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From build...@apache.org
Subject svn commit: r868842 - in /websites/staging/ctakes/trunk: cgi-bin/ content/ content/relatedresources.html content/sitemap.html
Date Mon, 08 Jul 2013 21:12:52 GMT
Author: buildbot
Date: Mon Jul  8 21:12:52 2013
New Revision: 868842

Staging update by buildbot for ctakes

    websites/staging/ctakes/trunk/cgi-bin/   (props changed)
    websites/staging/ctakes/trunk/content/   (props changed)

Propchange: websites/staging/ctakes/trunk/cgi-bin/
--- cms:source-revision (original)
+++ cms:source-revision Mon Jul  8 21:12:52 2013
@@ -1 +1 @@

Propchange: websites/staging/ctakes/trunk/content/
--- cms:source-revision (original)
+++ cms:source-revision Mon Jul  8 21:12:52 2013
@@ -1 +1 @@

Added: websites/staging/ctakes/trunk/content/relatedresources.html
--- websites/staging/ctakes/trunk/content/relatedresources.html (added)
+++ websites/staging/ctakes/trunk/content/relatedresources.html Mon Jul  8 21:12:52 2013
@@ -0,0 +1,135 @@
+<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.01 Transitional//EN" "http://www.w3.org/TR/html4/loose.dtd">
+    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.
+<link href="/css/ctakes.css" rel="stylesheet" type="text/css">
+<title>Apache cTAKES - History</title>
+<meta http-equiv="Content-Type" content="text/html; charset=UTF-8">
+ <div class="banner">
+      <div id="bannerleft">
+	    <a href="http://ctakes.apache.org/"><img alt="cTAKES logo" src="/images/ctakes_logo.jpg"
+	  </div>
+    <div id="bannerright">	
+       <a href="http://www.apache.org/"><img src="http://www.apache.org/images/asf_logo_wide.gif"
alt="The Apache Software Foundation" border="0"/></a>			
+	</div>
+ </div>  
+     <div id="clear"></div>
+  <div id="sidenav">
+    <h1 id="general">General</h1>
+<li><a href="/index.html">About</a></li>
+<li><a href="/gettingstarted.html">Getting Started</a></li>
+<li><a href="/downloads.cgi">Downloads</a></li>
+<li><a href="/glossary.html">Glossary</a></li>
+<li><a href="/roadmap.html">Archives</a></li>
+<h1 id="community">Community</h1>
+<li><a href="/get-involved.html">Get Involved</a></li>
+<li><a href="https://cwiki.apache.org/confluence/display/CTAKES/Best+Practices">Best
+<li><a href="https://issues.apache.org/jira/browse/ctakes">Bug Tracker</a></li>
+<li><a href="/mailing-lists.html">Mailing Lists</a></li>
+<li><a href="/people.html">People</a></li>
+<li><a href="/license.html">License</a></li>
+<li><a href="/history.html">History</a></li>
+<li><a href="/community-faqs.html">Community FAQs</a></li>
+<h1 id="users">Users</h1>
+<li><a href="/userguide.html">User Guide</a></li>
+<li><a href="/user-faqs.html">User FAQs</a></li>
+<h1 id="developers">Developers</h1>
+<li><a href="/developerguide.html">Developer Guide</a></li>
+<li><a href="/developer-faqs.html">Developer FAQs</a></li>
+<h1 id="pmc">PMC</h1>
+<li><a href="/pmc-faqs.html">PMC FAQs</a></li>
+<li><a href="/ctakes-release-guide.html">Release Guide</a>   </li>
+<h1 id="asf">ASF</h1>
+<li><a href="http://www.apache.org">Apache Software Foundation</a></li>
+<li><a href="http://www.apache.org/foundation/thanks.html">Thanks</a></li>
+<li><a href="http://www.apache.org/foundation/sponsorship.html">Become a Sponsor</a></li>
+  </div>
+  <div id="contenta">
+    <h2 id="related-resources">Related Resources</h2>
+<h3 id="intro">Intro</h3>
+<p>This page is a place to put links to info about talks (past and upcoming), tutorials,
articles, publications, slides, PDFs, discussions, etc. about cTAKES and related technologies.<br
+No endorsements are implied or given.</p>
+<h2 id="useful-links">Useful Links</h2>
+<li><a href="http://uima.apache.org/">Apache UIMA</a>:  cTAKES is built
on top of the UIMA framework.</li>
+<li><a href="https://code.google.com/p/uimafit/wiki/GettingStarted">uimaFIT</a>:
uimaFIT provides Java annotations for describing UIMA components which can be used to directly
describe the UIMA components in the code.</li>
+<li><a href="http://knowtator.sourceforge.net/quickstart.shtml">Knowtator</a>:
Knowtator is a general-purpose text annotation tool that is integrated with the Protégé
knowledge representation system.  </li>
+<h2 id="videos">Videos</h2>
+<li>cTAKES description by Guergana: <a href="https://vimeo.com/24829353">https://vimeo.com/24829353</a></li>
+<h2 id="publications">Publications</h2>
+<h4 id="if-you-wish-to-cite-ctakes-in-a-publication-please-use">If you wish to cite
cTAKES in a publication, please use:</h4>
+<p>Savova, Guergana; Masanz, James; Ogren, Philip; Zheng, Jiaping; Sohn, Sunghwan;
Kipper-Schuler, Karin and Chute, Christopher. 2010. Mayo Clinical Text Analysis and Knowledge
Extraction System (cTAKES): architecture, component evaluation and applications. JAMIA 2010;17:507-513
+<h4 id="other-ctakes-publications-describing-different-components-and-applications">Other
cTAKES publications describing different components and applications:</h4>
+<p>Chen Lin, Helena Canhao, Timothy Miller, Dmitriy Dligach, Robert M. Plenge, Elizabeth
W. Karlson, Guergana Savova. 2012. Feature Engineering and Selection for Rheumatoid Arthritis
Disease Activity Classification Using Electronic Medical Records. International Conference
of Machine Learning (ICML) Workshop on Machine Learning for Clinical Data.</p>
+<p>Chen Lin, Timothy Miller, Dmitriy Dligach, Robert M. Plenge, Elizabeth W. Karlson,
Guergana Savova. 2012. Maximal Information Coefficient for Feature Selection for Clinical
Document Classification. International Conference on Machine Learning Workshop on Machine
Learning for Clinical Data.</p>
+<p>Miller, Timothy; Dligach, Dmitriy; Savova, Guergana. 2012. Active learning for Coreference
Resolution in the Biomedical Domain. BioNLP workshop at the Conference of the North American
Association of Computational Linguistics (NAACL 2012). </p>
+<p>Ashwin N. Ananthakrishnan, Tianxi Cai, Su-Chun Cheng, Pei Jun Chen, Guergana Savova,
Raul Guzman Perez, Vivian S. Gainer, Shawn N. Murphy, Peter Szolovits, Katherine Liao, Elizabeth
W. Karlson, Susanne Churchill, Isaac Kohane, Robert M. Plenge. 2012. Improving Case Definition
of Crohn's Disease and Ulcerative Colitis in Electronic Medical Records using Natural Language
Processing - A Novel Informatics Approach. Digestive Disease Week (DDW).</p>
+<p>Zheng, Jiaping; Chapman, Wendy; Miller, Timothy; Lin, Chen; Crowley, Rebecca; Savova,
Guergana. 2012. A system for coreference resolution for the clinical narrative. Journal of
the American Medical Informatics Association.</p>
+<p>Savova, Guergana; Olson, Janet; Murphy, Sean; Cafourek, Victoria; Couch, Fergus;
Goetz, Matthew; Ingle, James; Suman, Vera; Chute, Christopher and Weinshilboum, Richard. 2011.
The electronic medical record and drug response research: automated discovery of drug treatment
patterns for endocrine therapy of breast cancer. Journal of American Medical Informatics Association.</p>
+<p>Sohn, Sunghwan; Kocher, Jean-Pierre; Chute, Christopher; Savova, Guergana. 2011.
Drug side effect extraction from clinical narratives of psychiatry and psychology patients.
Journal of American Medical Informatics Association.</p>
+<p>Wu, Stephen; Kaggal, Vinod; Savova, Guergana; Liu, Hongfang; Dligach, Dmitriy; Zheng,
Jiaping; Chapman, Wendy; Chute, Christopher. 2011. Generality and reuse in a common type system
for clinical natural language processing. Managing Interoperability and Complexity in Health
Systems (MIXHS 2011), In conjuction with the 20th ACM International conference on information
and knowledge management. October 28, 2011. Glasgow, UK.</p>
+<p>Chute, Christopher; Pathak, Jyoti; Savova, Guergana; Bailey Kent; Schor Marshall;
Hart, Lacey; Beebe, Calvin and Huff, Stan. 2011. The SHARPn project on secondary use of electronic
medical record data: progress, plans an possibilities. AMIA ann symp.</p>
+<p>Cairns, Brian ; Nielsen, Rodney; Masanz, James; Martin, James; Palmer, Martha; Ward,
Wayne; Savova, Guergana. 2011. The MiPACQ Clinical Question Answering System. AMIA Annual
Symposium. Washington, DC.</p>
+<p>Wilke, Russell; Xu, Hua; Denny, Joshua; Roden, Daniel; Krauss, Ronald M; McCarty,
Catherine A; Davis, R; Skaar, Todd; Lamba Jatinder and Savova, Guergana. 2011. The emerging
role of electronic medical records in pharamacogenomics. Journal of Clinical Pharmacology
and Therapeutics.</p>
+<p>Nielsen, Rodney; Masanz, James; Ogren, Philip; Ward, Wayne; Martin, James; Palmer,
Martha; Savova, Guergana. 2010. An architecture for complex clinical question answering. 1st
Annual ACM International Conference on Health Informatics (IHI 2010). Washington, DC.</p>
+<p>Kullo, Iftikar; Fan, Jin; Pathak, Jyotishman; Savova, Guergana; Ali, Zeenat; Chute,
Christopher. 2010. Leveraging informatics for genetic studies: use of the electronic medical
record to enable a genome-wide association study of peripheral arterial disease. JAMIA. DOI:10.1136/jamia.2010.004366.</p>
+<p>Sohn, Sunghwan; Murphy, Sean; Masanz, James; Kocher, Jean-Pierre; Savova, Guergana.
2010. Classification of medication status change in clinical narratives. AMIA Fall symposium.</p>
+<p>Savova, Guergana; Fan, Jin; Ye, Zi; Murphy, Sean; Zheng, Jiaping; Chute, Christopher
and Kullo, Iftikhar. 2010. Discovering peripheral arterial disease cases from radiology notes
using natural language processing. AMIA Fall symposium.</p>
+<p>Savova, Guergana; Masanz, James; Ogren, Philip; Zheng, Jiaping; Sohn, Sunghwan;
Kipper-Schuler, Karin and Chute, Christopher. 2010. Mayo Clinical Text Analysis and Knowledge
Extraction System (cTAKES): architecture, component evaluation and applications. JAMIA 2010;17:507-513
+<p>Cheng, Lionel; Zheng, Jiaping; Savova, Guergana and Erickson, Bradley. 2010. Discerning
tumor status from unstructured MRI reports – completeness of information in existing
reports and utility of natural language processing. Journal of Digital Imaging of the Society
of Imaging Informatics in Medicine, ISSN: 0897-1889: 23(2), 119-133. PMID: 19484309. (Best
paper 2010 award of the Journal of Digital Imaging). http://www.ncbi.nlm.nih.gov/pubmed/19484309</p>
+<p>Sohn, Sunghwan and Savova, Guergana. 2009. Mayo Clinic smoking status classification
system. Proc. AMIA, Nov. 2009.</p>
+<p>Garla, V. et al. The Yale cTAKES extensions for document classification: architecture
and application. Journal of the American Medical Informatics Association (2011). doi:10.1136/amiajnl-2011-000093
+<p>Garla, V and Brandt, C. Ontology-Guided Feature Engineering for Clinical Text Classification
(2012) http://dx.doi.org/10.1016/j.jbi.2012.04.010.</p>
+  </div>
+ <div id="footera">
+    <div id="copyrighta">
+		<p>Copyright &#169; 2011-2013 The Apache Software Foundation, Licensed under
the <a href="http://www.apache.org/licenses/LICENSE-2.0">Apache License, Version 2.0</a>.
<a href="privacy.html">Privacy Policy</a><br/>Apache and the Apache feather
logo are trademarks of The Apache Software Foundation.</p>
+    </div>
+ </div>
+<script type="text/javascript">
+        var _gaq = _gaq || []; _gaq.push(['_setAccount', 'UA-41673085-1']); _gaq.push(['_trackPageview']);
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Modified: websites/staging/ctakes/trunk/content/sitemap.html
--- websites/staging/ctakes/trunk/content/sitemap.html (original)
+++ websites/staging/ctakes/trunk/content/sitemap.html Mon Jul  8 21:12:52 2013
@@ -101,6 +101,7 @@
 <li><a href="/people.html">Apache cTAKES - Contributors and people</a></li>
 <li><a href="/pmc-faqs.html">Apache cTAKES - PPMC FAQs</a></li>
 <li><a href="/privacy.html">Apache cTAKES - Privacy Policy</a></li>
+<li><a href="/relatedresources.html">Apache cTAKES - History</a></li>
 <li><a href="/roadmap.html">Apache cTAKES - Archive</a></li>
 <li><a href="/user-faqs.html">Apache cTAKES - User FAQs</a></li>
 <li><a href="/userguide.html">Apache cTAKES - User Guide</a></li>

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