2009 Summer Project Week Hageman DTIDigitalPhantom - Revision history

Nhageman: /* Key Investigators */

2009-07-13T14:12:18Z

Key Investigators

Tkapur at 02:20, 22 June 2009

2009-06-22T02:20:48Z

Nhageman at 08:49, 21 June 2009

2009-06-21T08:49:36Z

Nhageman at 08:35, 21 June 2009

2009-06-21T08:35:56Z

Nhageman at 08:32, 21 June 2009

2009-06-21T08:32:23Z

Nhageman at 08:25, 21 June 2009

2009-06-21T08:25:56Z

Nhageman at 08:21, 21 June 2009

2009-06-21T08:21:10Z

Nhageman at 17:13, 4 June 2009

2009-06-04T17:13:03Z

Nhageman: Created page with 'NOTOC Image:PW2009-v3.png|Project Week Main Page ==Key Investigators== * BWH: Junichi Tokuda, Wendy Plesniak, Nobuhiko Hata...'

2009-06-04T17:07:07Z

Created page with '__NOTOC__ <gallery> Image:PW2009-v3.png|Project Week Main Page </gallery> ==Key Investigators== * BWH: Junichi Tokuda, Wendy Plesniak, Nobuhiko Hata...'

New page

__NOTOC__
<gallery>
Image:PW2009-v3.png|[[2009_Summer_Project_Week|Project Week Main Page]]
</gallery>

==Key Investigators==
* BWH: Junichi Tokuda, Wendy Plesniak, Nobuhiko Hata
* WFU:Craig A. Hamilton

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

<h3>Objective</h3>

</div>

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

<h3>Approach, Plan</h3>

</div>

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

<h3>Progress</h3>

</div>
</div>

==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 .

@@ Line 26: / Line 26: @@
 <h1>Approach, Plan</h1>
-The functioning webservice and binaries are scheduled for an external release in early July 2009.  For this project week,
+The functioning webservice and binaries are scheduled for an external release in July 2009.  For this project week,
 *We will demo the program and webservice utility or generate specific datasets for any interested groups.  Pre-release binaries are available upon request.
 *We will discuss possible links to the webservice as part of Slicer and NAMIC Wiki.
@@ Line 35: / Line 35: @@
 <h1>Progress</h1>
+*Interested collaborators met concerning release date of web service and binaries.
 </div>

@@ Line 1: / Line 1: @@
 {|
-|[[Image:PW2009-v3.png|thumb|320px|[[2009_Summer_Project_Week|Project Week Main Page]] ]]
+|[[Image:PW2009-v3.png|thumb|320px|[[2009_Summer_Project_Week#Projects|Project Week Main Page]] ]]
 |[[Image:Hageman_DWIPhantomWebPage4NAMIC_09-06-13.jpg|thumb|320px|Web service for DWI phantom generator hosted by UCLA]]
 |[[Image:Hageman_DWIPhantomForm4NAMIC_09-06-13.jpg|thumb|320px|Form used by web service to generate phantom DWI dataset]]

@@ Line 18: / Line 18: @@
 <h1>Objective</h1>
-We have created a program that will generate a DWI dataset based on a single or double helix ground truth that simulates a white matter tract. The user is free to specify desired dimensions, experimental parameters, and level of Rician or Gaussian noise in the final dataset.  We will host this program via a webservice from the Laboratory of Neuroimaging at UCLA.
+Imaging datasets constructed from digital phantom models continue to be valuable resource for validating image analysis algorithms.  There is a need for such resources for the validation of DTI analysis algorithms, especially for those methods that involve measures of WM integrity or segmentation of WM tracts.  Although some fixed digital DTI phantom models exist, we have created a software tool that allows users to generate a DWI dataset from a ground truth WM shape based on their own chosen experimental paradigm.  This will provide users with the flexibility to define the parameters of each validation dataset, which is not available with current digital DTI phantom validation resources.
 </div>
@@ Line 24: / Line 26: @@
 <h1>Approach, Plan</h1>
+The functioning webservice and binaries are scheduled for an external release in early July 2009.  For this project week,
 </div>

@@ Line 18: / Line 18: @@
 <h1>Objective</h1>
-We have created a software tool to generate DWI datasets from a predefined phantom shape.
+We have created a program that will generate a DWI dataset based on a single or double helix ground truth that simulates a white matter tract. The user is free to specify desired dimensions, experimental parameters, and level of Rician or Gaussian noise in the final dataset.  We will host this program via a webservice from the Laboratory of Neuroimaging at UCLA.
 </div>
@@ Line 24: / Line 24: @@
 <h1>Approach, Plan</h1>
 </div>

@@ Line 2: / Line 2: @@
 |[[Image:PW2009-v3.png|thumb|320px|[[2009_Summer_Project_Week|Project Week Main Page]] ]]
 |[[Image:Hageman_DWIPhantomWebPage4NAMIC_09-06-13.jpg|thumb|320px|Web service for DWI phantom generator hosted by UCLA]]
 |}
 __NOTOC__
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 ===References===
 * Hageman NS, Shattuck DW, Narr K, Toga AW (2006).  A diffusion tensor imaging tractography method based on Navier-Stokes fluid mechanics. Proceedings of the 2006 IEEE International Symposium on Biomedical Imaging: From Nano to Macro (ISBI 2006), Arlington, VA, USA, 6-9 April 2006. p. 798-801
-* Hageman NS, Toga AW, Narr K, Shattuck DW (2008).  A diffusion tensor imaging tractography algorithm based on Navier-Stokes fluid mechanics. IEEE Trans. in Medicial Imaging, In Submission.
+* Hageman NS, Toga AW, Narr K, Shattuck DW (2009).  A diffusion tensor imaging tractography algorithm based on Navier-Stokes fluid mechanics. IEEE Trans. in Medicial Imaging 28(3): 348-360.

@@ Line 1: / Line 1: @@
 __NOTOC__
 ==Key Investigators==
-* BWH: Junichi Tokuda, Wendy Plesniak, Nobuhiko Hata
+===Key Investigators===
-* WFU:Craig A. Hamilton
+* UCLA: Nathan Hageman
 <div style="margin: 20px;">
 <div style="width: 27%; float: left; padding-right: 3%;">
-<h3>Objective</h3>
+<h1>Objective</h1>
+We have created a software tool to generate DWI datasets from a predefined phantom shape.
 </div>
 <div style="width: 27%; float: left; padding-right: 3%;">
-<h3>Approach, Plan</h3>
+<h1>Approach, Plan</h1>
 </div>
@@ Line 25: / Line 28: @@
 <div style="width: 40%; float: left;">
-<h3>Progress</h3>
+<h1>Progress</h1>
 </div>
 </div>
-==References==
+===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.
+* Hageman NS, Shattuck DW, Narr K, Toga AW (2006).  A diffusion tensor imaging tractography method based on Navier-Stokes fluid mechanics. Proceedings of the 2006 IEEE International Symposium on Biomedical Imaging: From Nano to Macro (ISBI 2006), Arlington, VA, USA, 6-9 April 2006. p. 798-801
-* 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.
+* Hageman NS, Toga AW, Narr K, Shattuck DW (2008).  A diffusion tensor imaging tractography algorithm based on Navier-Stokes fluid mechanics. IEEE Trans. in Medicial Imaging, In Submission.