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<!doctype html>
<html lang="en">
<head>
<meta charset="utf-8">
<title>Data sharing solutions</title>
<meta name="description" content="A framework for easily creating beautiful presentations using HTML">
<meta name="author" content="Hakim El Hattab">
<meta name="apple-mobile-web-app-capable" content="yes" />
<meta name="apple-mobile-web-app-status-bar-style" content="black-translucent" />
<meta name="viewport" content="width=device-width, initial-scale=1.0, maximum-scale=1.0, user-scalable=no, minimal-ui">
<!-- The important Javascript libraries -->
<link rel="stylesheet" href="css/reveal.css">
<link rel="stylesheet" href="css/theme/black.css" id="theme">
<!-- Code syntax highlighting -->
<link rel="stylesheet" href="lib/css/zenburn.css">
<!-- Printing and PDF exports -->
<script>
var link = document.createElement( 'link' );
link.rel = 'stylesheet';
link.type = 'text/css';
link.href = window.location.search.match( /print-pdf/gi ) ? 'css/print/pdf.css' : 'css/print/paper.css';
document.getElementsByTagName( 'head' )[0].appendChild( link );
</script>
<!--[if lt IE 9]>
<script src="lib/js/html5shiv.js"></script>
<![endif]-->
</head>
<body>
<div class="reveal">
<!-- Any section element inside of this container is displayed as a slide -->
<div class="slides">
<!-- MNI ecosystem menu/summary-->
<section>
<section data-background="images/mni_eco_info_5.jpg" data-background-size="100%">
</section>
<!-- MNI PAPER -->
<section data-transition="fade">
<a href="https://www.researchgate.net/publication/281780543_The_MNI_data-sharing_and_processing_ecosystem" target="_blank"><img src="images/MNI_ecosystem_paper.png" width="90%"></a>
</section>
<!-- WHAT'S INVOLVED? -->
<section id="fragments">
<h2><font color="12a3d8">What’s involved?</font></h2>
<p>
<span class="fragment">Longitudinal Acquisition, Storage and Curation, <font color="f27c30">Interoperability, Reproducibility</font>, Transfer, Anonymization, Security, Privacy, Ethics, APIs, Validation, Quality Control, Protocol Checking, Preprocessing, Analysis, HPC,</span>
<span class="fragment">Provenance, Ontological Standarization,<br><font color="f27c30">Data Harmonization</font>, Upgrades, Maintenance, Bug Fixes, User Interface, Javascript, Bootstrap, Tracking, <font color="f27c30">Extensibility</font>, Data Management, Summary Statistics, Workflows,</span><br>
<span class="fragment">Development, Tool Integration, <font color="f27c30">Data Sharing</font>, Download, Multi-Modal Linking, <font color="f27c30">Querying</font>, Image Processing, Visualization, Networking, System Administration, Partnerships, Funding, HR</span>
<span class="fragment"><font color="f27c30">...No big deal!</font></span>
</p>
</section>
<section>
<h2><font color="12a3d8">LORIS-CBRAIN INTEGRATION</font></h2>
<img src="images/Data_flow.jpg">
</section>
</section>
<!-- What is Data Sharing? -->
<section data-background="images/Data_sharing_cartoon.png" id="data-sharing-destination">
<h2><font color="black">What is Data Sharing?</font></h2>
<p class="fragment roll-in"><font color="purple">Exchange of information</font></p>
<p class="fragment roll-in"><font color="black">Datasets</font></p>
<p class="fragment roll-in"><font color="black">Tools</font></p>
<p class="fragment roll-in"><font color="black">Standarization</font></p>
<p class="fragment roll-in"><font color="black">Databases</font></p>
<p class="fragment roll-in"><font color="black">Collaborations</font></p>
<p class="fragment roll-in"><font color="black">Conferences, hackathons</font></p>
<p class="fragment roll-in"><font color="black">Facebook, Google, Twitter, etc.</font></p>
<br>
<p><font size="1" color="black">Image source: http://blog.veritythink.com/post/87880448269/creative-data-sharing-and-open-humanitarianism</font></p>
</section>
<section data-transition="concave">
<!-- Why is Data Sharing Important? -->
<section data-transition="concave">
<h2>Data Sharing Issues</h2>
<table>
<thead>
<tr>
<th><font color="yellow">Benefits </font></th>
<th><font color="yellow">Hurdles </font></th>
</tr>
</thead>
<tbody>
<tr>
<td>It's the future</td>
<td>Fear</td>
</tr>
<tr>
<td>Reduces waste/duplication</td>
<td>Technical challenges</td>
</tr>
<tr>
<td>Increased exposure</td>
<td>Privacy concerns</td>
</tr>
<tr>
<td>Access to larger datasets</td>
<td>Data Harmonization</td>
</tr>
<tr>
<td>Access to rare data</td>
<td>Interoperability</td>
</tr>
<tr>
<td>Less attrition</td>
<td>Reproducibility</td>
</tr>
<tr>
<td>Increased validation</td>
<td>Obtaining ethics</td>
</tr>
<tr>
<td>Saving Tax $$</td>
<td>Public dataset not identical</td>
</tr>
</tbody>
</table>
</section>
<!-- Problem Case -->
<section data-transition="convex">
<h2>Privacy Concerns</h2>
<table class="reveal">
<tr>
<td width="40%" style="vertical-align: middle">
<img src="images/Data_breach_title.png">
<img src="images/Data_breach_consent.png">
<img src="images/Data_breach.png">
</td>
<td width="60%" style="vertical-align: middle">
<a href="https://tech.vijayp.ca/of-taxis-and-rainbows-f6bc289679a1#.jbat052vf"><img src="images/Data_breach_NYC_taxi.png"></a>
<small><a href="https://www.mcgill.ca/bic/channels/event/feindel-brain-imaging-lecture-series-adrian-thorogood-embracing-open-science-best-practices-258420" target="_blank">Adrian Thorogood BIC lecture - March 9, 2016</a></small>
<img src="images/Data_breach_magazine.png">
</td>
</tr></table>
</section>
</section>
<!-- COBIDAS -->
<section data-transition="concave">
<section data-transition="concave">
<h2>Best practices in Data Sharing</h2>
<small><a href="http://www.humanbrainmapping.org/i4a/pages/index.cfm?pageid=1" target="_blank">Committee on Best Practices in Data Analysis and Sharing (COBIDAS)</a></small>
<img src="images/COBIDAS.png">
</section>
<!-- COBIDAS points-->
<section data-transition="zoom">
<h2>COBIDAS - Key points</h2>
<ol>
<li>Experimental Design</li>
<li>Acquisition Reporting</li>
<li>Preprocessing Reporting</li>
<li>Statistical Modeling and Inference</li>
<li>Results Reporting</li>
<li>Data sharing</li>
<li>Reproducibility</li>
</ol>
</section>
</section>
<!-- Centralized versus De-centralized -->
<section data-transition="concave">
<h2>Centralized or Distributed?</h2>
<img src="images/Networks.png">
</section>
<!-- Data sharing solutions -->
<section data-transition="convex">
<h2>Some Data Sharing solutions?</h2>
<img src="images/Solutions.png">
</section>
<!-- External Initiatives -->
<section>
<section>
<h2><font color="blue">Global Data Sharing Initiatives</font></h2>
<p>
<p class="fragment roll-in">Public Data Repositories</p>
<p class="fragment roll-in">CBRAIN hooks</p>
<p class="fragment roll-in">BIDS</p>
<p class="fragment roll-in">NIDM</p>
<p class="fragment roll-in">Neurovault</p>
<p class="fragment roll-in">Braincode interoperability</p>
<p class="fragment roll-in">Interoperability with other competitors</p>
<p class="fragment roll-in">Best practices</p>
</section>
<section data-transition="slide">
<h2>External Initiatives</h2>
<p>
<span class="fragment"><a href="https://www.incf.org" target="_blank">INCF, </a></span>
<span class="fragment"><a href="https://osf.io" target="_blank">Open Science Framework, </a></span>
<span class="fragment"><a href="https://www.nitrc.org" target="_blank">NITRC, </a></span>
<span class="fragment"><a href="http://alleninstitute.org" target="_blank">Allen Institute, </a></span>
<span class="fragment"><a href="https://ndar.nih.gov" target="_blank">NDAR, </a></span>
<span class="fragment"><a href="https://openfmri.org" target="_blank">Open fMRI, </a></span>
<span class="fragment"><a href="http://www.humanbrainmapping.org" target="_blank">Organization Human Brain Mapping, </a></span>
<span class="fragment"><a href="https://www.humanbrainproject.eu" target="_blank">Human Brain Project, </a></span>
<span class="fragment"><a href="https://www.computecanada.ca" target="_blank">Compute Canada, </a></span>
<span class="fragment"><a href="https://www.maelstrom-research.org" target="_blank">Maelstrom, </a></span>
<span class="fragment"><a href="http://www.ukbiobank.ac.uk" target="_blank">UK Biobank, </a></span>
<span class="fragment"><a href="" target="_blank">Edinburgh BRAINS ImageBank, </a></span>
<span class="fragment"><a href="http://www.braininitiative.nih.gov" target="_blank">BRAIN, </a></span>
<span class="fragment"><a href="http://enigma.ini.usc.edu" target="_blank">ENIGMA, </a></span>
<span class="fragment"><a href="http://fcon_1000.projects.nitrc.org/indi/enhanced/" target="_blank">Enhanced Nathan Kline Institute (1000 Functional Connectomes), </a></span>
<span class="fragment"><a href="http://www.loni.usc.edu" target="_blank">LONI, </a></span>
<span class="fragment"><a href="http://www.gaain.org" target="_blank">GAAIN, </a></span>
<span class="fragment"><a href="http://coins.mrn.org" target="_blank">COINS, </a></span>
<span class="fragment"><a href="http://www.xnat.org" target="_blank">XNAT, </a></span>
<span class="fragment"><a href="http://brainspell.org" target="_blank">BrainSpell, </a></span>
<span class="fragment"><a href="http://www.creatis.insa-lyon.fr/vip/" target="_blank">VIP, </a></span>
<span class="fragment"><a href="http://www.fil.ion.ucl.ac.uk/spm/" target="_blank">SPM, </a></span>
<span class="fragment"><a href="https://www.braincode.ca" target="_blank">BrainCode, </a></span>
<span class="fragment"><a href="http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/" target="_blank">FSL, </a></span>
<span class="fragment"><a href="http://www.birncommunity.org/collaborators/function-birn/" target="_blank">FBIRN, </a></span>
<span class="fragment"><a href="https://synapse.mskcc.org/synapse/publications/9905-Neuroimaging_Clinics_of_North_America" target="_blank">Synapse, </a></span>
<span class="fragment"><a href="http://www.cima-q.ca" target="_blank">CIMA-Q, </a></span>
<span class="fragment"><a href="http://www.neurodevnet.ca" target="_blank">NeuroDevNet, </a></span>
<span class="fragment"><a href="http://gusto.sg/v2/index.php" target="_blank">GUSTO, </a></span>
<span class="fragment"><a href="http://rpq-qpn.ca/en/" target="_blank">QPN, </a></span>
<span class="fragment"><a href="http://www.neurobureau.org" target="_blank">The NeuroBureau, </a></span>
<span class="fragment"><a href="http://addictionresearch.nih.gov/abcd-study" target="_blank">ABCD... </a></span>
</p>
<p><b><font color="green"><span class="fragment">So </span></font>
<font color="yellow"><span class="fragment">many </span></font></b>
<font color="red"><span class="fragment">initiatives! </span></font>
</p>
</section>
<!-- INCF group -->
<section data-transition="zoom">
<h2>INCF - Los Angeles 2016</h2>
<img src="images/INCF_picture.png">
</section>
<!-- BIDS -->
<section data-transition="fade">
<table class="reveal">
<h2>BIDS</h2>
<tr>
<td width="75%" style="vertical-align: middle">
<a href = "http://bids.neuroimaging.io/" data-preview-link><img src="images/BIDS.png"></a>
</td>
<td width="25%" style="vertical-align: middle">
<p>Common Ontology for Imaging Data</p>
</td>
</tr>
</table>
</section>
<!-- NeuroImgaging Data Model (NiDM)-->
<section data-transition="fade">
<h2>NeuroImaging Data Model</h2>
<img src="images/Nidm.png">
<p>Format for storing metadata, provenance, processing information</p>
</section>
<!--DataLad-->
<section data-transition="fade">
<h2>DataLad</h2>
<img src="images/Datalad.png">
</section>
</section>
<!-- Working group for atlas building template-->
<section data-transition="fade">
<h2>Atlas template building</h2>
<table class="reveal">
<tr>
<td width="50%" style="vertical-align: middle">
<img src="images/Atlas_group.JPG">
</td>
<td width="50%" style="vertical-align: middle">
<p><font color="yellow">Goal:</font></p>
<p>To create standardized JSON metadata to describe atlases</p>
<p>For either volumetric or surface atlases</p>
<p>Pipelines (e.g.CIVET) can access more atlases for anatomical standardization</p>
</td>
</tr></table>
</section>
</section>
<!-- Datasets -->
<section>
<section data-transition="zoom">
<h2>Consolidated datasets</h2>
<p>
<span class="fragment"><a href="http://adni.loni.usc.edu" target="_blank">ADNI, </a></span>
<span class="fragment"><a href="http://www.loni.usc.edu/ICBM/" target="_blank">ICBM, </a></span>
<span class="fragment"><a href="http://pediatricmri.nih.gov/nihpd/info/index.html" target="_blank">NIHPD, </a></span>
<span class="fragment"><a href="http://mouse.brain-map.org" target="_blank">Allen Mouse Brain, </a></span>
<span class="fragment"><a href="https://ndar.nih.gov/edit_collection.html?id=19" target="_blank">IBIS, </a></span>
<span class="fragment"><a href="http://www.generationr.nl/researchers.html" target="_blank">Generation-R, </a></span>
<span class="fragment"><a href="http://fcon_1000.projects.nitrc.org/indi/abide/" target="_blank">ABIDE, </a></span>
<span class="fragment"><a href="http://preprocessed-connectomes-project.org/abide/" target="_blank">ABIDE Preprocessed, </a></span>
<span class="fragment"><a href="http://fcon_1000.projects.nitrc.org/indi/adhd200/index.html" target="_blank">ADHD 200, </a></span>
<span class="fragment"><a href="http://neurobureau.projects.nitrc.org/ADHD200/Introduction.html" target="_blank">ADHD Preprocessed, </a></span>
<span class="fragment"><a href="http://www.humanconnectomeproject.org" target="_blank">Human Connectome Project, </a></span>
<span class="fragment"><a href="https://omega.bic.mni.mcgill.ca/main.php" target="_blank">OMEGA, </a></span>
<span class="fragment"><a href="http://www.ukbiobank.ac.uk" target="_blank">UK Biobank, </a></span>
<span class="fragment"><a href="" target="_blank">Edinburgh Biobank, </a></span>
<span class="fragment"><a href="https://bigbrain.loris.ca/main.php" target="_blank">BigBrain, </a></span>
<span class="fragment"><a href="http://www.talairach.org" target="_blank">Talairach, </a></span>
<span class="fragment"><a href="http://fcon_1000.projects.nitrc.org/indi/enhanced/" target="_blank">1000 Functional Connectomes, </a></span>
<span class="fragment"><a href="http://www.bic.mni.mcgill.ca/ServicesAtlases/Colin27" target="_blank">Colin 27, </a></span>
<span class="fragment"><a href="http://www.bic.mni.mcgill.ca/ServicesAtlases/MNI305" target="_blank">MNI 305, </a></span>
<span class="fragment"><a href="http://journal.frontiersin.org/article/10.3389/fnagi.2014.00149/full" target="_blank">1000 Brains, </a></span>
<span class="fragment"><a href="http://qnl.bu.edu/obart/explore/AAL/" target="_blank">AAL, </a></span>
<span class="fragment"><a href="" target="_blank">ANIMAL, </a></span>
<span class="fragment"><a href="" target="_blank">MAVAN, </a></span>
<span class="fragment"><a href="http://www.preventad.com" target="_blank">PreventAD, </a></span>
<span class="fragment"><a href="http://pingstudy.ucsd.edu" target="_blank">PING, </a></span>
<span class="fragment"><a href="http://www.bic.mni.mcgill.ca/ServicesAtlases/ICBM152Lin" target="_blank">MNI 152, </a></span>
<span class="fragment"><a href="http://www.bic.mni.mcgill.ca/ServicesAtlases/MNI305" target="_blank">MNI 305, </a></span>
<span class="fragment"><a href="http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/" target="_blank">FSL... </a></span>
</p>
<p><b><font color="green"><span class="fragment">So </span></font>
<font color="yellow"><span class="fragment">many </span></font></b>
<font color="red"><span class="fragment">datasets! </span></font>
</p>
</section>
<!-- ADNI -->
<section data-transition="zoom">
<h2>ADNI</h2>
<table class="reveal">
<tr>
<td style="vertical-align: middle">
<img src="images/ADNI_paper.png">
</td>
<td style="vertical-align: top">
<p>
<ul>
<li>Cited 343 times</li><br>
<li>Data-use agreements</li><br>
<li>Used for countless analyses</li><br>
<li>Restrictive</li><br>
</ul>
</p>
</td>
</tr></table>
</section>
<!-- NIHPD -->
<section data-transition="convex">
<img src="images/NIHPD_logo.jpg">
<table class="reveal">
<tr>
<td width="45%" style="vertical-align: middle">
<img src="images/NIHPD_paper.png">
</td>
<td width="30%" style="vertical-align: middle">
<img src="images/MRI_images_several.jpg">
</td>
<td width="30%" style="vertical-align: top">
<ul><small>
<li>Cited 295 times</li>
<li>Control data for NDAR</li>
<li>Longitudinal study (8 years)</li>
<li>532 subjects</li>
<li>8000 distinct variables</li>
<li>37000 individual assessments</li>
<li>T1, T2, PD, DTI, Spectroscopy</li>
<li>∼3TB of imaging data</li>
<li>2000 MRI acquisitions</li>
</small></ul>
</td>
</tr></table>
</section>
<!-- ABIDE example -->
<section data-transition="fade">
<table class="reveal">
<h2>ABIDE</h2>
<tr>
<td width="50%" style="vertical-align: middle">
<img src="images/ABIDE_paper.png">
</td>
<td width="50%" style="vertical-align: middle">
<img src="images/ABIDE_preprocessed.png">
</td>
</tr></table>
</section>
<!-- BigBrain example -->
<section data-transition="fade">
<table class="reveal">
<h2>BigBrain</h2>
<tr>
<td width="50%" style="vertical-align: middle">
<img src="images/BigBrain.png">
</td>
<td width="50%" style="vertical-align: middle">
<img src="images/BigBrain_paper.png">
</td>
</tr></table>
</section>
<!-- QPN -->
<section data-transition="fade">
<h2>Quebec Parkinson Network</h2>
<img src="images/QPN.png">
</section>
</section>
<section>
<!-- Tools -->
<section data-transition="convex">
<h2>Tools and Environments</h2>
<p>
<span class="fragment"><a href="https://www.incf.org" target="_blank">Neurovault, </a></span>
<span class="fragment"><a href="https://osf.io" target="_blank">NeuroSynth, </a></span>
<span class="fragment"><a href="https://www.nitrc.org" target="_blank">CIVET, </a></span>
<span class="fragment"><a href="http://alleninstitute.org" target="_blank">VIP, </a></span>
<span class="fragment"><a href="https://ndar.nih.gov" target="_blank">Boutiques, </a></span>
<span class="fragment"><a href="https://openfmri.org" target="_blank">Git-Annex, </a></span>
<span class="fragment"><a href="http://www.humanbrainmapping.org" target="_blank">SOLID, </a></span>
<span class="fragment"><a href="https://www.humanbrainproject.eu" target="_blank">BIDS, </a></span>
<span class="fragment"><a href="https://www.computecanada.ca" target="_blank">NiDM, </a></span>
<span class="fragment"><a href="https://www.maelstrom-research.org" target="_blank">DiCAT, </a></span>
<span class="fragment"><a href="http://www.ukbiobank.ac.uk" target="_blank">DCMTK, </a></span>
<span class="fragment"><a href="http://nipy.org/nipype/" target="_blank">NiPype, </a></span>
<span class="fragment"><a href="http://www.braininitiative.nih.gov" target="_blank">ITK, </a></span>
<span class="fragment"><a href="http://enigma.ini.usc.edu" target="_blank">Freesurfer, </a></span>
<span class="fragment"><a href="http://fcon_1000.projects.nitrc.org/indi/enhanced/" target="_blank">SPM, </a></span>
<span class="fragment"><a href="http://www.loni.usc.edu" target="_blank">FSL, </a></span>
<span class="fragment"><a href="http://" target="_blank">Mobile MRI, </a></span>
<span class="fragment"><a href="http://coins.mrn.org" target="_blank">1000 Brains, </a></span>
<span class="fragment"><a href="http://www.xnat.org" target="_blank">AAL, </a></span>
<span class="fragment"><a href="https://www.braincode.ca" target="_blank">BrainCode, </a></span>
<span class="fragment"><a href="https://github.com" target="_blank">GitHub, </a></span>
<span class="fragment"><a href="https://aws.amazon.com" target="_blank">Amazon Cloud, </a></span>
<span class="fragment"><a href="http://fsl.fmrib.ox.ac.uk/fsl/fslwiki/" target="_blank">FSL, </a></span>
<span class="fragment"><a href="https://ida.loni.usc.edu" target="_blank">IDA, </a></span>
<span class="fragment"><a href="http://brainvisa.info" target="_blank">BrainVisa, </a></span>
<span class="fragment"><a href="https://cmind.research.cchmc.org" target="_blank">DICOM Confidential, </a></span>
<span class="fragment"><a href="https://cmind.research.cchmc.org" target="_blank">DockerHub, </a></span>
<span class="fragment"><a href="http://www.opengatecollaboration.org" target="_blank">Gate, </a></span>
<span class="fragment"><a href="https://cmind.research.cchmc.org" target="_blank">CMIND... </a></span>
</p>
<p><b><font color="green"><span class="fragment">So </span></font>
<font color="yellow"><span class="fragment">many </span></font></b>
<font color="red"><span class="fragment">Tools! </span></font>
</section>
<!-- Neurovault -->
<section data-transition="fade">
<img src="images/Neurovault.png">
</section>
<section data-transition="fade">
<h2>Neurovault Example</h2>
<img src="images/Neurovault_example.png">
</section>
<!-- NeuroSynth-->
<section data-transition="fade">
<img src="images/NeuroSynth.png">
</section>
<!-- BrainBrowser -->
<section data-transition="fade">
<table class="reveal">
<h2><a href="https://brainbrowser.cbrain.mcgill.ca">BrainBrowser</a></h2>
<tr>
<td width="50%" style="vertical-align: middle">
<img src="images/BrainBrowser_VolumeViewer.png">
</td>
<td width="50%" style="vertical-align: middle">
<img src="images/BrainBrowser_SurfaceViewer.png">
</td>
</tr></table>
</section>
<!-- Git Annex -->
<section data-transition="fade">
<img src="images/Git_annex.png">
</section>
<!-- DiCAT -->
<section data-transition="fade">
<img src="images/DiCAT.png">
</section>
</section>
<!-- Hackathons -->
<section data-transition="fade">
<table class="reveal">
<h2><a href="">Hackathons</a></h2>
<tr>
<td width="75%" style="vertical-align: middle">
<img src="images/C-BASE.png">
</td>
<td width="25%" style="vertical-align: middle">
<p> Important value of hackathons to data sharing initiatives</p>
<img src="images/Brainhack.png">
</td>
</tr></table>
</section>
<!-- MNI ecosystem -->
<section>
<section data-transition="fade">
<img src="images/MNI_ecosystem_paper.png">
</section>
<section data-transition="fade">
<h2>LORIS - CBRAIN Data Flow</h2>
<img src="images/Data_flow.jpg">
</section>
</section>
<!-- BIG DATA -->
<section>
<!-- Big Data Curve-->
<section data-transition="zoom">
<img src="images/Big_data.png">
</section>
<!-- Types of data-->
<section data-transition="zoom">
<img src="images/Neuroinformatics_scope.jpg">
</section>
<!-- Cross Modal Data-->
<section data-transition="zoom">
<img src="images/Cross_modal.png">
</section>
<!-- Big data projects-->
<section data-transition="zoom">
<img src="images/HBP.png">
</section>
</section
<!-- LORIS -->
<section data-transition="fade">
<!-- LORIS Key features -->
<section data-transition="zoom">
<h2>LORIS - Key features</h2>
<img src="images/Key_features.png">
</section>
<!-- LORIS Dashboard -->
<section data-transition="zoom">
<h2>LORIS Dashboard</h2>
<img src="images/LORIS_dashboard.png">
</section>
<!-- LORIS globally -->
<section data-background="images/LORIS_global.png">
<h1><font color ="blue">LORIS globally</font></h1>
</section>
<!-- NIHPD -->
<section data-transition="convex">
<img src="images/NIHPD_logo.jpg">
<table class="reveal">
<tr>
<td width="45%" style="vertical-align: middle">
<img src="images/NIHPD_paper.png">
</td>
<td width="30%" style="vertical-align: middle">
<img src="images/MRI_images_several.jpg">
</td>
<td width="30%" style="vertical-align: top">
<ul><small>
<li>Cited 295 times</li>
<li>Control data for NDAR</li>
<li>Longitudinal study (8 years)</li>
<li>532 subjects</li>
<li>8000 distinct variables</li>
<li>37000 individual assessments</li>
<li>T1, T2, PD, DTI, Spectroscopy</li>
<li>∼3TB of imaging data</li>
<li>2000 MRI acquisitions</li>
</small></ul>
</td>
</tr></table>
</section>
<!-- IBIS -->
<section data-transition="convex">
<img src="images/IBIS.png">
<table class="reveal">
<tr>
<td width="45%" style="vertical-align: middle">
<img src="images/IBIS_paper.png">
</td>
<td width="30%" style="vertical-align: middle">
<img src="images/IBIS_image.png">
</td>
<td width="30%" style="vertical-align: top">
<p><small>
<ul>
<li>Autism infant brain development</li>
<li>3000+ scans</li>
<li>700+ subjects</li>
<li>7000 distinct variables</li>
<li>150,000+ individual assessments</li>
<li>T1, T2, DTI, BOLD</li>
<li>∼5 TBs imaging data</li>
<li>Genetic/biospecimen data</li>
</ul>
</small></p>
</td>
</tr></table>
</section>
<!-- CCNA -->
<section data-transition="concave">
<table class="reveal">
<h2>CCNA</h2>
<tr>
<td width="70%" style="vertical-align: top">
<img src="images/CCNA.png">
</td>
<td width="30%" style="vertical-align: top">
<p><small>
<ul>
<li>$35 million</li><br>
<li>CIHR funded</li><br>
<li>Pan Canadian Consortium</li><br>
<li>Acquisition in June, 2016</li><br>
<li>35 collections sites</li><br>
<li>LORIS powered</li><br>
</ul>
</small></p>
</td>
</tr></table>
</section>
<!-- BigBrain example -->
<section data-transition="fade">
<table class="reveal">
<h2>BigBrain</h2>
<tr>
<td width="50%" style="vertical-align: middle">
<img src="images/BigBrain.png">
</td>
<td width="50%" style="vertical-align: middle">
<img src="images/BigBrain_paper.png">
</td>
</tr></table>
</section>
<!-- OMEGA - small pilot, interest has spiked -->
<section data-transition="convex">
<table class="reveal">
<h2><a href="https://omega.bic.mni.mcgill.ca">OMEGA</a></h2>
<tr>
<td width="65%" style="vertical-align: middle">
<img src="images/OMEGA.png">
</td>
<td width="35%" style="vertical-align: middle">
<p><small>
<ul>
<li>Open MEG Archive</li><br>
<li>First open MEG repository</li><br>
<li>180 user accounts created</li><br>
<li>Associated structural data</li><br>
<li>500+ reads on academia.edu</li><br>
</ul>
</small></p>
</td>
</tr></table>
</section>
</section>
<!-- CBRAIN -->
<section>
<section>
<table class="reveal">
<h2><a href="http://www.cbrain.ca">CBRAIN</a></h2>
<tr>
<td width="35%" style="vertical-align: top">
<p><small><font color="yellow">Several default tools:</font>
<ul>
<li>CIVET</li>
<li>CivetCombiner</li>
<li>CivetQC</li>
<li>Freesurfer</li>
<li>SPM-batch</li>
<li>NIAK</li>
<li>FSL (bedpostx, bet, fast, feat, first flirt, melodic, probtrackx)</li>
<li>Numerous converters</li>
<li>And many more...</li>
</ul>
<p><a href="mailto:cbrain-support.mni@mcgill.ca">cbrain-support.mni@mcgill.ca</a></p>
</td>
<td width="65%" style="vertical-align: middle">
<img src="images/CBRAIN_paper.png">
</td>
</tr></table>
</section>
<section>
<h2>CBRAIN projects</h2>
<img src="images/CBRAIN_mainpage.png">
</section>
<section>
<h2>CBRAIN tasks</h2>
<img src="images/CBRAIN_tasks.png">
</section>
<section>
<img src="images/CBRAIN_distribution.png">
</section>
<section>
<img src="images/CBRAIN_hours.png">
</section>
<section>
<img src="images/CBRAIN_schema.png">
</section>
<section>
<h2>CIVET for neonates</h2>
<table class="reveal">
<tr>
<td width="70%" style="vertical-align: middle">
<img src="images/CIVET_processing_steps.png">
</td>
<td>
<img src="images/CIVET_cortical_thickness.png">
<img src="images/CIVET.png">
</td>
</tr></table>
</section>
</section>
<!-- MNI Open Science -->
<section data-transition="convex">
<section>
<h2>Open Science</h2>
<table class="reveal">
<tr>
<td width="50%" style="vertical-align: middle">
<img src="images/Nature_open_science.png">
</td>
<td>
<img src="images/Open_science.png">
</td></tr></table>
</section>
<section>
<img src="images/Open_science_paper.png">
</section>
<section>
<h2>Cyberinfrastructure</h2>
<img src="images/Cyberinfrastructure.png">
</section>
<section>
<h2>Cybersecurity</h2>
<img src="images/Cybersecurity.png">
</section>
<section>
<img src="images/HBHL.png">
</section>
</section>
<!-- WHAT's IN IT FOR ME? -->
<section data-transition="convex">
<section>
<h2>What's in it for me?</h2>
<p class="fragment roll-in">More citations <font size="4">(Piwowar & Vision, 2013)</font></p>
<p class="fragment roll-in">Access to larger datasets</p>
<p class="fragment roll-in">Greater exposure</p>
<p class="fragment roll-in">Validation of your data</p>
<p class="fragment roll-in">More collaborations</p>
<p class="fragment roll-in">Increased funding</p>
</section>
<section data-transition="concave">
<h2><a href="https://biobank.bic.mni.mcgill.ca" target="_blank">LORIS Biobank instance</a></h2>
<img src="images/Biobank_LORIS.png">
</section>
<section data-transition="concave">
<h2><a href="https://imaging.bic.mni.mcgill.ca" target="_blank">LORIS Imaging instance</a></h2>
<img src="images/BIC_LORIS.png">
</section>
<!-- Functionality that the Open Science initiative will provide -->
<section data-transition="concave">
<h2>Open Science Functionality</h2>
<table>
<thead>
<tr>
<th><font color="yellow">Acquisition & Storage</font></th>
<th><font color="yellow">Dissemination & Analysis</font></th>
</tr>
</thead>
<tbody>
<tr>
<td><small>Organized/Accessible data</small></td>
<td><small>Centralized repository</small></td>
</tr>
<tr>
<td><small>Long term storage</small></td>
<td><small>Provenance Capture</small></td>
</tr>
<tr>
<td><small>Quality Control mechanisms</small></td>
<td><small>API for interoperability</small></td>
</tr>
<tr>
<td><small>Web visualization</small></td>
<td><small>Consent is factored in</small></td>
</tr>
<tr>
<td><small>Tablet/Mobile Friendly</small></td>
<td><small>User account access control</small></td>
</tr>
<tr>
<td><small>Anonymized automatically</small></td>
<td><small>Completely de-identified</small></td>
</tr>
<tr>
<td><small>Cross-modal linking</small></td>
<td><small>Cross-study correlation</small></td>
</tr>
<tr>
<td><small>Online Data Querying</small></td>
<td><small>Access to high performance computing</small></td>
</tr>
</tbody>
</table>
</section>
<section>
<img src="images/ID_Schema.png">
</section>
</section>
<!-- Acknowledgemnts -->
<section data-transition="slide" data-background="#87CEEB" data-background-transition="zoom">
<table class="reveal">
<tr>
<td width="70%" style="vertical-align: top">
<img src="images/LORIS_team.png">
</td>
<td width="30%" style="vertical-align: middle">
<p>Thank you!<small><font color="blue" size="4">Acknowledgements:</font><font color="black" size="2"> Alan Evans, Alex Zijdenbos, Dario Vins, Jonathan Harlap, Matt Charlet, Andrew Corderey, Sebastian Muehlboeck, Reza Adalat, Louis Collins, Vladimir Fonov, Marc Rousseau, Mia Petkova, Rathi Gnanasekaran, David Brownlee, Tarek Sherif, Pierre Rioux, Nic Kassis, Leigh MacIntyre, Claude Lepage, Ilana Leppert, Natasha Beck, Tristan Glatard, Bert Vincent, Lindsay Lewis, Najma Mahani, Elodie Portales-Casamar, Alden Woodward, Sylvain Milot, Jean Francois Malouin, Sylvain Baillet, Daniel Kroetz, Martin Weiss, Mathieu Desrosier, Jason Karamchandani, Amit Bar-Or, Ted Fon, John Brietner, Derek Lo, Patrick Bermudez, Chris Steele, Pamela Patterson and one of my favourites: Pierre Bellec!</font></small></p>
<p><font color="blue" size="4">LORIS team on left</font> <font size="2" color="black">(special thanks to Christine Rogers for listening to me.)</font></p>
</td>
</tr></table>
</section>
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