+ <a href="/introduction/" data-toggle="dropdown" role="button" aria-expanded="false">Introduction<span class="caret"></span></a>
+ <ul class="dropdown-menu" role="menu">
+ <li><a href="/introduction/taverna-features">Taverna features</a></li>
+ <li><a href="/introduction/why-use-workflows">Why use workflows?</a></li>
+ <li><a href="/introduction/what-is-in-silico-experimentation">What is âin silicoâ experimentation?</a></li>
+ <li><a href="/introduction/what-is-a-workflow-management-system">What is a Workflow Management System?</a></li>
+ <li><a href="/introduction/how-can-taverna-help-me">How can Taverna help me?</a></li>
+ <li><a href="/introduction/services-in-taverna">Services in Taverna</a></li>
+ <li><a href="/introduction/related-projects">Related projects</a></li>
+ <li><a href="/introduction/chemistry-web-services">Chemistry-web-services</a></li>
+ <li><a href="/introduction/taverna-in-use">Taverna in use</a></li>
+ <li><a href="/introduction/works-with">Works with...</a></li>
+ <li><a href="/introduction/roadmap.html">Raod Map</a></li>
+ </ul>
+ </li>
+ <li class="dropdown">
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+ <li><a href="/documentation/quick-start-guide">Quick start guide</a></li>
+ <li><a href="/documentation/components">Components</a></li>
+ <li><a href="/documentation/interaction">Interactions</a></li>
+ <li><a href="/documentation/tutorials">Tutorials</a></li>
+ <li><a href="/documentation/videos">Videos</a></li>
+ <li><a href="/documentation/example-workflows">Example workflows</a></li>
+ <li><a href="/documentation/service-sets">Service sets</a></li>
+ <li><a href="/documentation/provenance">Provenance management</a></li>
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+ <li><a href="/documentation/plugins">Plugins</a></li>
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+ <li><a href="/download/maven">Maven Repository</a></li>
+ <li><a href="/download/system-requirements">System Requirements</a></li>
+ <li><a href="/download/pre-apache">Taverna 2.x (Pre-Apache)</a></li>
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+ <!--<input type="submit" id="submit" value="Search">-->
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+ <form class="navbar-form navbar-right" role="search"
+ name="search" id="search" action="http://www.google.com/search" method="get">
+ <input value="taverna.incubator.apache.org" name="sitesearch" type="hidden"/>
+ <div class="form-group input-group">
+ <input type="text" name="q" id="query" placeholder="Search" class="form-control">
+ <span class="input-group-btn">
+ <button type="submit" class="btn btn-default">Search</button>
+ </span>
+ </div>
+ </form>
+
+ <ul class="nav navbar-nav navbar-right">
+ <li class="dropdown">
+ <a href="http://www.apache.org/" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-expanded="false">ASF<span class="caret"></span></a>
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+ <li><a href="http://www.apache.org/">Apache Software Foundation</a></li>
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+ </div><!--/.nav-collapse -->
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+ </nav>
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+ <div id="page" class="container">
+ <h1>Protein and proteomics</h1>
+ <div class="alert alert-info" role="alert"><p><span class="glyphicon glyphicon-info-sign" aria-hidden="true"></span>
+
+Taverna is transitioning to the Apache Incubator.
+This webpage reflects material not yet released under Apache Incubator.
+Instead it shows <a class="alert-link" href="http://www.taverna.org.uk/">taverna2</a> material that is expected to become part of the Apache Incubator project in the future.
+</div>
+
+
+ <div id="content"><p>Taverna is used by various projects and researchers for the analysis of proteins and proteomics:</p>
+<ul>
+<li><a href="/introduction/taverna-in-use/disease-research#analysis-of-anthrax-bacterium">Anthrax analysis</a> -
+ identification of proteins secreted by bacteria></li>
+<li><a href="/introduction/taverna-in-use/databases#efamily">eFamily</a> - integrating data from different databases</li>
+<li><a href="http://www.mygrid.org.uk/mygrid-in-use/adoption-by-embrace">European Model for Bioinformatics Research And Community Education</a>
+ (EMBRACE) - calling services on a grid; recovering a database</li>
+<li><a href="/introduction/related-projects/ispider">iSpider</a> - querying multiple data sources</li>
+<li><a href="#prodom">ProDom</a> -running of Taverna workflows behind a portal to search a protein database</li>
+</ul>
+<p>< a name="prodom"></a></p>
+<h2 id="prodom">ProDom</h2>
+<p><a href="http://prodom.prabi.fr/">ProDom</a> is a comprehensive database of protein domain families generated
+ from the global comparison of all available protein sequences.
+It was developed at the Rhône-Alpes Bioinformatics Center (<a href="http://www.prabi.fr/">PRABI</a>).</p>
+<p>ProDom is described in the <a href="http://dx.doi.org/10.1093/nar/gki034">paper</a>
+ *The ProDom database of protein domain families: more emphasis on 3D * by Bru et al.</p>
+<p>A Web-based front-end is <a href="http://prodom.prabi.fr/prodom/current/html/form.php">available</a>
+ to perform searches and comparisons on the content of the database.</p>
+<p>Some of the queries used by the front-end make use of Taverna
+ <a href="http://prodom.prabi.fr/prodom/current/html/webservices.html">workflows</a>.</p></div>
+
+ </div>
+
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