NA-MIC National Alliance for Medical Image Computing Core 1b – Engineering Data Management Daniel Marcus Washington University.

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Presentation transcript:

NA-MIC National Alliance for Medical Image Computing Core 1b – Engineering Data Management Daniel Marcus Washington University

National Alliance for Medical Image Computing Data Management Key component of clinical research –e.g. Huntington’s Disease DBP Protects integrity of data Enables collaboration and data sharing –e.g. Insight repository Enables integration with clinical workflows –e.g. DICOM

National Alliance for Medical Image Computing Data Management Platform

National Alliance for Medical Image Computing DICOM in Slicer 4 –Query, Send, Database Adding support for scenes Built on dcm-tk

National Alliance for Medical Image Computing Midas Provides online file storage and management. Release 3.2 Easier installation (click and configure) Support for PgSQL, MySQL and other common databases Improved user interface & search system Based on Zend PHP Framework New plugins mechanism for modularization Tightly integrated with NA-MIC software processes Hosting testing data for ITK, VTK, and select Slicer Modules CMake has built-in commands for fetching its data Hosting downloads and extensions Receives binaries, packages, and data from client dashboard machines

National Alliance for Medical Image Computing Midas: Roadmap for 2012 Federation of data between instances Better DICOM protocol support Improved client libraries Support for unstructured metadata with MongoDB Improved visualization with WebGL –Save a scene in Slicer and view it on the web!

National Alliance for Medical Image Computing Manages imaging-centric research workflows Secure database backend Rich web-based user interface Comprehensive RESTful API What’s next: –Slicer4 integration

National Alliance for Medical Image Computing DBP: Huntington’s Disease Longitudinal, multi-site study Imaging, clinical, behavioral, genetic, etc. XNAT services –Image upload –Quality control –Data integration –Data distribution –Anonymization –Pipelines (pyxnat, nipype) Current status –30+ sites –~4,000 imaging sessions –5.3 TB of data

National Alliance for Medical Image Computing DICOM Integration with XNAT Gateway Non-secure (no encryption) Secure (encrypted)

National Alliance for Medical Image Computing Direct Integration with Slicer Goal: Data exchange of between Slicer and XNAT –Bi-directional –File-format agnostic (DICOM, NIFTI, NRRD, MRML) –Glorious user experience Approach: Leverage existing capabilities. –Qt’s browser widget –XNAT’s RESTful API Current status: –Slicer 4 & XNAT API are rockin’ –UI is in development

National Alliance for Medical Image Computing XNAT REST API Full programmatic access to XNAT data and services. –Hierarchical access –Search –Pipelines Some examples:

View Only Scene Files