View source for Projects:ShapeCorrespondence UNCOrthoApp

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Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
Image:genuFAp.jpg|Scatter plot of the original FA data through the genu of the corpus callosum of a normal brain.
Image:genuFA.jpg|Regression of FA data; solid line represents the mean and dotted lines the standard deviation.
Image:http://lh5.ggpht.com/_gMPBKID0x_Q/SjEgQRsGxpI/AAAAAAAAEnc/a1zjbkGhWd0/s1024/asymmetry.png|EDITED Trying to add more images into the current layout.
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==Motivations: Clinical Applications in Orthodontics==
We are aiming to develop methods to possible application of Shape Correspondence and Shape Analysis to Orthodontic applications. The main challenge this approach is the big amount of pre-processing required to  adapt the current methods to the new data (until now, Shape Correspondence applied almost entirely to brain morphometry studies). Different NAMIC Tools are used for this purpose, and also some tools already developed and many other under current development. 

Three projects are currently in progress: 

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* '''Temporomandibular Joint (TMJ) Osteoarthritis (OA).''' Shape analysis used to localize and quantify the condylar morphological differences in the progression of the Temporomandibular Joint Osteoarthritic disease. The information obtained can be used in the clinical field to better elucidate the nature of the disease and therefore aim for a better treatment planning.
* '''Asymmetry.''' 3D cephalometries, measuring the distances between the structure and its mirror is an approach to localize asymmetry and to quantify the left and right differences in the anatomy of interest.  This information can be used in corrective surgery planning.
* '''Skeletodental deformities corrective surgery.''' Test the changes in hard-tissue after corrective surgery for skeletal dento-facial deformities. 
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==Key Investigators==
* UNC: Beatriz Paniagua, Martin Styner, Lucia Cevidanes

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<h3>Objective</h3>
Trying to merge our tools into the Slicer3 program, providing to the clinical people a friendly framework to get the measurements that are currently obtained by people with technical background. Apart from that, there are many other possibilities, but one focus for these Project Week could be the incorporation of XNAT in Slicer3 for defining groups and patient variables in our sample groups. 

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<h3>Approach, Plan</h3>
We would like to provide a homogeneous framework for our clinical research needs. Integration of our tools and functionalities to existing programs (Slicer3?)

# Integration of the UNC statistical core 
# Integration of the UNC pre-processing steps
# Incorporation of XNAT functionalities

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<h3>Progress</h3>
Software for the fiber tracking and statistical analysis along the tracts has been implemented. The statistical methods for diffusion tensors are implemented as ITK code as part of the [[NA-MIC/Projects/Diffusion_Image_Analysis/DTI_Software_and_Algorithm_Infrastructure|DTI Software Infrastructure]] project. The methods have been validated on a repeated scan of a healthy individual. This work has been published as a conference paper (MICCAI 2005) and a journal version (MEDIA 2006). Our recent IPMI 2007 paper includes a nonparametric regression method for analyzing data along a fiber tract.

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==References==
* '''"Shape Modeling and Analysis with Entropy-Based Particle Systems"''' J Cates, P T Fletcher, M Styner, M Shenton, R Whitaker. IPMI 2007, LNCS 4584, pp. 333-345, 2007.
* '''"Parameter space warping: shape-based correspondence between morphologically different objects"''' Meier, D.  Fisher, E.  IEEE Transactions on Medical Imaging, 2002 
* '''"Craniofacial Surgery"''' Seth Thaller, Joe I. Garri, James P. Bradley, Henry K. (INT) Kawamoto Contributor Henry K. (INT) Kawamoto. CRC Press, 2007
* '''"Principles of Surgery"''' I. Schwartz., Single Volume. McGraw-Hill Professional, 7 edition, 1998.
* '''"Condylar Resorption in Subjects with TMJ Osteoarthritis"''' Lucia H.S. Cevidanes, Anna-Kari Hajati, Beatriz Paniagua, David G. Walker, Martin Styner, Pei Feng Lim. Submitted to the Journal of Dental Research, 2009
* '''"Closed and Open Source Neuroimage Analysis Tools and Libraries at UNC"''' Styner, Jomier, Gerig, ISBI 2006
* '''"Open Source Statistical Surface Shape Analysis Package"''' Niethammer, Styner, Paniagua, Pantazis, Macenko, in preparation for InsightJournal