Providing the cardiovascular community with rich web interfaces to integrate cardiovascular tools, data and analysis Stephen J. Granite, MS, MBA CVRG Program Manager NHLBI R24-HL

Data Management Needs of the Cardiovascular (CV) Community CV-specific ontologies for describing data and data collection protocols –Must address unique CV data types Time-evolving electrophysiology (EP), electrocardiogram (ECG), and multi-modal image data Software tools for managing diverse types of CV data –Must be well documented, easy to install/use, secure, and work out of the box Ability to query multiple data sources located and maintained at different sites –Project design often requires that specific types of data be collected and managed at different sites (e.g., MR Reading Centers, ECG Reading Centers, etc)

The CVRG Project Mission: Serve the needs of basic and clinical cardiovascular researchers by providing seamless, customized, secure access to study datasets and analysis tools Team: Institute for Computational MedicineInstitute for Computational Medicine, Johns Hopkins University (Winslow, Miller) Image LabImage Lab, Wake Forest University (Carr, Ge) Center for Comprehensive InformaticsCenter for Comprehensive Informatics, Emory University (Saltz, Post) Computation InstituteComputation Institute, University of Chicago (Foster, Madduri)

The CVRG Approach to Technology Development Don’t re-invent the wheel –When possible, re-use or extend software components from National Center for Biomedical Computing (NCBC) & other open- source projects (e.g., i2b2, Globus Online, etc.) –Form collaborations to develop new software components Address the special needs of the CV community –Time-evolving imagery –ECG and EP data –CV-specific vocabularies –Integration of multi-scale data sets –Specific data analysis workflows Let the CV community drive technology development

NHLBI-FUNDED Studies Multi-Ethnic Study of Atherosclerosis Coronary Artery Disease Risk in Young Adults Minority Health Grid Jackson Heart Pediatric Heart Network

ECG Tool Initial Design/Workflow Physionet Workflow Reynolds Workflow Data Storage Services Norav ECG Data (RDT) Physionet ECG Data (WFDB – header, data) Physionet ECG Data (WFDB – header, data) ECG Data Analytical Services ECG Analysis Parameters Analysis Results Services RDT -> HL7aECG WFDB ECG Data Reynolds ECG Analysis Algorithms Physionet ECG Analysis Algorithms Results Metadata XML

CVRG Web Interfaces: Initial Approach Alpha CVRG Portal leveraged caGrid Portal and Web Single Sign-On (WebSSO) –caGrid Portal built upon Liferay 4.1 open-source Portal Server –caGrid WebSSO used Java Architectures Special Interest Group Central Authentication Service (JA-SIG CAS) Portlets implemented: –Beta Signup –ECG Storage/Analysis Workflow (end-to-end for both workflows) –Imaging Storage & Analysis –Heart shape and motion analysis –ProteinDB utilization Beta Signup/ECG Workflow Demo

Initial Approach Lessons Learned Portal (e.g., Liferay 4.1) –All the work is done on the server –Changing the tabs requires a web browser refresh Resets the portlet displayed so data entry starts all over again New requirements appeared during development –Need to dynamically display and annotate an ECG –Dynamic refresh of portlets themselves difficult Ability to display an embedded scrolling graph next to impossible –Call to tools outside of a portlet required extensions to Liferay itself Portal environment customization should be minimized

Investigation of Web 2.0 Web 2.0 interfaces/tools –Work can be divided between the server & web browser –Components can be placed in web pages or executed standalone, making changes dynamic Yahoo User Interface (YUI) –Open-source JavaScript library –Used by i2b2 in Web Client Google Web Toolkit & API Library (GWT) –Open-source Java project with plugin for Eclipse Allows Java developers to produce rich JavaScript tools without knowledge of syntax –Used by LabKey & WebProtege

WFDB, HL7aECG RDT, GE MUSE ECG Tool Revised Design/Workflow

CVRG Web Interfaces: Revised Approach Prototype ECG Gadget (renamed ECGrid Toolkit) –Built using GWT & Google Visualization API –Can exist in a portal, a web page, a dashboard, a flash drive and/or a handheld device (e.g., iPhone) Expanded avenues of tool access, “putting it in the users’ hands” Functions on multiple platforms and multiple browsers Functionality implemented: –Integrated the ECG workflows into one unified workflow Accepts multiple ECG formats stores in Physionet’s WaveForm DataBase (WFDB) format –Extended the capability of scrolling ECG visualization Allows for annotation within the waveform, using National Center for Biomedical Ontology (NCBO) REST Services real-time Prototype ECGrid Toolkit Demo

Revised Approach Lessons Learned Web 2.0 applications are more dynamic –Flexibility in deployment require development of authorization/authentication components as well Portal/Web 2.0 combination maximizes strengths/minimizes weaknesses –Portal serves as an interface access point Allows addition/removal of interfaces without a portal reboot –Interfaces can be run on servers separate from the portal Appear centralized when they actually are distributed

Current CVRG Web Interfaces XNAT-CVI ECGrid Toolkit Galaxy Web Data Services (JHU Cloud) MR/CT/US Analyses Web Analysis Services (Amazon EC2 & JHU Cloud) ECG Analyses Ontology (RESTful Web Service) BioPortalal CVRG Portal Web-Browser Software as a Service

Live Demonstration CVRG Demonstration Portal –Galaxy –eXtensible NeuroImaging Toolkit – CV Imaging (XNAT-CVI) –ECGrid Toolkit CVRG website -> Portal –

Future Development In Process –Integration of NSF Cybersecurity Infrastructure Logon (CILogon) into CVRG Portal Alternative Shibboleth method developed using Johns Hopkins Enterprise Authentication (for testing purposes) –Deployment of Survey portlet for user feedback on CVRG tools Planned –Healthy Heart Imaging cohort to be made available to the community for clinical trial controls via XNAT-CVI instance at Wake Forest ECGs corresponding to Image datasets to be made available via ECGrid Toolkit at Johns Hopkins –ECG analysis services to be made available via Galaxy, to demonstrate workflow sharing and re-use

Web References CVRG - JHU Institute for Computational Medicine – Wake Forest University Image Lab – Emory University Center for Comprehensive Informatics – University of Chicago Computation Institute - Liferay – JA-SIG CAS - YUI - i2b2 Web Client - GWT - LabKey - WebProtege - NCBO Bioportal – Physionet – CILogon -

Acknowledgements Johns Hopkins University Michael Miller Raimond Winslow Laurent Younes Siamak Ardekani Stephen Granite David Hopkins Kyle Reynolds Michael Shipway Christian Jurado Emory University Joel Saltz Andrew Post Tahsin Kurc Richard Willard Himanshu Rathod Wake Forest University J. Jeffrey Carr Yaorong Ge Ricardo Peral NHLBI R24 HL NHLBI Jennifer Larkin University of Chicago Ian Foster Ravi Madduri Liu Bo