Difference between revisions of "NA-MIC External Collaborations"

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|[[NA-MIC_NCBC_Collaboration:Automated_FE_Mesh_Development|PAR-05-063: R01EB005973 Automated FE Mesh Development]] <br>
 
|[[NA-MIC_NCBC_Collaboration:Automated_FE_Mesh_Development|PAR-05-063: R01EB005973 Automated FE Mesh Development]] <br>
 
This project is funded under an NCBC collaboration grant to PIs Nicole Grosland and Vincent Magnotta at UIowa. The goal of this project is to integrate and expand methods to automate the development of specimen- / patient-specific finite element (FE) models into the [[NA-MIC-Kit|NA-MIC kit]]. [[NA-MIC_NCBC_Collaboration:Automated_FE_Mesh_Development|More...]]
 
This project is funded under an NCBC collaboration grant to PIs Nicole Grosland and Vincent Magnotta at UIowa. The goal of this project is to integrate and expand methods to automate the development of specimen- / patient-specific finite element (FE) models into the [[NA-MIC-Kit|NA-MIC kit]]. [[NA-MIC_NCBC_Collaboration:Automated_FE_Mesh_Development|More...]]
 
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|[[Image:NhpATOCPic.jpg|200px]]
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|[[NA-MIC_NCBC_Collaboration:Measuring_Alcohol_and_Stress_Interaction|PAR-07-249: R01AA016748 Measuring Alcohol and Stress Interaction with Structural and Perfusion MRI]]<br>This project is funded under an NCBC collaboration grant to PIs James Daunais, Robert Kraft, and Chris Wyatt.  The goal of this project is to examine the the effects of chronic alcohol self- administration on brain structure and function the monkey brain. MRI image analysis tools from the  [[NA-MIC-Kit|NA-MIC kit]] will be adapted for use with the monkey brain datasets. [[NA-MIC_NCBC_Collaboration:Measuring_Alcohol_and_Stress_Interaction|More...]]
 
|[[NA-MIC_NCBC_Collaboration:Measuring_Alcohol_and_Stress_Interaction|PAR-07-249: R01AA016748 Measuring Alcohol and Stress Interaction with Structural and Perfusion MRI]]<br>This project is funded under an NCBC collaboration grant to PIs James Daunais, Robert Kraft, and Chris Wyatt.  The goal of this project is to examine the the effects of chronic alcohol self- administration on brain structure and function the monkey brain. MRI image analysis tools from the  [[NA-MIC-Kit|NA-MIC kit]] will be adapted for use with the monkey brain datasets. [[NA-MIC_NCBC_Collaboration:Measuring_Alcohol_and_Stress_Interaction|More...]]
 
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| [[Image:LiverRFAPhantom.png|200px]]
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| [[Image:LiverRFAPhantom.png|216px]]
 
| [[NA-MIC_NCBC_Collaboration:An Integrated System for Image-Guided Radiofrequency Ablation of Liver Tumors|PAR-05-063: R01CA124377 An Integrated System for Image-Guided Radiofrequency Ablation of Liver Tumors]]<br>This project is funded under an NCBC collaboration grant to PI Kevin Cleary at Georgetown University. The goal of this project is to develop and validate an integrated system based on open source software for improved visualization and probe placement during radiofrequency ablation (RFA) of liver tumors.[[NA-MIC_NCBC_Collaboration:An Integrated System for Image-Guided Radiofrequency Ablation of Liver Tumors|More...]]
 
| [[NA-MIC_NCBC_Collaboration:An Integrated System for Image-Guided Radiofrequency Ablation of Liver Tumors|PAR-05-063: R01CA124377 An Integrated System for Image-Guided Radiofrequency Ablation of Liver Tumors]]<br>This project is funded under an NCBC collaboration grant to PI Kevin Cleary at Georgetown University. The goal of this project is to develop and validate an integrated system based on open source software for improved visualization and probe placement during radiofrequency ablation (RFA) of liver tumors.[[NA-MIC_NCBC_Collaboration:An Integrated System for Image-Guided Radiofrequency Ablation of Liver Tumors|More...]]
 
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This project is funded under an NCBC collaboration grant to PI Dinggang Shen at UNC-Chapel Hill. The goal of this project is to develop and widely distribute a software package for robust measurement of brain structures in MR images using computational neuroanatomy methods.[[NA-MIC_NCBC_Collaboration:Development and Dissemination of Robust Brain MRI Measurement Tools|More...]]
 
This project is funded under an NCBC collaboration grant to PI Dinggang Shen at UNC-Chapel Hill. The goal of this project is to develop and widely distribute a software package for robust measurement of brain structures in MR images using computational neuroanatomy methods.[[NA-MIC_NCBC_Collaboration:Development and Dissemination of Robust Brain MRI Measurement Tools|More...]]
 
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|[[Image:Virtual Colonoscopy Auto Detection - Yoshida.png|200px]]
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|[[Image:Virtual Colonoscopy Auto Detection - Yoshida.png|216px]]
 
|[[NA-MIC_NCBC_Collaboration:NA-MIC virtual colonoscopy|PAR-07-249: R01CA131718 NA-MIC Virtual Colonoscopy]]<br>This project is funded under an NCBC collaboration grant to PI Hiroyuki Yoshida. The goal of this project is to [[NA-MIC_NCBC_Collaboration:NA-MIC virtual colonoscopy|More...]]
 
|[[NA-MIC_NCBC_Collaboration:NA-MIC virtual colonoscopy|PAR-07-249: R01CA131718 NA-MIC Virtual Colonoscopy]]<br>This project is funded under an NCBC collaboration grant to PI Hiroyuki Yoshida. The goal of this project is to [[NA-MIC_NCBC_Collaboration:NA-MIC virtual colonoscopy|More...]]
 
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|[[Image:JHUCollaboration.jpg|200px]]
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|[[Image:JHUCollaboration.jpg|216px]]
 
|[[NA-MIC_NCBC_Collaboration:3D Shape Analysis for Computational Anatomy|PAR-07-249: R01EB008171 3D Shape Analysis for Computational Anatomy]]<br>This project is funded under an NCBC collaboration grant to PI Michael Miller JHU (with Joe Hennessey)
 
|[[NA-MIC_NCBC_Collaboration:3D Shape Analysis for Computational Anatomy|PAR-07-249: R01EB008171 3D Shape Analysis for Computational Anatomy]]<br>This project is funded under an NCBC collaboration grant to PI Michael Miller JHU (with Joe Hennessey)
 
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|[[Image:UtahCollaboration.jpg|200px]]
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|[[Image:UtahCollaboration.jpg|216px]]
 
|[[NA-MIC_NCBC_Collaboration:The Microstructural Basis of Abnormal Connectivity in Autism|PAR-07-249: R01MH084795 The Microstructural Basis of Abnormal Connectivity in Autism]]<br>This project is funded under an NCBC collaboration grant to PI Janet Lainhart, MD. It will use tools developed within NAMIC for a longitudinal neuroimaging, clinical, and neuropsychological study of late neurodevelopment in autism.combining analysis of connectivity and morphometry.   
 
|[[NA-MIC_NCBC_Collaboration:The Microstructural Basis of Abnormal Connectivity in Autism|PAR-07-249: R01MH084795 The Microstructural Basis of Abnormal Connectivity in Autism]]<br>This project is funded under an NCBC collaboration grant to PI Janet Lainhart, MD. It will use tools developed within NAMIC for a longitudinal neuroimaging, clinical, and neuropsychological study of late neurodevelopment in autism.combining analysis of connectivity and morphometry.   
 
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|[[Image:JHUSkullStripping.png|200px]] [[Image:JHU.jpg]]
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|style="background: white"|[[Image:JHUSkullStripping.png|216px]]<br> [[Image:JHU.jpg]]
 
|[[NA-MIC_JHU_Skull_Stripping_Collaboration | PAR-08-183: R21EB009900 Johns Hopkins Skull Stripping]]<br>The group at Johns Hopkins is developing software that enables the stripping of skull, scalp, and meninges from structural MRI scans in a fully automated fashion.
 
|[[NA-MIC_JHU_Skull_Stripping_Collaboration | PAR-08-183: R21EB009900 Johns Hopkins Skull Stripping]]<br>The group at Johns Hopkins is developing software that enables the stripping of skull, scalp, and meninges from structural MRI scans in a fully automated fashion.
 
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{|class="wikitable"
 
{|class="wikitable"
|[[Image:BRAINS.gif|300px]]
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|[[Image:BRAINS.gif|216px]]
 
|[[NA-MIC Brains Collaboration| PAR-05-057: R01NS050568 BRAINS Morphology and Image Analysis]]<br>This project is a funded under a Continued Development and Maintenance of Software grant to PIs Vincent Magnotta, Hans Johnson, Jeremy Bockholt, and Nancy Andreasen at the University of Iowa. The goal of this project is to update the '''BRAINS''' image analysis software developed at the University of Iowa. [[NA-MIC Brains Collaboration|More...]]
 
|[[NA-MIC Brains Collaboration| PAR-05-057: R01NS050568 BRAINS Morphology and Image Analysis]]<br>This project is a funded under a Continued Development and Maintenance of Software grant to PIs Vincent Magnotta, Hans Johnson, Jeremy Bockholt, and Nancy Andreasen at the University of Iowa. The goal of this project is to update the '''BRAINS''' image analysis software developed at the University of Iowa. [[NA-MIC Brains Collaboration|More...]]
 
|-
 
|-
|[[Image:27y-leftabdcan-T6SQ-voltage-withheart4.png |300px]]
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|[[Image:27y-leftabdcan-T6SQ-voltage-withheart4.png |216px]]
 
|[[NA-MIC Childrens Collaboration| Children's Pediatric Cardiology Collaboration with SCI/SPL/Northeastern]]<br>Collaboration with John Triedman, Matt Jolley, Dana Brooks, SCI.
 
|[[NA-MIC Childrens Collaboration| Children's Pediatric Cardiology Collaboration with SCI/SPL/Northeastern]]<br>Collaboration with John Triedman, Matt Jolley, Dana Brooks, SCI.
 
|-
 
|-
| [[Image:NITRC.png|300px]]
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| [[Image:NITRC.png|216px]]
 
| [[NA-MIC and NITRC| U54EB005149-04S1 NA-MIC Collaboration with NITRC]]<br>The NA-MIC Project is working to make NA-MIC neuroimaging software available through the [http://www.nitrc.org/ NITRC web site].  Supplemental support is helping to create the [http://www.slicer.org/slicerWiki/index.php/Slicer3:Loadable_Modules Slicer3 Loadable Modules] project so that slicer plugins can be hosted on NITRC, allowing greater scalability for developers and users of Slicer.
 
| [[NA-MIC and NITRC| U54EB005149-04S1 NA-MIC Collaboration with NITRC]]<br>The NA-MIC Project is working to make NA-MIC neuroimaging software available through the [http://www.nitrc.org/ NITRC web site].  Supplemental support is helping to create the [http://www.slicer.org/slicerWiki/index.php/Slicer3:Loadable_Modules Slicer3 Loadable Modules] project so that slicer plugins can be hosted on NITRC, allowing greater scalability for developers and users of Slicer.
 
|-
 
|-
| [[Image:NA-MIC-NAC-collaborations-ARRA-2010-03-14.png|300px]]
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| [[Image:NA-MIC-NAC-collaborations-ARRA-2010-03-14.png|216px]]
 
|[[Collaboration:NAC| P41RR013218 NA-MIC Collaboration with NAC]]<br>NAC, the neuroimage analysis center, is a national resource center. NAC is relying on the NA-MIC kit for its general software environment. The mission of NAC is to develop novel concepts for the analysis of images of the brain and develop and disseminate tools based on those concepts.  Several [[Projects:ARRASuplements|ARRA-funded supplements to the NAC grant]] have close ties to related efforts in NA-MIC.
 
|[[Collaboration:NAC| P41RR013218 NA-MIC Collaboration with NAC]]<br>NAC, the neuroimage analysis center, is a national resource center. NAC is relying on the NA-MIC kit for its general software environment. The mission of NAC is to develop novel concepts for the analysis of images of the brain and develop and disseminate tools based on those concepts.  Several [[Projects:ARRASuplements|ARRA-funded supplements to the NAC grant]] have close ties to related efforts in NA-MIC.
 
|-
 
|-
|[[Image:Neurosurgery-slicer-fmri-dti-openigtlink.png|300px]]
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|[[Image:Neurosurgery-slicer-fmri-dti-openigtlink.png|216px]]
 
|[[Collaboration:NCIGT| U41RR019703 NA-MIC Collaboration with NCIGT]]<br>NCIGT is leveraging the NA-MIC kit as a platform for developing dedicated IGT capabilities.
 
|[[Collaboration:NCIGT| U41RR019703 NA-MIC Collaboration with NCIGT]]<br>NCIGT is leveraging the NA-MIC kit as a platform for developing dedicated IGT capabilities.
 
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| [[Image:SummerProjectWeek2009_ProstateRobot1.jpg|300px]]
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| [[Image:SummerProjectWeek2009_ProstateRobot1.jpg|216px]]
 
|[[Collaboration:Prostate BRP| R01CA111288 NA-MIC Collaboration with Prostate BRP]]<br>BRP is leveraging the NA-MIC kit as a platform for developing dedicated IGT capabilities.
 
|[[Collaboration:Prostate BRP| R01CA111288 NA-MIC Collaboration with Prostate BRP]]<br>BRP is leveraging the NA-MIC kit as a platform for developing dedicated IGT capabilities.
 
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|[[Image:snapshot.gif|300px]]
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|[[Image:snapshot.gif|216px]]
 
|[[Collaboration:College of William and Mary|Real-Time Computing for Image Guided Neurosurgery]]<br>Using the Tera Grid to implement mesh-based non-rigid registration for Neurosurgery.
 
|[[Collaboration:College of William and Mary|Real-Time Computing for Image Guided Neurosurgery]]<br>Using the Tera Grid to implement mesh-based non-rigid registration for Neurosurgery.
 
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| [[Image:Catalyst_logo_final.jpg]]
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|[[Image:Catalyst_logo_final.jpg|216px]]
 
|[[Collaboration:Harvard CTSC|UL1RR025758 NA-MIC support for Harvard CTSC Translational Imaging Consortium]]<br>The Harvard CTSC Translational Imaging Consortium is using NA-MIC communication tools to facilitate the rapid deployment of expertise in medical imaging acquisition, analysis and visualization to clinical translational investigators.  
 
|[[Collaboration:Harvard CTSC|UL1RR025758 NA-MIC support for Harvard CTSC Translational Imaging Consortium]]<br>The Harvard CTSC Translational Imaging Consortium is using NA-MIC communication tools to facilitate the rapid deployment of expertise in medical imaging acquisition, analysis and visualization to clinical translational investigators.  
 
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|-
| [[Image:MicroscopyTutorialSlide.jpg|300px]]
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| [[Image:MicroscopyTutorialSlide.jpg|216px]]
 
|[[Collaboration:NCMIR Microscopy|NCBC Supplement for Microscopy and Slicer]]<br>An NCBC Supplement to NCMIR, UCSD focused on the utilization of Slicer with microscopy data and resulted in a tutorial for use of Slicer with confocal microscopy data.
 
|[[Collaboration:NCMIR Microscopy|NCBC Supplement for Microscopy and Slicer]]<br>An NCBC Supplement to NCMIR, UCSD focused on the utilization of Slicer with microscopy data and resulted in a tutorial for use of Slicer with confocal microscopy data.
 
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|-
| [[Image:Femur Patella Tibia.jpg‎|300px]]
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| [[Image:Femur Patella Tibia.jpg‎|216px]]
 
|[[Stanford_Simbios_group|U54GM072970 NCBC Stanford Simbios]]<br>Our sister NCBC at Stanford, dedicated to biomedical simulation, is working to adapt NA-MIC image analysis routines generate simulation models directly from MRI scans.
 
|[[Stanford_Simbios_group|U54GM072970 NCBC Stanford Simbios]]<br>Our sister NCBC at Stanford, dedicated to biomedical simulation, is working to adapt NA-MIC image analysis routines generate simulation models directly from MRI scans.
 
|-
 
|-
|[[Image:I2b2_collage.jpg‎|100px]]
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|[[Image:I2b2_collage.jpg‎|216px]]
 
|[[NCBC I2B3|U54LM008748 NCBC I2B2]]<br>Our sister NCBC at Harvard Medical School, dedicated to biomedical image informatics, is working with us through the Harvard based, NCRR funded CTSC (Catalyst) program, to develop common open source software for the community.
 
|[[NCBC I2B3|U54LM008748 NCBC I2B2]]<br>Our sister NCBC at Harvard Medical School, dedicated to biomedical image informatics, is working with us through the Harvard based, NCRR funded CTSC (Catalyst) program, to develop common open source software for the community.
 
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|-
|[[Image:COPDGeneDashboard4.png‎|300px]]
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|[[Image:COPDGeneDashboard4.png‎|216px]]
 
|[[Collaboration: COPDGene | NAMIC supports COPDGene® quantitative analysis]]<br>The Genetic Epidemiology of COPD (COPDGene®) Study is one of the largest studies ever to investigate the underlying genetic factors of Chronic Obstructive Pulmonary Disease or COPD. Through the enrollment of over 10,000 individuals, the COPDGene® Study aims to find inherited or genetic factors that make some people more likely than others to develop COPD. With the use of CT scans, COPDGene® also seeks to better classify COPD and understand how the disease may differ from person to person.
 
|[[Collaboration: COPDGene | NAMIC supports COPDGene® quantitative analysis]]<br>The Genetic Epidemiology of COPD (COPDGene®) Study is one of the largest studies ever to investigate the underlying genetic factors of Chronic Obstructive Pulmonary Disease or COPD. Through the enrollment of over 10,000 individuals, the COPDGene® Study aims to find inherited or genetic factors that make some people more likely than others to develop COPD. With the use of CT scans, COPDGene® also seeks to better classify COPD and understand how the disease may differ from person to person.
 
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|-
|[[Image:‎BIRNLogo.jpg|300px]]
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|[[Image:‎BIRNLogo.jpg‎|216px]]
|[[Collaboration:BIRN-CC | U24RR025736 BIRN CC]]<br>The NCRR-funded efforts of the BIRN Coordinating Center (BIRN-CC) strive to apply state-of-the-art computer science techniques to the growing problem of working with large biomedical informatics datasets.  Through a series of test bed projects and use case studies, the BIRN-CC refines and optimizes its offerings. NA-MIC provides an opportunity for BIRN-CC to work closely with the image analysis community and learn from the experience of NA-MIC DBPs.
+
|[[Collaboration:BIRN-CC | U24RR025736 BIRN CC]]<br>The NCRR-funded efforts of the BIRN Coordinating Center (BIRN-CC) strive to apply state-of-the-art computer science techniques to the growing problem of working with large biomedical informatics datasets.  Through a series of test bed projects and use case studies, the BIRN-CC refines and optimizes its offerings. NA-MIC provides an opportunity for BIRN-CC to work closely with the image analysis community and learn from the experience of NA-MIC DBPs.
 
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|-
|[[Image:fBIRNImage.jpg‎|300px]]
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|[[Image:fBIRNImage.jpg‎|216px]]
 
|[[Collaboration:fBIRN | U24RR021992 fBIRN ]]<br>The Function BIRN (fBIRN) addresses the difficult problem of collecting and analyzing fMRI data collected at multiple sites in the context of schizophrenia research.  A number of important and difficult scientific and engineering problems can only be addressed in the context of a multi-site consortium that aims to reproducibly quantify brain activity.  Outcomes of fBIRN include quality assurance checks that have become industry standards, novel statistical approaches to identify and control for site-specific and scanner-specific biases, standardized stimulus paradigms, and fMRI informatics techniques for large scale datasets.
 
|[[Collaboration:fBIRN | U24RR021992 fBIRN ]]<br>The Function BIRN (fBIRN) addresses the difficult problem of collecting and analyzing fMRI data collected at multiple sites in the context of schizophrenia research.  A number of important and difficult scientific and engineering problems can only be addressed in the context of a multi-site consortium that aims to reproducibly quantify brain activity.  Outcomes of fBIRN include quality assurance checks that have become industry standards, novel statistical approaches to identify and control for site-specific and scanner-specific biases, standardized stimulus paradigms, and fMRI informatics techniques for large scale datasets.
 
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|-
|[[Image:mBIRNImage.jpg‎|300px]]
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|[[Image:mBIRNImage.jpg‎|216px]]
 
|[[Collaboration:mBIRN | U24RR021382 mBIRN]]<br>The Morphometry BIRN (mBIRN) seeks to support multi-site brain studies using structural and diffusion MRI.  Standard acquisition protocols, analysis methods, and informatics techniques have all been studied and promulgated by the mBIRN community of researchers.
 
|[[Collaboration:mBIRN | U24RR021382 mBIRN]]<br>The Morphometry BIRN (mBIRN) seeks to support multi-site brain studies using structural and diffusion MRI.  Standard acquisition protocols, analysis methods, and informatics techniques have all been studied and promulgated by the mBIRN community of researchers.
 
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| [[Image:BIRNLogo.jpg‎|300px]]
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| [[Image:BIRNLogo.jpg‎|216px]]
 
|[[Collaboration:BIRN-CTSN | U24RR026057 Collaborative Tools Support Network for BIRN]]<br>As the mBIRN and fBIRN test bed activities wind down the activities, research labs that have adopted the BIRN tool suite are supported through the BIRN-CTSN efforts.  This funding covers software maintenance and ongoing deployment support to ensure that these important resources remain a vital part of the research community.
 
|[[Collaboration:BIRN-CTSN | U24RR026057 Collaborative Tools Support Network for BIRN]]<br>As the mBIRN and fBIRN test bed activities wind down the activities, research labs that have adopted the BIRN tool suite are supported through the BIRN-CTSN efforts.  This funding covers software maintenance and ongoing deployment support to ensure that these important resources remain a vital part of the research community.
 
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|[[Image:BrainColor-logo.png‎|330px]]
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|[[Image:BrainColor-logo.png‎|216px]]
 
|[[Collaboration:BrainColor | BrainColor]]<br>[http://www.braincolor.org/ brainCOLOR] is a Collaborative Open Labeling Online Resource for to create high quality manually segmented brain data sets.
 
|[[Collaboration:BrainColor | BrainColor]]<br>[http://www.braincolor.org/ brainCOLOR] is a Collaborative Open Labeling Online Resource for to create high quality manually segmented brain data sets.
 
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=International Collaborations=
 
=International Collaborations=
 
{| class="wikitable"
 
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|[[Image:LevelSetSegmentGUIModule_alpha.png|300px]]
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|[[Image:LevelSetSegmentGUIModule_alpha.png|216px]]
 
|[[NA-MIC VMTK Collaboration | Vascular Modeling Toolkit Collaboration]]<br>Slicer as a platform for segmentation and geometric analysis of vascular segments and image-based computational fluid dynamics (CFD). [[NA-MIC VMTK Collaboration|More...]]
 
|[[NA-MIC VMTK Collaboration | Vascular Modeling Toolkit Collaboration]]<br>Slicer as a platform for segmentation and geometric analysis of vascular segments and image-based computational fluid dynamics (CFD). [[NA-MIC VMTK Collaboration|More...]]
 
Collaboration with [http://villacamozzi.marionegri.it/~luca/ Luca Antiga] of the [http://www.marionegri.it Mario Negri Institute].
 
Collaboration with [http://villacamozzi.marionegri.it/~luca/ Luca Antiga] of the [http://www.marionegri.it Mario Negri Institute].
 
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|[[Image:AISTlogo.gif|200px]]
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|[[Image:AISTlogo.gif|217px]]
 
|[[Collaboration:AIST| NA-MIC Collaboration with Research and Development Project on Intelligent Surgical Instruments]]<br>Intelligent Surgical Instruments Projects uses Open-source software engineering tools developed by NA-MIC, and leverage it to surgical robotics.
 
|[[Collaboration:AIST| NA-MIC Collaboration with Research and Development Project on Intelligent Surgical Instruments]]<br>Intelligent Surgical Instruments Projects uses Open-source software engineering tools developed by NA-MIC, and leverage it to surgical robotics.
 
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| [[Image:ISML.gif|200px]]
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|[[Image:ISML.gif|216px]]
 
|[[Collaboration:UWA-Perth| Real Time Computer Simulation of Human Soft Organ Deformation for Computer Assisted Surgery]]<br>Real Time Computer Simulation of Human Soft Organ Deformation for Computer Assisted Surgery.
 
|[[Collaboration:UWA-Perth| Real Time Computer Simulation of Human Soft Organ Deformation for Computer Assisted Surgery]]<br>Real Time Computer Simulation of Human Soft Organ Deformation for Computer Assisted Surgery.
 
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|[[Image:CtkLogo.png|200px]]
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|[[Image:CtkLogo.png|216px]]
 
|[[Collaboration:CTK| Common Toolkit (CTK)]]<br>[http://commontk.org CTK] is a multi-institution international collaboration to share software development resources for medical imaging applications.
 
|[[Collaboration:CTK| Common Toolkit (CTK)]]<br>[http://commontk.org CTK] is a multi-institution international collaboration to share software development resources for medical imaging applications.
 
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|[[Image:CO-ME-logo.png|200px]]
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|[[Image:CO-ME-logo.png|216px]]
 
|[[Collaboration:CO-ME| Computer Aided and Image Guidance Medical Interventions (CO-ME)]]<br>[http://www.co-me.ch CO-ME] The National Centre of Competence in Research (NCCR) Co-Me is a network of leading clinics and engineering sites in Switzerland with strong links to industry and international partners.
 
|[[Collaboration:CO-ME| Computer Aided and Image Guidance Medical Interventions (CO-ME)]]<br>[http://www.co-me.ch CO-ME] The National Centre of Competence in Research (NCCR) Co-Me is a network of leading clinics and engineering sites in Switzerland with strong links to industry and international partners.
 
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|[[Image:OCAIRO animation.gif|200px]]
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|[[Image:OCAIRO animation.gif|216px]]
 
|[[Collaboration:OCAIRO| Ontario Consortium of Adaptive Interventions for Radiation Oncology (OCAIRO)]]<br>OCAIRO is a cross-Ontario initiative led by Dr. Jaffray, and will work towards developing adaptive radiation therapy--a new approach involving the creation of hardware, software, imaging and database systems to enable oncologists to adapt radiation to each individual patient and their response during the course of therapy.  
 
|[[Collaboration:OCAIRO| Ontario Consortium of Adaptive Interventions for Radiation Oncology (OCAIRO)]]<br>OCAIRO is a cross-Ontario initiative led by Dr. Jaffray, and will work towards developing adaptive radiation therapy--a new approach involving the creation of hardware, software, imaging and database systems to enable oncologists to adapt radiation to each individual patient and their response during the course of therapy.  
 
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Revision as of 14:37, 14 May 2010

Home < NA-MIC External Collaborations
Back to NA-MIC Collaborations

Projects funded by "Collaborations with NCBC PAR"

This section describes external collaborations with NA-MIC that are funded by NIH under the "Collaboration with NCBC" PAR. (Details for this funding mechanism are provided here).

Cli-mesh-quality-small-062607.png PAR-05-063: R01EB005973 Automated FE Mesh Development

This project is funded under an NCBC collaboration grant to PIs Nicole Grosland and Vincent Magnotta at UIowa. The goal of this project is to integrate and expand methods to automate the development of specimen- / patient-specific finite element (FE) models into the NA-MIC kit. More...

NhpATOCPic.jpg PAR-07-249: R01AA016748 Measuring Alcohol and Stress Interaction with Structural and Perfusion MRI
This project is funded under an NCBC collaboration grant to PIs James Daunais, Robert Kraft, and Chris Wyatt. The goal of this project is to examine the the effects of chronic alcohol self- administration on brain structure and function the monkey brain. MRI image analysis tools from the NA-MIC kit will be adapted for use with the monkey brain datasets. More...
LiverRFAPhantom.png PAR-05-063: R01CA124377 An Integrated System for Image-Guided Radiofrequency Ablation of Liver Tumors
This project is funded under an NCBC collaboration grant to PI Kevin Cleary at Georgetown University. The goal of this project is to develop and validate an integrated system based on open source software for improved visualization and probe placement during radiofrequency ablation (RFA) of liver tumors.More...
HammerABrain.png PAR-07-249: R01EB006733 Development and Dissemination of Robust Brain MRI Measurement Tools

This project is funded under an NCBC collaboration grant to PI Dinggang Shen at UNC-Chapel Hill. The goal of this project is to develop and widely distribute a software package for robust measurement of brain structures in MR images using computational neuroanatomy methods.More...

Virtual Colonoscopy Auto Detection - Yoshida.png PAR-07-249: R01CA131718 NA-MIC Virtual Colonoscopy
This project is funded under an NCBC collaboration grant to PI Hiroyuki Yoshida. The goal of this project is to More...
JHUCollaboration.jpg PAR-07-249: R01EB008171 3D Shape Analysis for Computational Anatomy
This project is funded under an NCBC collaboration grant to PI Michael Miller JHU (with Joe Hennessey)
UtahCollaboration.jpg PAR-07-249: R01MH084795 The Microstructural Basis of Abnormal Connectivity in Autism
This project is funded under an NCBC collaboration grant to PI Janet Lainhart, MD. It will use tools developed within NAMIC for a longitudinal neuroimaging, clinical, and neuropsychological study of late neurodevelopment in autism.combining analysis of connectivity and morphometry.
JHUSkullStripping.png
JHU.jpg
PAR-08-183: R21EB009900 Johns Hopkins Skull Stripping
The group at Johns Hopkins is developing software that enables the stripping of skull, scalp, and meninges from structural MRI scans in a fully automated fashion.


Additional External Collaborations

This section describes external collaborations with NA-MIC that are funded by other mechanisms:

BRAINS.gif PAR-05-057: R01NS050568 BRAINS Morphology and Image Analysis
This project is a funded under a Continued Development and Maintenance of Software grant to PIs Vincent Magnotta, Hans Johnson, Jeremy Bockholt, and Nancy Andreasen at the University of Iowa. The goal of this project is to update the BRAINS image analysis software developed at the University of Iowa. More...
27y-leftabdcan-T6SQ-voltage-withheart4.png Children's Pediatric Cardiology Collaboration with SCI/SPL/Northeastern
Collaboration with John Triedman, Matt Jolley, Dana Brooks, SCI.
NITRC.png U54EB005149-04S1 NA-MIC Collaboration with NITRC
The NA-MIC Project is working to make NA-MIC neuroimaging software available through the NITRC web site. Supplemental support is helping to create the Slicer3 Loadable Modules project so that slicer plugins can be hosted on NITRC, allowing greater scalability for developers and users of Slicer.
NA-MIC-NAC-collaborations-ARRA-2010-03-14.png P41RR013218 NA-MIC Collaboration with NAC
NAC, the neuroimage analysis center, is a national resource center. NAC is relying on the NA-MIC kit for its general software environment. The mission of NAC is to develop novel concepts for the analysis of images of the brain and develop and disseminate tools based on those concepts. Several ARRA-funded supplements to the NAC grant have close ties to related efforts in NA-MIC.
Neurosurgery-slicer-fmri-dti-openigtlink.png U41RR019703 NA-MIC Collaboration with NCIGT
NCIGT is leveraging the NA-MIC kit as a platform for developing dedicated IGT capabilities.
SummerProjectWeek2009 ProstateRobot1.jpg R01CA111288 NA-MIC Collaboration with Prostate BRP
BRP is leveraging the NA-MIC kit as a platform for developing dedicated IGT capabilities.
Snapshot.gif Real-Time Computing for Image Guided Neurosurgery
Using the Tera Grid to implement mesh-based non-rigid registration for Neurosurgery.
Catalyst logo final.jpg UL1RR025758 NA-MIC support for Harvard CTSC Translational Imaging Consortium
The Harvard CTSC Translational Imaging Consortium is using NA-MIC communication tools to facilitate the rapid deployment of expertise in medical imaging acquisition, analysis and visualization to clinical translational investigators.
MicroscopyTutorialSlide.jpg NCBC Supplement for Microscopy and Slicer
An NCBC Supplement to NCMIR, UCSD focused on the utilization of Slicer with microscopy data and resulted in a tutorial for use of Slicer with confocal microscopy data.
Femur Patella Tibia.jpg U54GM072970 NCBC Stanford Simbios
Our sister NCBC at Stanford, dedicated to biomedical simulation, is working to adapt NA-MIC image analysis routines generate simulation models directly from MRI scans.
I2b2 collage.jpg U54LM008748 NCBC I2B2
Our sister NCBC at Harvard Medical School, dedicated to biomedical image informatics, is working with us through the Harvard based, NCRR funded CTSC (Catalyst) program, to develop common open source software for the community.
COPDGeneDashboard4.png NAMIC supports COPDGene® quantitative analysis
The Genetic Epidemiology of COPD (COPDGene®) Study is one of the largest studies ever to investigate the underlying genetic factors of Chronic Obstructive Pulmonary Disease or COPD. Through the enrollment of over 10,000 individuals, the COPDGene® Study aims to find inherited or genetic factors that make some people more likely than others to develop COPD. With the use of CT scans, COPDGene® also seeks to better classify COPD and understand how the disease may differ from person to person.
BIRNLogo.jpg U24RR025736 BIRN CC
The NCRR-funded efforts of the BIRN Coordinating Center (BIRN-CC) strive to apply state-of-the-art computer science techniques to the growing problem of working with large biomedical informatics datasets. Through a series of test bed projects and use case studies, the BIRN-CC refines and optimizes its offerings. NA-MIC provides an opportunity for BIRN-CC to work closely with the image analysis community and learn from the experience of NA-MIC DBPs.
FBIRNImage.jpg U24RR021992 fBIRN
The Function BIRN (fBIRN) addresses the difficult problem of collecting and analyzing fMRI data collected at multiple sites in the context of schizophrenia research. A number of important and difficult scientific and engineering problems can only be addressed in the context of a multi-site consortium that aims to reproducibly quantify brain activity. Outcomes of fBIRN include quality assurance checks that have become industry standards, novel statistical approaches to identify and control for site-specific and scanner-specific biases, standardized stimulus paradigms, and fMRI informatics techniques for large scale datasets.
MBIRNImage.jpg U24RR021382 mBIRN
The Morphometry BIRN (mBIRN) seeks to support multi-site brain studies using structural and diffusion MRI. Standard acquisition protocols, analysis methods, and informatics techniques have all been studied and promulgated by the mBIRN community of researchers.
BIRNLogo.jpg U24RR026057 Collaborative Tools Support Network for BIRN
As the mBIRN and fBIRN test bed activities wind down the activities, research labs that have adopted the BIRN tool suite are supported through the BIRN-CTSN efforts. This funding covers software maintenance and ongoing deployment support to ensure that these important resources remain a vital part of the research community.
BrainColor-logo.png BrainColor
brainCOLOR is a Collaborative Open Labeling Online Resource for to create high quality manually segmented brain data sets.


International Collaborations

LevelSetSegmentGUIModule alpha.png Vascular Modeling Toolkit Collaboration
Slicer as a platform for segmentation and geometric analysis of vascular segments and image-based computational fluid dynamics (CFD). More...

Collaboration with Luca Antiga of the Mario Negri Institute.

AISTlogo.gif NA-MIC Collaboration with Research and Development Project on Intelligent Surgical Instruments
Intelligent Surgical Instruments Projects uses Open-source software engineering tools developed by NA-MIC, and leverage it to surgical robotics.
ISML.gif Real Time Computer Simulation of Human Soft Organ Deformation for Computer Assisted Surgery
Real Time Computer Simulation of Human Soft Organ Deformation for Computer Assisted Surgery.
CtkLogo.png Common Toolkit (CTK)
CTK is a multi-institution international collaboration to share software development resources for medical imaging applications.
CO-ME-logo.png Computer Aided and Image Guidance Medical Interventions (CO-ME)
CO-ME The National Centre of Competence in Research (NCCR) Co-Me is a network of leading clinics and engineering sites in Switzerland with strong links to industry and international partners.
OCAIRO animation.gif Ontario Consortium of Adaptive Interventions for Radiation Oncology (OCAIRO)
OCAIRO is a cross-Ontario initiative led by Dr. Jaffray, and will work towards developing adaptive radiation therapy--a new approach involving the creation of hardware, software, imaging and database systems to enable oncologists to adapt radiation to each individual patient and their response during the course of therapy.