NA-MIC National Alliance for Medical Image Computing Informatics tools & services for NA-MIC Dan Marcus Neuroinformatics Research Group.

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Presentation transcript:

NA-MIC National Alliance for Medical Image Computing Informatics tools & services for NA-MIC Dan Marcus Neuroinformatics Research Group Washington University

National Alliance for Medical Image Computing Overview 1.Introduction to the Neuroinformatics Research Group (NRG) 2.Introduction to XNAT 3.New XNAT features 4.XNAT and NA-MIC Kit 5.XNAT Central and DBPs

National Alliance for Medical Image Computing Introduction to NRG NRG  Neuroimaging Laboratories  Mallinckrodt Institute of Radiology  Washington University School of Medicine Neuroinformatics software (XNAT is our flagship product) Data & analysis centers (ADRC, BIRN, Brainscape, XNAT Central, etc.)

National Alliance for Medical Image Computing Introduction to NRG Mohana Ramaratnam, Dan Marcus, Tim Olsen, Kevin Archie, Misha Milchenko (not pictured)

National Alliance for Medical Image Computing Introduction to XNAT Informatics platform for managing biomedical imaging & related data File repository for image data Relational database for metadata and non-image measures User interface tools Auxiliary services (e.g. DICOM, FTP)

National Alliance for Medical Image Computing Introduction to XNAT XNAT 1.3 available at XNAT 1.4 beta available from CVS repository at (install instructions posted to google group XNAT 1.4 production scheduled for March release XNAT 2.0 in conceptual stage

National Alliance for Medical Image Computing Example XNAT deployments

National Alliance for Medical Image Computing Project orientation

National Alliance for Medical Image Computing Improved upload & download

National Alliance for Medical Image Computing Improved pipeline services

National Alliance for Medical Image Computing Improved user interface

National Alliance for Medical Image Computing User-defined study measures

National Alliance for Medical Image Computing XNAT and NA-MIC Kit NA-MIC needs: Improved management of ‘local’ image data Integration with Slicer and Batchmake Data sharing with collaborators

National Alliance for Medical Image Computing XNAT and NA-MIC Kit XNAT solution: Desktop XNAT that delivers basic XNAT functionality Push and pull data from ‘central’ XNAT repositories via web services Integration with Slicer and Batchmake via XCEDE XML Data sharing via lightweight web services

National Alliance for Medical Image Computing XNAT and NA-MIC Kit Osirix Local database Integration with viewer & processing

National Alliance for Medical Image Computing XNAT and NA-MIC Kit Flickr Tags Sets API

National Alliance for Medical Image Computing XNAT Central & NA-MIC DBPs Reference data Data from studies in pub. database Collaboration data Personal data

National Alliance for Medical Image Computing XNAT/NA-MIC bliss Please seek us out for discussion!

National Alliance for Medical Image Computing

Recap of MGH contributions QDEC: GUI for group analysis of Freesurfer-processed subject data Combined volumetric and surface (CVS) registration

National Alliance for Medical Image Computing QDEC GUI for group analysis “Does the correlation between cortical thickness and age differ from zero?”

National Alliance for Medical Image Computing CVS registration Surface-based (2D) registration aligns cortical folds, but doesn’t apply to non- cortical structures. Volumetric (3D) registration applies to the entire brain but doesn’t align cortical folds. Solution: integrate them! Template FLIRT HAMMER CVS

National Alliance for Medical Image Computing XNAT 1.x: Three tiers Engine Database Clients

National Alliance for Medical Image Computing XNAT 1.x: Three tiers Engine Database ClientsWeb application

National Alliance for Medical Image Computing XNAT 1.x: Three tiers Engine Database Clients Web application

National Alliance for Medical Image Computing XNAT 2.0: Service orientation XNAT Services Meta- data PipelineFileTagsSecurity

National Alliance for Medical Image Computing XNAT 2.0: Service orientation XNAT Services Meta- data PipelineFileTagsSecurity

National Alliance for Medical Image Computing XNAT 2.0: Service orientation XNAT Services Meta- data PipelineFileTagsSecurity XNAT Applications WebDesktop Cmd. line

National Alliance for Medical Image Computing XNAT 2.0: Service orientation XNAT Services Meta- data PipelineFileTagsSecurity XNAT Applications WebDesktop Cmd. line Non-XNAT Apps

National Alliance for Medical Image Computing Advantages of SOA Componentized Deployment flexibility Agility Better interoperability Federation