Difference between revisions of "ITK Spherical Harmonics filter for shape analysis of cell nuclei"

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<h3>Approach, Plan</h3>
 
<h3>Approach, Plan</h3>
* Use implementation of SPHARMS-PDM [3] as a starting point
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* Use implementation of SPHARM-PDM [3] as a starting point
 
* Evaluate efficacy of itkQuadEdgeMesh to compute other descriptors [4] of nuclear surface
 
* Evaluate efficacy of itkQuadEdgeMesh to compute other descriptors [4] of nuclear surface
  

Revision as of 05:27, 21 June 2010

Home < ITK Spherical Harmonics filter for shape analysis of cell nuclei

Key Investigators

  • OSU: Shantanu Singh, Raghu Machiraju
  • Harvard Medical School: Arnaud Gelas, Kishore Mosaliganti, Sean Megason

Project

Objective

  • In our recent work[1] on studying the variation of nuclear structure in tumor microenvironments [2], we have used SPHARM-PDM [3] to model 3D nuclear shape. We are interested in using itkQuadEdgeMesh as the mesh representation to this end and will be evaluating the use of this class for our system.

Approach, Plan

  • Use implementation of SPHARM-PDM [3] as a starting point
  • Evaluate efficacy of itkQuadEdgeMesh to compute other descriptors [4] of nuclear surface

Progress

  • Current system for statistical shape analysis of nuclear morphology uses [3] to generate the representation


1. Shantanu Singh, Sundaresan Raman, Enrico Caserta, Gustavo Leone, Michael Ostrowski, Jens Rittscher, Raghu Machiraju: Analysis of Spatial Variation of Nuclear Morphology in Tissue Microenvironments, 7th IEEE International Symposium on Biomedical Imaging: From Nano to Macro, 2010.

2. Trimboli et. al., Pten in stromal fibroblasts suppresses mammary epithelial tumours. Nature 461 (7267) p. 1084-91, 2009

3. Martin Styner, Ipek Oguz, Shun Xu, James J Levitt, Martha E Shenton, Guido Gerig Framework for the Statistical Shape Analysis of Brain Structures using SPHARM-PDM, Insight Journal p. 1-20 (2006)