2012 Summer Project Week:QuantitativePETImageAnalysisModule - Revision history

Mvantol at 12:34, 22 June 2012

2012-06-22T12:34:46Z

Mvantol: /* Key Investigators */

2012-06-22T12:20:38Z

Key Investigators

Mvantol: /* Key Investigators */

2012-06-18T12:47:33Z

Key Investigators

Mvantol: Changing plan to focus on what I'm most likely to work on.

2012-06-12T01:59:45Z

Changing plan to focus on what I'm most likely to work on.

Mvantol: /* References */

2012-06-08T01:37:59Z

References

Mvantol: Updating "Approach, Plan" and "Progress"

2012-05-25T16:53:26Z

Updating "Approach, Plan" and "Progress"

Mvantol: /* Key Investigators */

2012-05-21T14:34:05Z

Key Investigators

Mvantol: /* Key Investigators */

2012-05-16T22:03:28Z

Key Investigators

Mvantol: Putting initial info into the project page

2012-05-16T22:03:15Z

Putting initial info into the project page

Mvantol: Created page with 'NOTOC Image:PW-MIT2012.png|Projects List Image:genuFAp.jpg|Scatter plot of the original FA data through the genu of the corpus…'

2012-05-16T21:31:35Z

Created page with '__NOTOC__ <gallery> Image:PW-MIT2012.png|Projects List Image:genuFAp.jpg|Scatter plot of the original FA data through the genu of the corpus…'

New page

__NOTOC__
<gallery>
Image:PW-MIT2012.png|[[2012_Summer_Project_Week#Projects|Projects List]]
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.
</gallery>

==Instructions for Use of this Template==
#Please create a new wiki page with an appropriate title for your project using the convention 2012_Winter_Project_Week:<Project Name>
#Copy the entire text of this page into the page created above
#Link the created page into the list of projects for the project event
#Delete this section from the created page
#Send an email to tkapur at bwh.harvard.edu if you are stuck

==Key Investigators==
* UNC: Isabelle Corouge, Casey Goodlett, Guido Gerig
* Utah: Tom Fletcher, Ross Whitaker

<div style="margin: 20px;">
<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Objective</h3>
We are developing methods for analyzing diffusion tensor data along fiber tracts. The goal is to be able to make statistical group comparisons with fiber tracts as a common reference frame for comparison.

</div>

<div style="width: 27%; float: left; padding-right: 3%;">

<h3>Approach, Plan</h3>

Our approach for analyzing diffusion tensors is summarized in the IPMI 2007 reference below. The main challenge to this approach is <foo>.

Our plan for the project week is to first try out <bar>,...

</div>

<div style="width: 40%; float: left;">

<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.

</div>
</div>

<div style="width: 97%; float: left;">

==Delivery Mechanism==

This work will be delivered to the NA-MIC Kit as a (please select the appropriate options by noting YES against them below)

#ITK Module
#Slicer Module
##Built-in
##Extension -- commandline
##Extension -- loadable
#Other (Please specify)

==References==
*Fletcher P, Tao R, Jeong W, Whitaker R. [http://www.na-mic.org/publications/item/view/634 A volumetric approach to quantifying region-to-region white matter connectivity in diffusion tensor MRI.] Inf Process Med Imaging. 2007;20:346-358. PMID: 17633712.
* Corouge I, Fletcher P, Joshi S, Gouttard S, Gerig G. [http://www.na-mic.org/publications/item/view/292 Fiber tract-oriented statistics for quantitative diffusion tensor MRI analysis.] Med Image Anal. 2006 Oct;10(5):786-98. PMID: 16926104.
* Corouge I, Fletcher P, Joshi S, Gilmore J, Gerig G. [http://www.na-mic.org/publications/item/view/1122 Fiber tract-oriented statistics for quantitative diffusion tensor MRI analysis.] Int Conf Med Image Comput Comput Assist Interv. 2005;8(Pt 1):131-9. PMID: 16685838.
* Goodlett C, Corouge I, Jomier M, Gerig G, A Quantitative DTI Fiber Tract Analysis Suite, The Insight Journal, vol. ISC/NAMIC/ MICCAI Workshop on Open-Source Software, 2005, Online publication: http://hdl.handle.net/1926/39 .

</div>

@@ Line 36: / Line 36: @@
 Created a loadable module that currently allows threshold-based segmentation in user-defined regions of interest.  Currently designed for PET scan images.  Has functionality to suggest a threshold in a space and exclude other regions by uptake values or by user-defined excluded regions and points.
 Fully functional without the need to change to another module.
 </div>

← Older revision		Revision as of 12:47, 18 June 2012
Line 14:		Line 14:
	We are developing a loadable module for Slicer to allow for threshold-based segmentation of tumors (or other regions of uptake) in PET scans within user-specified bounds and the tracking of such tumors. This would be used so that multiple physicians could segment the tumor and all consistently create one segmentation. With this, further work would go into checking values such as size and intensity values of tumors, which could be compared over time.		We are developing a loadable module for Slicer to allow for threshold-based segmentation of tumors (or other regions of uptake) in PET scans within user-specified bounds and the tracking of such tumors. This would be used so that multiple physicians could segment the tumor and all consistently create one segmentation. With this, further work would go into checking values such as size and intensity values of tumors, which could be compared over time.

		+	This project may become a part of another: [http://www.na-mic.org/Wiki/index.php/2012_Summer_Project_Week:LongitudinalPETCTModule http://www.na-mic.org/Wiki/index.php/2012_Summer_Project_Week:LongitudinalPETCTModule]

	</div>		</div>

@@ Line 20: / Line 20: @@
 <h3>Approach, Plan</h3>
-A few possible parts to tackle next:
+Tasks, in order of importance/doability at this project week:
 . Set up module testing so it can expand as the rest of the module expands.

@@ Line 53: / Line 53: @@
 ==References==
-* In progress...
+* Reinhard Beichel's UIowa staff page: [http://www.engineering.uiowa.edu/~rbeichel/index.html http://www.engineering.uiowa.edu/~rbeichel/index.html]
 </div>

@@ Line 20: / Line 20: @@
 <h3>Approach, Plan</h3>
-In progress...
+A few possible parts to tackle next:
 </div>
@@ Line 26: / Line 32: @@
 <h3>Progress</h3>
-In progress...
+Before project week:
 </div>

@@ Line 2: / Line 2: @@
 <gallery>
 Image:PW-MIT2012.png|[[2012_Summer_Project_Week#Projects|Projects List]]
 </gallery>

@@ Line 12: / Line 12: @@
 <h3>Objective</h3>
-In progress...
+We are developing a loadable module for Slicer to allow for threshold-based segmentation of tumors (or other regions of uptake) in PET scans within user-specified bounds and the tracking of such tumors.  This would be used so that multiple physicians could segment the tumor and all consistently create one segmentation.  With this, further work would go into checking values such as size and intensity values of tumors, which could be compared over time.
@@ Line 24: / Line 20: @@
 <h3>Approach, Plan</h3>
 In progress...
 </div>

@@ Line 6: / Line 6: @@
 ==Key Investigators==
-* University of Iowa: Christian Bauer, Reinhard Beichel, Markus Van Tol
+* University of Iowa: Christian Bauer, Reinhard Beichel, Markus Van Tol, ...?
 <div style="margin: 20px;">

2012 Summer Project Week:QuantitativePETImageAnalysisModule - Revision history

Mvantol at 12:34, 22 June 2012

Mvantol: /* Key Investigators */

Mvantol: /* Key Investigators */

Mvantol: Changing plan to focus on what I'm most likely to work on.

Mvantol: /* References */

Mvantol: Updating "Approach, Plan" and "Progress"

Mvantol: /* Key Investigators */

Mvantol: /* Key Investigators */

Mvantol: Putting initial info into the project page

Mvantol: Created page with '__NOTOC__ Image:PW-MIT2012.png|Projects List Image:genuFAp.jpg|Scatter plot of the original FA data through the genu of the corpus…'

Mvantol: Created page with 'NOTOC Image:PW-MIT2012.png|Projects List Image:genuFAp.jpg|Scatter plot of the original FA data through the genu of the corpus…'