Difference between revisions of "Collaboration:UNC"

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== Goal ==
 
== Goal ==
  
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* Reviewing shape analysis with current NAMIC data
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* Discuss DTI tools
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* Establishing a concrete plan and schedule for collaborations. Target projects are shape analysis and statistical analysis of anisotropy measure along fibers.
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* Discuss DTI clinical projects
  
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== Agenda ==
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== Activities ==
  
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* 10am: UNC presentations for Psychiatrists/Psychologists:
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* Demonstration of FiberViewer and FiberTracking software (Sampath Vetsa)
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** Shape Analysis of Caudate and Corpus Callosum Data (30 min)[[Image:2005_NAMIC_ShapeSchizoBWH.ppt|Image:2005 NAMIC ShapeSchizoBWH.ppt]]
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** Training on step-by-step process for using software
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** ITK SNAP: A level Set Semi Automatic Segmentation tool and its use at UNC for the segmentation of brain structures [[Image:2005_NAMIC_ShapeSchizoBWH.ppt|Image:2005 NAMIC ShapeSchizoBWH.ppt]]
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*** Computing tensor image from diffusion weighted images
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** UNC Tools for the Statistical Analysis of Anisotropy of Diffusion Tensor Measures along White Matter Fibers. (30min) [[Image:Isabelle100705-1.ppt|Image:Isabelle100705-1.ppt]]
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*** Identifying and drawing regions-of-interest using InsightSNAP
−
 
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*** Performing tractography
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* 11:15am: Open Discussion with PNL on immediate and future collaborations plans.
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*** Analysis of FA,MD,eigenvalue properties along tracts of interest (splenium and genu used as examples)
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** Establish what UNC needs from PNL and PNL from UNC.
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** Feedback from UCI group on software ease-of-use
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** Resolve technical issues such authorship, clinical data, etc...
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** UCI group installed and tested software live on their machines - Jim Fallon tested software looking for challenging tracts in neonate data
−
 
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* Discussion of high-performance visualization of fiber tracts using modern graphics hardware (Vid Petrovic)
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* 12pm: Lunch
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* Clinical projects using DTI
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* 1pm: Wrap up of PNL/UNC collaboration plans
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** Explanation by Jim Fallon of previous studies in connection differences between schizophrenics and controls
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* 2pm: UNC presentations for Computer Scientists.
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** Discussion of Krabbe study between Martin Styner and Jim Fallon
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** Shape Analysis: UNC Shape Analysis Pipeline in ITK/NAMIC [[Image:2005_10_ShapePipeline.ppt|Image:2005 10 ShapePipeline.ppt]]
 
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** Shape Analysis: Statistical Non-Parametric Permutation tests for shape hypothesis testing, [[Image:2005_10_NonParamShapeStats.ppt|Image:2005 10 NonParamShapeStats.ppt]]
 
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** DTI Tensor Analysis [[Image:Isabelle100705-2.ppt|Image:Isabelle100705-2.ppt]]
 
  
 
== Participants ==
 
== Participants ==
  
 +
* Jim Fallon (UC Irvine)
 +
* Martina Panzenboeck (UC Irvine)
 +
* Vid Petrovic (UC Irvine)
 +
* Guido Gerig (UNC)
 
* Martin Styner (UNC)
 
* Martin Styner (UNC)
 
* Isabelle Corouge (UNC)
 
* Isabelle Corouge (UNC)
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* Martha Shenton (PNL)
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* Sampath Vetsa (UNC)
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* James Levitt (PNL)
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* Casey Goodlett (UNC)
−
* Marek Kubicki (PNL)
 
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* C-F Westin (BWH)
 
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* Marc Niethammer (PNL)
 
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* Sylvain Bouix (PNL)
 
−
 
 
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== Discussion overview ==
 
−
 
 
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'''Statistical shape analysis:'''
 
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Caudate (SPD):
 
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* Spherical harmonics for shape description
 
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* local/global/parcellated significance and anlysis
 
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* Local and global differences on R, but only local on L
 
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* main shape difference in caudate head, small effect in caudate tail
 
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* volume reduction in SPD
 
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Corpus callosum:
 
−
 
 
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* model based 2D segmentation of corpus callosum
 
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* DTI fiber tracking based corpus callosum subdivision method (coloring based on connection to white matter parcellation -- given as a template) results in probabilistic subdivision of the corpus callosum
 
−
 
 
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<br /> DTI:
 
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* quantitative analysis of DTI data (along fibers; statistics within fiber bundles)
 
−
 
 
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<br />'''PNL provides:'''
 
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* an interpretation of the shape differences seen in SPD vs control group caudates
 
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* a larger dataset to improve the statistical significance (chronic SZ?)
 
−
 
 
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<br />'''UNC provides:'''
 
−
 
 
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* statistical shape analysis software
 
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* fiber viewer and fiber tracking software (in Namic sandbox see also [http://www.ia.unc.edu/dev software here])
 
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* tools for quantitiative analysis of DTI data (statistics of diffusion metrics and tensors along fibers and across fibers within a fiber bundle)
 
−
 
 
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'''Issues:'''
 
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* very small sample sizes (-> PNL will provide more and different data)
 
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* local shape difference significance measures are very conservative or not conservative enough (is there a middle groud?)
 
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* not clear how to compare fiber tracts between subjects (how to align?)
 
−
 
 
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'''Possible future work:'''
 
−
 
 
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* Do statistical caudate analysis for chronic SZ (expect larger changes than for SPD)?
 
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* Hippocampus study using the UNC software?
 

Revision as of 13:52, 18 December 2006

Home < Collaboration:UNC

Goal

  • Discuss DTI tools
  • Discuss DTI clinical projects

Activities

  • Demonstration of FiberViewer and FiberTracking software (Sampath Vetsa)
    • Training on step-by-step process for using software
      • Computing tensor image from diffusion weighted images
      • Identifying and drawing regions-of-interest using InsightSNAP
      • Performing tractography
      • Analysis of FA,MD,eigenvalue properties along tracts of interest (splenium and genu used as examples)
    • Feedback from UCI group on software ease-of-use
    • UCI group installed and tested software live on their machines - Jim Fallon tested software looking for challenging tracts in neonate data
  • Discussion of high-performance visualization of fiber tracts using modern graphics hardware (Vid Petrovic)
  • Clinical projects using DTI
    • Explanation by Jim Fallon of previous studies in connection differences between schizophrenics and controls
    • Discussion of Krabbe study between Martin Styner and Jim Fallon

Participants

  • Jim Fallon (UC Irvine)
  • Martina Panzenboeck (UC Irvine)
  • Vid Petrovic (UC Irvine)
  • Guido Gerig (UNC)
  • Martin Styner (UNC)
  • Isabelle Corouge (UNC)
  • Sampath Vetsa (UNC)
  • Casey Goodlett (UNC)
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