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NA-MIC National Alliance for Medical Image Computing http://na-mic.org Core 1b – Engineering Data Management Stephen R. Aylward Kitware, Inc.
NA-MICNational Alliance for Medical Image Computing http://na-mic.org
Core 1b – Engineering
Data Management
Stephen R. Aylward
Kitware, Inc.
National Alliance for Medical Image Computing http://na-mic.org
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Core 1b – Engineering5 Aims / 5 Platforms
Architecture – tools, operating paradigms, reporting mechanisms, integration points
End-user platform – interactive methods and information visualization for longitudinal analysis, exploratory data analysis, and translational research
Computational platform – stream processing, cloud computing, statistical analysis, informatics, machine learning
Data management – non-imaging and derived data, DICOM and cloud services
Software engineering and software quality – navigable timeline for revision control, build, test, documentation and release
National Alliance for Medical Image Computing http://na-mic.org
Data Management
• Key, bi-directional link between clinicians and researchers
• Foundational to transitioning algorithms from research to clinical practice
• Essential to quantitative comparison of algorithms
• January 2011, AHM– 11 projects emphasizing data management
• Registration Case Library• MRML XML Schema• XNAT for Non-Image Data• DICOM-RT
National Alliance for Medical Image Computing http://na-mic.org
Data Management
• Driving Biological Problems– Data Management challenges: Transfer, Archive, Clinical
Interpretation, and Reporting (DICOM)
• Algorithms Team– Aim 1: Statistical models of anatomy and pathology
– Aim 4: Longitudinal and Time-Series Analysis
– Milestones: Validation, Optimization, Atlases, Priors
National Alliance for Medical Image Computing http://na-mic.org
Success = Challenge
National Alliance for Medical Image Computing http://na-mic.org
Data Management Technology
VTK: InfoVis
National Alliance for Medical Image Computing http://na-mic.org
• The Extensible Neuroimaging Archive Toolkit (XNAT)– Management and exploration of neuroimaging and related
data.– Secure database backend– Rich web-based user
interface– XNAT 1.4– XNAT Desktop (XND)
• What’s next:– XNAT for Non-Image Data– Slicer4: FetchMI
National Alliance for Medical Image Computing http://na-mic.org
• MIDAS in-use– Insight Journal– NA-MIC: PubDB– RIRE Project– Optical Society of America:
Interactive Scientific Publication– Give-a-scan:
Patient-created lung CT database
• What’s Next– Slicer Testing (BrainsFit Data: Uiowa, Kitware)– Server-Side Processing for Algorithm Validation
• ITK A2D2: Score and Score++ (Kitware, Utah, BWH)• NIH R01: CoValic (Kitware, Utah)• NIH SBIR: High-Throughput Small Animal Imaging (NAMIC-Kit, Kitware, UNC)
– Slicer4: FetchMI
National Alliance for Medical Image Computing http://na-mic.org
3DSlicer
CTKCommon Toolkit
VTK, QT, DCMTK,DICOM Services (XIP)
ITKv4DICOM Objects and NetworkingGDCM, DCMTK, Validation
DCMTK286,000 Lines76 Person Years$4.2M (Ohloh)
National Alliance for Medical Image Computing http://na-mic.org
Non-Image Data: MRML & Informatics
Figures from Titan presentation at VisWeek 2008
Database
vtkSQLDatabase
vtkTable
vtkTable
vtkTable
vtkTable
Datastructures Datasources
Visualizations and Algorithms
vtkSQLQuery
vtkSQLQuery
vtkSQLQuery
vtkSQLQuery
National Alliance for Medical Image Computing http://na-mic.org
Data Management Technology
VTK: InfoVis
National Alliance for Medical Image Computing http://na-mic.org
1 4
2
5
3
Core 1b – Engineering5 Aims / 5 Platforms
Architecture – tools, operating paradigms, reporting mechanisms, integration points
End-user platform – interactive methods and information visualization for longitudinal analysis, exploratory data analysis, and translational research
Computational platform – stream processing, cloud computing, statistical analysis, informatics, machine learning
Data management – non-imaging and derived data, DICOM and cloud services
Software engineering and software quality – navigable timeline for revision control, build, test, documentation and release
