EMSegmenter-Tasks:Non-Human-Primate - Revision history

Fedorov: /* Citations */

2011-12-07T15:48:34Z

Citations

2011-12-07T15:47:00Z

Citations

2011-03-18T16:34:59Z

Result

2010-12-12T00:58:54Z

Atlas

2010-12-08T03:40:34Z

Collaborators

2010-12-08T03:40:14Z

Collaborators

2010-12-08T03:39:52Z

Atlas

2010-12-08T03:37:42Z

Collaborators

2010-12-08T03:36:45Z

Description

2010-12-08T03:36:14Z

Acknowledgment

← Older revision		Revision as of 15:48, 7 December 2011
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	* Johnson H.J., Harris G., Williams K. [http://hdl.handle.net/1926/1291 BRAINSFit: Mutual Information Registrations of Whole-Brain 3D Images, Using the Insight Toolkit], The Insight Journal, July 2007		* Johnson H.J., Harris G., Williams K. [http://hdl.handle.net/1926/1291 BRAINSFit: Mutual Information Registrations of Whole-Brain 3D Images, Using the Insight Toolkit], The Insight Journal, July 2007
	* A.Fedorov, X.Li, K.Pohl, S.Bouix, M.Styner, M.Addicott, C.Wyatt, J.B.Daunais, W.M.Wells, R.Kikinis "Atlas-guided Segmentation of Vervet Monkey Brain MRI". The Open Neuroimaging Journal, 2011, 5(Suppl 2-M7), pp.186-197. doi:10.2174/1874440001105010186 [http://www.na-mic.org/publications/item/view/2119 URL]		* A.Fedorov, X.Li, K.Pohl, S.Bouix, M.Styner, M.Addicott, C.Wyatt, J.B.Daunais, W.M.Wells, R.Kikinis "Atlas-guided Segmentation of Vervet Monkey Brain MRI". The Open Neuroimaging Journal, 2011, 5(Suppl 2-M7), pp.186-197. doi:10.2174/1874440001105010186 [http://www.na-mic.org/publications/item/view/2119 URL]
		+	* NITRC Vervet Brain Atlas [http://www.nitrc.org/projects/vervet_atlas URL]

← Older revision		Revision as of 15:47, 7 December 2011
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	* S. Warfield, J. Rexilius, P. Huppi, T. Inder, E. Miller, W. Wells, G. Zientara, F. Jolesz, and R. Kikinis, “A binary entropy measure to assess nonrigid registration algorithms,” in MICCAI, LNCS, pp. 266–274, Springer, October 2001.		* S. Warfield, J. Rexilius, P. Huppi, T. Inder, E. Miller, W. Wells, G. Zientara, F. Jolesz, and R. Kikinis, “A binary entropy measure to assess nonrigid registration algorithms,” in MICCAI, LNCS, pp. 266–274, Springer, October 2001.
	* Johnson H.J., Harris G., Williams K. [http://hdl.handle.net/1926/1291 BRAINSFit: Mutual Information Registrations of Whole-Brain 3D Images, Using the Insight Toolkit], The Insight Journal, July 2007		* Johnson H.J., Harris G., Williams K. [http://hdl.handle.net/1926/1291 BRAINSFit: Mutual Information Registrations of Whole-Brain 3D Images, Using the Insight Toolkit], The Insight Journal, July 2007
		+	* A.Fedorov, X.Li, K.Pohl, S.Bouix, M.Styner, M.Addicott, C.Wyatt, J.B.Daunais, W.M.Wells, R.Kikinis "Atlas-guided Segmentation of Vervet Monkey Brain MRI". The Open Neuroimaging Journal, 2011, 5(Suppl 2-M7), pp.186-197. doi:10.2174/1874440001105010186 [http://www.na-mic.org/publications/item/view/2119 URL]

@@ Line 60: / Line 60: @@
 =Result=
-[[Image:EMSegmenter NHP T1.png]]<br>
+<gallery perrow=1: widths=630px : heights=210px>
-[[Image:NHP_Labelmap.png]]<br>
+Image:EMSegmenter NHP T1.png
 =Acknowledgment=

@@ Line 44: / Line 44: @@
 Image Spacing   = 0.4688 x 0.4688 x 0.50002
-Acquisition details for the images used in the atlas construction: Axial T1-weighted MR images were acquired on a 3T GE scanner with a circularly-polarized, single channel dedicated RF coil with an internal diameter of 18.4 cm (Litzcage, Doty Scientific, Columbia, SC), using a 3D SPGR sequence (TI 600ms, TE 3.276ms, TR 15.28ms; flip angle 15o; matrix 256x256; FOV 12cm; in-plane resolution 0.47mm; slice thickness 0.5mm).
+Images were acquired at Wake Forest University. Acquisition details for the images used in the atlas construction: Axial T1-weighted MR images were acquired on a 3T GE scanner with a circularly-polarized, single channel dedicated RF coil with an internal diameter of 18.4 cm (Litzcage, Doty Scientific, Columbia, SC), using a 3D SPGR sequence (TI 600ms, TE 3.276ms, TR 15.28ms; flip angle 15o; matrix 256x256; FOV 12cm; in-plane resolution 0.47mm; slice thickness 0.5mm).
 {| class="wikitable"

@@ Line 71: / Line 71: @@
 * Bob Croft (WFU)
 * Andriy Fedorov (BWH)
 =Citations=

@@ Line 67: / Line 67: @@
 =Collaborators=
-James Daunais (WFU)
+* James Daunais (WFU)
-Chris Wyatt (VT)
+* Chris Wyatt (VT)
-Bob Croft (WFU)
+* Bob Croft (WFU)
-Andriy Fedorov (BWH)
+* Andriy Fedorov (BWH)
 =Citations=

← Older revision		Revision as of 03:39, 8 December 2010
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	Image Spacing = 0.4688 x 0.4688 x 0.50002		Image Spacing = 0.4688 x 0.4688 x 0.50002

		+	Acquisition details for the images used in the atlas construction: Axial T1-weighted MR images were acquired on a 3T GE scanner with a circularly-polarized, single channel dedicated RF coil with an internal diameter of 18.4 cm (Litzcage, Doty Scientific, Columbia, SC), using a 3D SPGR sequence (TI 600ms, TE 3.276ms, TR 15.28ms; flip angle 15o; matrix 256x256; FOV 12cm; in-plane resolution 0.47mm; slice thickness 0.5mm).

	{\| class="wikitable"		{\| class="wikitable"

@@ Line 12: / Line 12: @@
 # the segmentations obtained in the previous step were pixel-wise averaged for each structure to obtain probabilistic atlases
-The current pipeline consist of the following steps:
+The current segmentation pipeline consist of the following steps:
 * Step 1: Register the atlas to the MRI scan via [[Modules:BRAINSFit| BRAINSFit]] (Johnson et al 2007)
 * Step 2: Compute intensity distribution (mean and variance) for each label by automatically sampling from the MR scan. The sampling for a specific label is constrained to the region that consists of voxels with high probability (top 95%) of being assigned to the label according to the aligned atlas.

@@ Line 63: / Line 63: @@
 =Acknowledgment=
-The construction of the pipeline was supported by funding from NIH NCRR 2P41RR013218 Supplement.
+The construction of the pipeline was supported by funding from NIH NCRR 2P41RR013218 Supplement and by R01 AA016748 [http://wiki.na-mic.org/Wiki/index.php/NA-MIC_NCBC_Collaboration:Measuring_Alcohol_and_Stress_Interaction (NA-MIC NCBC Collaboration with Wake Forest University and Virginia Tech: Measuring Alcohol and Stress Interaction)].
 =Collaborators=