Difference between revisions of "2012 Progress Report Science Wiki Version"

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| style="width:60%" | Title, comments  
 
| style="width:60%" | Title, comments  
 
|-
 
|-
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| style="background:#ffffdd; color:black" align="center"|OVERVIEW
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| style="background:#ffffdd; color:black" align="center"|1. INTRODUCTION
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| style="background:#c4f4af; color:black"|Ron
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| style="background:#c4f4af; color:black"|Ann
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| style="background:#fff6a6; color:black"|Includes a 1-page summary of Research Progress from each TRD for the complete funding cycle (June 1, 2008 - May 31, 2012).
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| style="background:#fff6a6; color:black"|Update Figure 1-1. Geo-anatomical Map of NA-MIC Collaborations.
 +
|-
 +
| style="background:#ffffdd; color:black" align="center"|2. HIGHLIGHTS
 +
| style="background:#c4f4af; color:black"|Jim Miller
 +
| style="background:#fff6a6; color:black"|2.1 Algorithms, 2.2 Engineering, 2.3 NA-MIC Kit.
 
|-
 
|-
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| style="background:#ffffdd; color:black" align="center"|TECHNOLOGY RESEARCH & DEVELOPMENT
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| style="background:#ffffdd; color:black" align="center"|3. IMPACT AND VALUE TO BIOCOMPUTING
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| style="background:#c4f4af; color:black"|4 CORES
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| style="background:#c4f4af; color:black"|Jim Miller
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| style="background:#fff6a6; color:black"|
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| style="background:#fff6a6; color:black"|3.1 Impact within the Center, 3.2 Impact within NIH-Funded Research, 3.3 National and International Impact
 
|-
 
|-
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| style="background:#ffffdd; color:black" align="center"|TRD 1
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| style="background:#ffffdd; color:black" align="center"|4. DRIVING BIOLOGICAL PROJECTS
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| style="background:#c4f4af; color:black"|CF
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| style="background:#c4f4af; color:black"|DBP PIs
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| style="background:#fff6a6; color:black"|Microstructure Imaging
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| style="background:#fff6a6; color:black"|  
 
|-
 
|-
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| style="background:#ffffdd; color:black" align="center"|TRD 2
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| style="background:#ffffdd; color:black" align="center"|4.1 Atrial Fibrillation
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| style="background:#c4f4af; color:black"|Sandy
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| style="background:#c4f4af; color:black"|Rob MacLeod
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| style="background:#fff6a6; color:black"|Spatio-Temporal Disease Modeling
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| style="background:#fff6a6; color:black"|4.1.1 Introduction, 4.1.2 Research Progress Report, 4.1.3 Plans for the Coming Year, 4.1.4 Papers that Acknowledge NA-MIC
 
|-
 
|-
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| style="background:#ffffdd; color:black" align="center"|TRD 3
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| style="background:#ffffdd; color:black" align="center"|4.2 Huntington's Disease
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| style="background:#c4f4af; color:black"|Polina
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| style="background:#c4f4af; color:black"|Hans Johnson
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| style="background:#fff6a6; color:black"|Anatomical Variability
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| style="background:#fff6a6; color:black"|4.2.1 Introduction, 4.2.2 Research Progress Report, 4.2.3 Plans for the Coming Year, 4.2.4 Papers that Acknowledge NA-MIC
 
|-
 
|-
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| style="background:#ffffdd; color:black" align="center"|TRD 4
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| style="background:#ffffdd; color:black" align="center"|4.3 Adaptive Radiotherapy for Head and Neck Cancer
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| style="background:#c4f4af; color:black"|Steve
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| style="background:#c4f4af; color:black"|Gregory C. Sharp
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| style="background:#fff6a6; color:black"|Slicer Core
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| style="background:#fff6a6; color:black"|4.3.1 Introduction, 4.3.2 Research Progress Report, 4.3.3 Plans for the Coming Year, 4.3.4 Papers that Acknowledge NA-MIC
 
|-
 
|-
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| style="background:#ffffdd; color:black" align="center"|INFRASTRUCTURE
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| style="background:#ffffdd; color:black" align="center"|4.4 Traumatic Brain Injury
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| style="background:#c4f4af; color:black"|Mike
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| style="background:#c4f4af; color:black"|Jack Van Horn
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| style="background:#fff6a6; color:black"|Atlas Management Tools
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| style="background:#fff6a6; color:black"|4.4.1 Introduction, 4.4.2 Research Progress Report, 4.4.3 Plans for the Coming Year, 4.4.4 Papers that Acknowledge NA-MIC
 
|-
 
|-
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| style="background:#ffffdd; color:black" align="center"|DRIVING BIOMEDICAL PROJECTS
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| style="background:#ffffdd; color:black" align="center"|5. COMPUTER SCIENCE CORE
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| style="background:#c4f4af; color:black"|1 per TRD
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| style="background:#c4f4af; color:black"|Ross Whitaker
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| style="background:#fff6a6; color:black"|
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| style="background:#fff6a6; color:black"|Brief Overview<br>
 
|-
 
|-
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| style="background:#ffffdd; color:black" align="center"|DBP 1
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| style="background:#ffffdd; color:black" align="center"|5.1 Algorithms
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| style="background:#c4f4af; color:black"|CF
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| style="background:#c4f4af; color:black"|Martin Styner, Polina Golland
−
| style="background:#fff6a6; color:black"|R01 "Chronic Traumatic Encephalopathy" (Repetitive brain injury), Martha Shenton, Alex Lin, Robert Stern (R01 PI)<br>
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| style="background:#c4f4af; color:black"|5.1.1 RESEARCH PROGRESS REPORT
 +
| style="background:#fff6a6; color:black"|A Statistical Models of Anatomy and Pathology, A.1 Nonparametric Priors for Segmentation, A.2 Latent Priors for Segmentation, A.3 Left Atrium Segmentation<br>
 +
| style="background:#fff6a6; color:black"|B Geometric Correspondence
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| style="background:#fff6a6; color:black"|C User Interactive Segmentation
 +
| style="background:#fff6a6; color:black"|D Longitudinal and Time Series Analysis
 +
| style="background:#fff6a6; color:black"|5.1.2 PLANS FOR THE COMING YEAR (BY SPECIFIC AIM)
 +
| style="background:#fff6a6; color:black"|5.1.3 PAPERS THAT ACKNOWLEDGE NA-MIC
 
|-
 
|-
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| style="background:#ffffdd; color:black" align="center"|DBP 2
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| style="background:#ffffdd; color:black" align="center"|5.2 Engineering
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| style="background:#c4f4af; color:black"|Sandy
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| style="background:#c4f4af; color:black"|Will Schreoder, Steven Aylward, Steve Pieper, Jim Miller
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| style="background:#fff6a6; color:black"|TMARC, Greg Brown Center Grant UCSD Meth and AIDS<br>
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| style="background:#c4f4af; color:black"|5.2.1 RESEARCH PROGRESS REPORT
 +
| style="background:#fff6a6; color:black"|A Interactive tools, Data collections and Clinical Workflows, Dissemination and cross-platform support, quality software: Qt and GUI testing<br>
 +
| style="background:#fff6a6; color:black"|B NA-MIC Kit, Expansion and Release
 +
| style="background:#fff6a6; color:black"|5.2.2. PLANS FOR THE COMING YEAR
 +
| style="background:#fff6a6; color:black"|5.2.3 PAPERS THAT ACKNOWLEDGE NA-MIC
 
|-
 
|-
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| style="background:#ffffdd; color:black" align="center"|DBP 3
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| style="background:#ffffdd; color:black" align="center"|6. ARRA SUPPLEMENT
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| style="background:#c4f4af; color:black"|Polina
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| style="background:#c4f4af; color:black"|
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| style="background:#fff6a6; color:black"| R01: Software tools for Automated Modeling of WM Fascicles from Diffusion MRI, PI: B. Fischl <br>
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| style="background:#fff6a6; color:black"|6.1 Summary of Funded Activity<br>
 
|-
 
|-
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| style="background:#ffffdd; color:black" align="center"|DBP 4
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| style="background:#ffffdd; color:black" align="center"|7. NA-MIC PUBLICATIONS
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| style="background:#c4f4af; color:black"|Steve
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| style="background:#c4f4af; color:black"|Marianna
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| style="background:#fff6a6; color:black"|NCIGT<br>
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| style="background:#fff6a6; color:black"|<br>
 
|-
 
|-
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| style="background:#ffffdd; color:black" align="center"|COLLABORATION & SERVICE PROJECTS
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| style="background:#ffffdd; color:black" align="center"|8. External Advisory Board (EAB) Report
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| style="background:#c4f4af; color:black"|2 per TRD
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| style="background:#c4f4af; color:black"|Bill Lorensen
 
| style="background:#fff6a6; color:black"|
 
| style="background:#fff6a6; color:black"|
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|-
 
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| style="background:#ffffdd; color:black" align="center"|Collaboration and Service 1
 
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| style="background:#c4f4af; color:black"|CF
 
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| style="background:#fff6a6; color:black"| [http://intrust.spl.harvard.edu/ INTRUST], [http://intrust.spl.harvard.edu/INTRUSTWiki/index.php/Projects/INTRUSTWeb:PTSD-TBI wiki]
 
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|-
 
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| style="background:#ffffdd; color:black" align="center"|Collaboration and Service 2
 
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| style="background:#c4f4af; color:black"|CF
 
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| style="background:#fff6a6; color:black"| [http://www.na-mic.org/ NAMIC]
 
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|-
 
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| style="background:#ffffdd; color:black" align="center"|Collaboration and Service 1
 
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| style="background:#c4f4af; color:black"|Sandy
 
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| style="background:#fff6a6; color:black"|Each TRD PI will identify two C&S projects
 
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|-
 
−
| style="background:#ffffdd; color:black" align="center"|Collaboration and Service 2
 
−
| style="background:#c4f4af; color:black"|Sandy
 
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| style="background:#fff6a6; color:black"|Each TRD PI will identify two C&S projects
 
−
|-
 
−
| style="background:#ffffdd; color:black" align="center"|Collaboration and Service 1
 
−
| style="background:#c4f4af; color:black"|Polina
 
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| style="background:#fff6a6; color:black"|MGH P41, PI: B. Rosen
 
−
|-
 
−
| style="background:#ffffdd; color:black" align="center"|Collaboration and Service 2
 
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| style="background:#c4f4af; color:black"|Polina
 
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| style="background:#fff6a6; color:black"|NCIGT
 
−
|-
 
−
| style="background:#ffffdd; color:black" align="center"|Collaboration and Service 1
 
−
| style="background:#c4f4af; color:black"|Steve
 
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| style="background:#fff6a6; color:black"|OCAIRO/SPARKit (Gabor: radio therapy platform)
 
−
|-
 
−
| style="background:#ffffdd; color:black" align="center"|Collaboration and Service 2
 
−
| style="background:#c4f4af; color:black"|Steve
 
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| style="background:#fff6a6; color:black"|QIN (Andrey/Fiona: prostate analysis)
 
−
|-
 
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| style="background:#ffffdd; color:black" align="center"|Training
 
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| style="background:#c4f4af; color:black"|Sonia
 
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| style="background:#fff6a6; color:black"|This is the training component.
 
−
|-
 
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| style="background:#ffffdd; color:black" align="center"|Dissemination
 
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| style="background:#c4f4af; color:black"|Sonia
 
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| style="background:#fff6a6; color:black"|This is the Dissemination component.
 
−
|-
 
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| style="background:#ffffdd; color:black" align="center"|Resources and Facilities
 
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| style="background:#c4f4af; color:black"|Mike
 
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| style="background:#fff6a6; color:black"|including a description of the new IT architecture
 
−
|-
 
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| style="background:#ffffdd; color:black" align="center"|Adminstration
 
−
| style="background:#c4f4af; color:black"|Ann
 
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| style="background:#fff6a6; color:black"|This is the Administration section overview. Input from Sanjay, Rachana
 
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|-
 
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| style="background:#ffffdd; color:black" align="center"|Adminstration TRD 1
 
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| style="background:#c4f4af; color:black"|CF
 
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| style="background:#fff6a6; color:black"|Budget, budget justification, identify key personnel.
 
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|-
 
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| style="background:#ffffdd; color:black" align="center"|Adminstration TRD 2
 
−
| style="background:#c4f4af; color:black"|Sandy
 
−
| style="background:#fff6a6; color:black"|Budget, budget justification, identify key personnel.
 
−
|-
 
−
| style="background:#ffffdd; color:black" align="center"|Adminstration TRD 3
 
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| style="background:#c4f4af; color:black"|Polina
 
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| style="background:#fff6a6; color:black"|Budget, budget justification, identify key personnel.
 
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|-
 
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| style="background:#ffffdd; color:black" align="center"|Adminstration TRD 4
 
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| style="background:#c4f4af; color:black"|Steve
 
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| style="background:#fff6a6; color:black"|Budget, budget justification, identify key personnel.
 
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|-
 
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| style="background:#ffffdd; color:black" align="center"|Adminstration Infrastructure
 
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| style="background:#c4f4af; color:black"|Mike
 
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| style="background:#fff6a6; color:black"|Budget, budget justification, identify key personnel.
 
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|-
 
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| style="background:#ffffdd; color:black" align="center"|Adminstration Outreach
 
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| style="background:#c4f4af; color:black"|Sanjay
 
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| style="background:#fff6a6; color:black"|Budget, budget justification, identify key personnel.
 
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|-
 
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| style="background:#ffffdd; color:black" align="center"|Organizational Structure and Staff Responsibilities
 
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| style="background:#c4f4af; color:black"|Ann
 
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| style="background:#fff6a6; color:black"|2 pages
 
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|-
 
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| style="background:#ffffdd; color:black" align="center"|Resource Operating Procedures
 
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| style="background:#c4f4af; color:black"|Ann
 
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| style="background:#fff6a6; color:black"|2 pages
 
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|-
 
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| style="background:#ffffdd; color:black" align="center"|External Advisory Committee
 
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| style="background:#c4f4af; color:black"|Ann
 
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| style="background:#fff6a6; color:black"|2 pages
 
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|}
 

Revision as of 17:44, 31 March 2012

Home < 2012 Progress Report Science Wiki Version

This is where the outline for the 2012 scientific report for NA-MIC goes in. Ann will provide this outline by 4/1.

Assignments: Short version

Reload the page to reset the table

Task Owner Title, comments
1. INTRODUCTION Ann Update Figure 1-1. Geo-anatomical Map of NA-MIC Collaborations.
2. HIGHLIGHTS Jim Miller 2.1 Algorithms, 2.2 Engineering, 2.3 NA-MIC Kit.
3. IMPACT AND VALUE TO BIOCOMPUTING Jim Miller 3.1 Impact within the Center, 3.2 Impact within NIH-Funded Research, 3.3 National and International Impact
4. DRIVING BIOLOGICAL PROJECTS DBP PIs
4.1 Atrial Fibrillation Rob MacLeod 4.1.1 Introduction, 4.1.2 Research Progress Report, 4.1.3 Plans for the Coming Year, 4.1.4 Papers that Acknowledge NA-MIC
4.2 Huntington's Disease Hans Johnson 4.2.1 Introduction, 4.2.2 Research Progress Report, 4.2.3 Plans for the Coming Year, 4.2.4 Papers that Acknowledge NA-MIC
4.3 Adaptive Radiotherapy for Head and Neck Cancer Gregory C. Sharp 4.3.1 Introduction, 4.3.2 Research Progress Report, 4.3.3 Plans for the Coming Year, 4.3.4 Papers that Acknowledge NA-MIC
4.4 Traumatic Brain Injury Jack Van Horn 4.4.1 Introduction, 4.4.2 Research Progress Report, 4.4.3 Plans for the Coming Year, 4.4.4 Papers that Acknowledge NA-MIC
5. COMPUTER SCIENCE CORE Ross Whitaker Brief Overview
5.1 Algorithms Martin Styner, Polina Golland 5.1.1 RESEARCH PROGRESS REPORT A Statistical Models of Anatomy and Pathology, A.1 Nonparametric Priors for Segmentation, A.2 Latent Priors for Segmentation, A.3 Left Atrium Segmentation
 B Geometric Correspondence C User Interactive Segmentation D Longitudinal and Time Series Analysis 5.1.2 PLANS FOR THE COMING YEAR (BY SPECIFIC AIM) 5.1.3 PAPERS THAT ACKNOWLEDGE NA-MIC
5.2 Engineering Will Schreoder, Steven Aylward, Steve Pieper, Jim Miller 5.2.1 RESEARCH PROGRESS REPORT A Interactive tools, Data collections and Clinical Workflows, Dissemination and cross-platform support, quality software: Qt and GUI testing
 B NA-MIC Kit, Expansion and Release 5.2.2. PLANS FOR THE COMING YEAR 5.2.3 PAPERS THAT ACKNOWLEDGE NA-MIC
6. ARRA SUPPLEMENT 6.1 Summary of Funded Activity
7. NA-MIC PUBLICATIONS Marianna
8. External Advisory Board (EAB) Report Bill Lorensen
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