[Swift-commit] r5365 - in wwwdev: . case_studies case_studies/images inc
davidk at ci.uchicago.edu
davidk at ci.uchicago.edu
Wed Dec 7 16:23:16 CST 2011
Author: davidk
Date: 2011-12-07 16:23:16 -0600 (Wed, 07 Dec 2011)
New Revision: 5365
Added:
wwwdev/case_studies/CNARI.php
wwwdev/case_studies/images/CNARI-fig2.png
Modified:
wwwdev/case_studies/index.php
wwwdev/inc/case_study_sidebar.php
wwwdev/inc/main_rotator.php
wwwdev/push_to.sh
Log:
CNARI case study
Added: wwwdev/case_studies/CNARI.php
===================================================================
--- wwwdev/case_studies/CNARI.php (rev 0)
+++ wwwdev/case_studies/CNARI.php 2011-12-07 22:23:16 UTC (rev 5365)
@@ -0,0 +1,79 @@
+<!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">
+<head>
+<meta http-equiv="Content-Type" content="text/html; charset=UTF-8" />
+<title>Swift - Case Studies</title>
+<link href="../css/960_12_col.css" rel="stylesheet" type="text/css" />
+<link href="../css/reset.css" rel="stylesheet" type="text/css" />
+<link href="../css/style3.css" rel="stylesheet" type="text/css" />
+<script type="text/javascript" src="http://use.typekit.com/dbf2lqy.js"></script>
+<script type="text/javascript">try{Typekit.load();}catch(e){}</script>
+</head>
+
+<body>
+<div class="container_12">
+ <!-- header -->
+ <?php require('../inc/header2.php') ?>
+ <!-- end header -->
+<div class="grid_12 page-header">
+ <h1>Case Studies</h1>
+</div>
+<div class="clear"></div>
+<!-- end .grid_12 -->
+
+ <div class="grid_9">
+ <h3>Computational Neuroscience Application Research Infrastructure</h3>
+ <p>
+Functional magnetic resonance imaging (fMRI) has led to an enormous growth in the study of cognitive
+neuroanatomy. Combined with advances in high-field electrophysiology, fMRI has led to
+a fast-growing field of human neuroscience.
+<br><br>
+Researchers led by Dr. Steven Small of UCalifornia Irvine developed a new computational framework that
+facilitates fMRI experimentation and analysis, and which has led to some rethinking of the nature of
+experimental design and analysis.
+</p>
+ <img src="images/CNARI-fig2.png" style="padding:0px 0px 15px 20px;" />
+ <p>
+ <i>Graphical depiction of permutations of original data. Brain activity data were collected from 24 participants that were exposed to two experimental conditions. A single
+permutation consisted of (a) switching the condition labels of the experimental conditions, for 1 or more participants, (b) re-calculating the group-level effects, and (c) spatially
+clustering the results to identify what is the largest cluster found for the current permutation. This procedure results in a sampling distribution for the largest cluster in each
+permutation, which is then used to threshold the original data.</i></p>
+<br>
+ <p><b>Approach.</b>
+The Computational Neuroscience Applications Research Infrastructure (CNARI) incorporates novel methods for maintaining, serving, and analyzing massive amounts of fMRI data. CNARI uses Swift to describe, execute, and share parallel workflows, and relational database technology to provide new methods to organize and analyze experimental results.
+<br><br>
+Swift runs CNARI workflows on a wide variety of resources, including TeraGrid/XSEDE systems and institutional computing clusters. By using CNARI, it is possible to perform naturalistic, network-based, statistically valid experiments in systems neuroscience on a very large scale, with ease of data manipulation and analysis, within reasonable
+computational time scales.
+<!--
+<p><b>Results.</b>
+Results of this research demonstrate that plausible changes in temperature and precipitation caused by increases in atmospheric greenhouse gas concentrations could have major impacts on both
+</p>
+-->
+
+ <p> </p>
+ </div>
+ <!-- end .grid_9 -->
+ <div class="grid_3">
+ <?php require('../inc/case_study_sidebar.php') ?>
+ <p> </p>
+ </div>
+ <!-- end .grid_3 -->
+
+ <div class="clear"></div>
+
+ </div>
+<!-- end .container_12 -->
+<!-- footer -->
+<?php require('../inc/footer2.php') ?>
+<!-- end footer -->
+<script type="text/javascript">
+var gaJsHost = (("https:" == document.location.protocol) ? "https://ssl." : "http://www.");
+document.write(unescape("%3Cscript src='" + gaJsHost + "google-analytics.com/ga.js' type='text/javascript'%3E%3C/script%3E"));
+</script>
+<script type="text/javascript">
+try {
+var pageTracker = _gat._getTracker("UA-106257-5");
+pageTracker._trackPageview();
+} catch(err) {}</script>
+</body>
+</html>
Added: wwwdev/case_studies/images/CNARI-fig2.png
===================================================================
(Binary files differ)
Property changes on: wwwdev/case_studies/images/CNARI-fig2.png
___________________________________________________________________
Added: svn:mime-type
+ application/octet-stream
Modified: wwwdev/case_studies/index.php
===================================================================
--- wwwdev/case_studies/index.php 2011-12-07 20:51:01 UTC (rev 5364)
+++ wwwdev/case_studies/index.php 2011-12-07 22:23:16 UTC (rev 5365)
@@ -35,7 +35,7 @@
<p> </p>
<div class="clear"></div>
- <h3>Protein-RNA interaction modeling</h3>
+ <h3>Protein-RNA Interaction Modeling</h3>
<p>M. Parisien (with T. Sosnick, T. Pan, and K. Freed) used Beagle to develop a first-generation algorithm for the prediction of the RNA-protein interactome.</p>
<a href="Protein-RNA.php" class="trailingLink">learn more</a>
<p> </p>
@@ -47,15 +47,17 @@
<p> </p>
<div class="clear"></div>
- <h3>Modeling climate impact on hydrology</h3>
+ <h3>Modeling Climate Impact on Hydrology</h3>
<p>Projecting biofuel production impact on hydrology (E. Yan)</p>
<a href="Hydrology.php" class="trailingLink">learn more</a>
<p> </p>
<div class="clear"></div>
- <h3>Computational neuroscience application research infrastructure</h3>
- <p>needs text here</p>
- <a href="#" class="trailingLink">learn more</a>
+ <h3>Computational Neuroscience Application Research Infrastructure</h3>
+ <p>The Computational Neuroscience Applications Research Infrastructure
+(CNARI) uses Swift for maintaining, serving, and
+analyzing massive amounts of fMRI data.</p>
+ <a href="CNARI.php" class="trailingLink">learn more</a>
<p> </p>
<div class="clear"></div>
Modified: wwwdev/inc/case_study_sidebar.php
===================================================================
--- wwwdev/inc/case_study_sidebar.php 2011-12-07 20:51:01 UTC (rev 5364)
+++ wwwdev/inc/case_study_sidebar.php 2011-12-07 22:23:16 UTC (rev 5365)
@@ -5,5 +5,5 @@
<li><a href="Protein-RNA.php">Protein-RNA interaction modeling</a></li>
<li><a href="Glass-Structure.php">Glass Structure Modeling</a></li>
<li><a href="Hydrology.php">Modeling climate impact on hydrology</a></li>
- <li><a href="#">Computational neuroscience application research infrastructure</a></li>
-</ul>
\ No newline at end of file
+ <li><a href="CNARI.php">Computational neuroscience application research infrastructure</a></li>
+</ul>
Modified: wwwdev/inc/main_rotator.php
===================================================================
--- wwwdev/inc/main_rotator.php 2011-12-07 20:51:01 UTC (rev 5364)
+++ wwwdev/inc/main_rotator.php 2011-12-07 22:23:16 UTC (rev 5365)
@@ -1,5 +1,5 @@
<div id="featured">
- <a href="http://www.wm.edu/as/computerscience/documents/cstechreports/WM-CS-2009-05.pdf"><img src="../images/rotator/2011_08_neuroscience.jpg" /></a>
+ <a href="../case_studies/CNARI.php"><img src="../images/rotator/2011_08_neuroscience.jpg" /></a>
<a href="../case_studies/CIM-Earth.php"><img src="../images/rotator/bg_rotator2a.jpg" /></a> <!--data-caption="#htmlCaption" -->
<a href="../case_studies/Protein-Structure.php"><img src="../images/rotator/bg_rotator3a.jpg" /></a>
</div>
@@ -7,4 +7,4 @@
<span class="orbit-caption" id="htmlCaption"><strong>I'm A Caption:</strong> I can have <a href="#">links</a>, <em>style</em> or anything that is valid markup :)</span>
-
\ No newline at end of file
+
Modified: wwwdev/push_to.sh
===================================================================
--- wwwdev/push_to.sh 2011-12-07 20:51:01 UTC (rev 5364)
+++ wwwdev/push_to.sh 2011-12-07 22:23:16 UTC (rev 5365)
@@ -100,7 +100,8 @@
case_studies/Protein-RNA.php
case_studies/index.php
case_studies/CIM-Earth.php
-
+case_studies/CNARI.php
+case_studies/images/CNARI-fig2.png
style.css
sitemap.xml
apps/index.php
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