Difference between revisions of "Collaboration:UNC"
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== Goal == | == Goal == | ||
| − | * | + | * Reviewing shape analysis with current NAMIC data |
| − | * | + | * Establishing a concrete plan and schedule for collaborations. Target projects are shape analysis and statistical analysis of anisotropy measure along fibers. |
| − | == | + | == Agenda == |
| − | * | + | * 10am: UNC presentations for Psychiatrists/Psychologists: |
| − | ** | + | ** Shape Analysis of Caudate and Corpus Callosum Data (30 min)[[Image:2005_NAMIC_ShapeSchizoBWH.ppt|Image:2005 NAMIC ShapeSchizoBWH.ppt]] |
| − | ** | + | ** 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]] |
| − | * | + | ** 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]] |
| − | ** | + | |
| − | ** | + | * 11:15am: Open Discussion with PNL on immediate and future collaborations plans. |
| − | ** | + | ** Establish what UNC needs from PNL and PNL from UNC. |
| − | * | + | ** Resolve technical issues such authorship, clinical data, etc... |
| − | * | + | |
| − | * | + | * 12pm: Lunch |
| − | ** | + | * 1pm: Wrap up of PNL/UNC collaboration plans |
| − | ** | + | * 2pm: UNC presentations for Computer Scientists. |
| + | ** Shape Analysis: UNC Shape Analysis Pipeline in ITK/NAMIC [[Image:2005_10_ShapePipeline.ppt|Image:2005 10 ShapePipeline.ppt]] | ||
| + | ** Shape Analysis: Statistical Non-Parametric Permutation tests for shape hypothesis testing, [[Image:2005_10_NonParamShapeStats.ppt|Image:2005 10 NonParamShapeStats.ppt]] | ||
| + | ** DTI Tensor Analysis [[Image:Isabelle100705-2.ppt|Image:Isabelle100705-2.ppt]] | ||
== Participants == | == Participants == | ||
| − | |||
| − | |||
| − | |||
| − | |||
* Martin Styner (UNC) | * Martin Styner (UNC) | ||
* Isabelle Corouge (UNC) | * Isabelle Corouge (UNC) | ||
| − | * | + | * Martha Shenton (PNL) |
| − | * | + | * James Levitt (PNL) |
| + | * Marek Kubicki (PNL) | ||
| + | * C-F Westin (BWH) | ||
| + | * Marc Niethammer (PNL) | ||
| + | * Sylvain Bouix (PNL) | ||
| + | |||
| + | == Discussion overview == | ||
| + | |||
| + | '''Statistical shape analysis:''' | ||
| + | |||
| + | Caudate (SPD): | ||
| + | |||
| + | * Spherical harmonics for shape description | ||
| + | * local/global/parcellated significance and anlysis | ||
| + | * Local and global differences on R, but only local on L | ||
| + | * main shape difference in caudate head, small effect in caudate tail | ||
| + | * volume reduction in SPD | ||
| + | |||
| + | Corpus callosum: | ||
| + | |||
| + | * model based 2D segmentation of corpus callosum | ||
| + | * 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 | ||
| + | |||
| + | <br /> DTI: | ||
| + | |||
| + | * quantitative analysis of DTI data (along fibers; statistics within fiber bundles) | ||
| + | |||
| + | <br />'''PNL provides:''' | ||
| + | |||
| + | * an interpretation of the shape differences seen in SPD vs control group caudates | ||
| + | * a larger dataset to improve the statistical significance (chronic SZ?) | ||
| + | |||
| + | <br />'''UNC provides:''' | ||
| + | |||
| + | * statistical shape analysis software | ||
| + | * fiber viewer and fiber tracking software (in Namic sandbox see also [http://www.ia.unc.edu/dev software here]) | ||
| + | * tools for quantitiative analysis of DTI data (statistics of diffusion metrics and tensors along fibers and across fibers within a fiber bundle) | ||
| + | |||
| + | '''Issues:''' | ||
| + | |||
| + | * very small sample sizes (-> PNL will provide more and different data) | ||
| + | * local shape difference significance measures are very conservative or not conservative enough (is there a middle groud?) | ||
| + | * not clear how to compare fiber tracts between subjects (how to align?) | ||
| + | |||
| + | '''Possible future work:''' | ||
| + | |||
| + | * Do statistical caudate analysis for chronic SZ (expect larger changes than for SPD)? | ||
| + | * Hippocampus study using the UNC software? | ||
Latest revision as of 13:52, 18 December 2006
Home < Collaboration:UNCGoal
- Reviewing shape analysis with current NAMIC data
- Establishing a concrete plan and schedule for collaborations. Target projects are shape analysis and statistical analysis of anisotropy measure along fibers.
Agenda
- 10am: UNC presentations for Psychiatrists/Psychologists:
- Shape Analysis of Caudate and Corpus Callosum Data (30 min)File:2005 NAMIC ShapeSchizoBWH.ppt
- ITK SNAP: A level Set Semi Automatic Segmentation tool and its use at UNC for the segmentation of brain structures File:2005 NAMIC ShapeSchizoBWH.ppt
- UNC Tools for the Statistical Analysis of Anisotropy of Diffusion Tensor Measures along White Matter Fibers. (30min) File:Isabelle100705-1.ppt
- 11:15am: Open Discussion with PNL on immediate and future collaborations plans.
- Establish what UNC needs from PNL and PNL from UNC.
- Resolve technical issues such authorship, clinical data, etc...
- 12pm: Lunch
- 1pm: Wrap up of PNL/UNC collaboration plans
- 2pm: UNC presentations for Computer Scientists.
- Shape Analysis: UNC Shape Analysis Pipeline in ITK/NAMIC File:2005 10 ShapePipeline.ppt
- Shape Analysis: Statistical Non-Parametric Permutation tests for shape hypothesis testing, File:2005 10 NonParamShapeStats.ppt
- DTI Tensor Analysis File:Isabelle100705-2.ppt
Participants
- Martin Styner (UNC)
- Isabelle Corouge (UNC)
- Martha Shenton (PNL)
- James Levitt (PNL)
- Marek Kubicki (PNL)
- C-F Westin (BWH)
- Marc Niethammer (PNL)
- Sylvain Bouix (PNL)
Discussion overview
Statistical shape analysis:
Caudate (SPD):
- Spherical harmonics for shape description
- local/global/parcellated significance and anlysis
- Local and global differences on R, but only local on L
- main shape difference in caudate head, small effect in caudate tail
- volume reduction in SPD
Corpus callosum:
- model based 2D segmentation of corpus callosum
- 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
DTI:
- quantitative analysis of DTI data (along fibers; statistics within fiber bundles)
PNL provides:
- an interpretation of the shape differences seen in SPD vs control group caudates
- a larger dataset to improve the statistical significance (chronic SZ?)
UNC provides:
- statistical shape analysis software
- fiber viewer and fiber tracking software (in Namic sandbox see also software here)
- tools for quantitiative analysis of DTI data (statistics of diffusion metrics and tensors along fibers and across fibers within a fiber bundle)
Issues:
- very small sample sizes (-> PNL will provide more and different data)
- local shape difference significance measures are very conservative or not conservative enough (is there a middle groud?)
- not clear how to compare fiber tracts between subjects (how to align?)
Possible future work:
- Do statistical caudate analysis for chronic SZ (expect larger changes than for SPD)?
- Hippocampus study using the UNC software?
