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CCB Biological Projects
- Specific Biological Problems addressed by the CCB SIGs
| Name | Description | Literature | Details | Data |
|---|---|---|---|---|
| Skull-stripping | automatic removal of extra-cerebral tissue | |||
| Global Segmentaiton | Accurate and automated WM/GM/CSF Brain Segmentation |
http://www.loni.ucla.edu/twiki/pub/CCB/CcbBiologicalProjects/Rottenberg_Seg_Comparison.pdf
http://www.loni.ucla.edu/twiki/pub/CCB/CcbBiologicalProjects/Shattuck01.pdf
http://www.pascal-network.org/Workshops/IOR04/Programme/
Online Lecture Notes on Digital Image Analysis and Understanding
Cortical Shape Representation Using Directed Graphs
Shape Modeling and Representation Primer
Wavelet-based Segmentation, Denoising and Registration
Fast Image Segmentaiton using Wavelets
http://cvs.sourceforge.net/viewcvs.py/eeg/mri_toolbox/segmentation/
Bayesian Complete and Automated Anatomical Segmentation of the Adult MOUSE Brain
A Unified Framework for Automated Spatial Registration and Volume Segmentation of the Brain (Mike Brady's Group)
Another Unified Framework for Automated Spatial Registration and Volume Segmentation of the Brain (PhD Thesis by YM Wang) Bayesian Complete and Automated Anatomical Segmentation of the Adult HUMAN Brain The most comlete tutorial on level-set-based tools for brain image progessing - a must-read for anyone using level-sets The ultimage goal of the Global Segmentation is to accurately estimate the White Matter, Gray Matter and the Cerebro-Spinal Fluid in the entire brain. Sample data can be obtain from this CCB Download places: http://www.loni.ucla.edu/CCB/Resources/; http://www.loni.ucla.edu/CCB/Resources/CCB_SIG_SEG_TestData.zip and https://services.loni.ucla.edu/ida/login.jsp?search=true
| Name | Description | Literature | Details | Data | |
|---|---|---|---|---|---|
| Regional Segmentation | Accurate and automated WM/GM/CSF subcortical Segmentation | ||||
| Microarray Analysis | Develop new mathematical and statistical methods for microarray data analysis | Math/Stat of Microarray Modeling Workshop at IMA | |||
| Cortical modeling | Cortical Surface Representation | http://www.loni.ucla.edu/twiki/pub/CCB/CcbBiologicalProjects/Implicit_Parametric_Representation.pdf | |||
| Topo-Surface | Topologically correct surface representation of the cortex | ||||
| Cortical ribbon | (inner & outer surface), thickness assessment | ||||
| Shape Representation | parametric or implicit | Mathematical Definition of Biological Shape, Form and Size | |||
| Hippocampus | Modeling | ||||
| Caudate | Modeling | ||||
| Ventricles | Ventricular surface modeling | ||||
| Feature Extraction | Major sulcal curves | http://www.loni.ucla.edu/ad/AD_protocol/sulcal.html | |||
| Gyri Modeling | Major Gyri | ||||
| Modeling single structures across species | |||||
| Auto Feature Extraction | Unsupervised learning (and modeling) of distributions of feature morphologies (e.g., Bayesian adaptive probability priors on anatomical shapes) | Lecture Notes and Code Samples | |||
| Vasculature | Automated vasculature segmentation and atlasing (MRA) | ||||
| Cytoarchitectonics | Automatic cytoarchitectonic delineation | ||||
| Lesions | WM: stroke, multiple sclerosis; GM: tumors, atrophy | ||||
| DTI | Segmentation & denoising of DTI data |
- Shape_Representation_3dm_10_reconstruction.pdf: Shape Modeling and Representation Primer
- 91-pdf.pdf: Wavelet-based Segmentation, Denoising and Registration
- sdarticle.pdf: Fast Image Segmentaiton using Wavelets
- Implicit_Parametric_Representation.pdf: Implicit and Parameteric Surfaces: Pros & Cons
- Ali_MouseAutoSeg.pdf: A.Ali's Complete Automatic Mouse Brain Segmentation
- Fischl_HumanAutoSeg.pdf: Fischl's Complete Automated Human Brain Segmentation
- Complete_LevelSet_SegmentationTutorial.pdf: The Complete Level-Set Brain Image Processing Archive
- Brady_Unified_Registr_Segment.pdf: Unified Framework for Spatial Registration and Volume Segmentation
- Thesis_YMWang.pdf: YM Wang's PhD Thesis on Unified Statistical Framework for Registration and Segmentation (2000)
- Monteiro_ShapeFormSize_Paper.pdf: Mathematical Definition of Biological Shape, Form and Size
Attachment  | Action | Size | Date | Who | Comment |
|---|---|---|---|---|---|
 REX_BEMA.pdf | manage | 721.7 K | 05 Apr 2005 - 21:34 | Main.ccb | LONI BEMA Segmentation Comparison |
| Rottenberg_Seg_Comparison.pdf | manage | 457.5 K | 05 Apr 2005 - 21:35 | Main.ccb | Rottenberg Segmentation Review |
| Shattuck01.pdf | manage | 1207.5 K | 05 Apr 2005 - 21:36 | Main.ccb | Shattuck Brain Suite |
| Shape_Representation_3dm_10_reconstruction.pdf | manage | 2912.6 K | 08 Jun 2005 - 20:36 | Main.ccb | Shape Modeling and Representation Primer |
| 91-pdf.pdf | manage | 1185.6 K | 10 Jun 2005 - 00:37 | Main.ccb | Wavelet-based Segmentation, Denoising and Registration |
| sdarticle.pdf | manage | 424.7 K | 10 Jun 2005 - 00:47 | Main.ccb | Fast Image Segmentaiton using Wavelets |
| Implicit_Parametric_Representation.pdf | manage | 286.3 K | 21 Jul 2005 - 19:04 | Main.ccb | Implicit and Parameteric Surfaces: Pros & Cons |
| Ali_MouseAutoSeg.pdf | manage | 1784.1 K | 08 Aug 2005 - 19:06 | Main.ccb | A.Ali's Complete Automatic Mouse Brain Segmentation |
| Fischl_HumanAutoSeg.pdf | manage | 451.8 K | 08 Aug 2005 - 19:07 | Main.ccb | Fischl's Complete Automated Human Brain Segmentation |
| Complete_LevelSet_SegmentationTutorial.pdf | manage | 699.4 K | 10 Aug 2005 - 22:30 | Main.ccb | The Complete Level-Set Brain Image Processing Archive |
| Brady_Unified_Registr_Segment.pdf | manage | 202.7 K | 26 Aug 2005 - 19:28 | Main.ccb | Unified Framework for Spatial Registration and Volume Segmentation |
| Thesis_YMWang.pdf | manage | 2735.4 K | 19 Sep 2005 - 19:58 | Main.ccb | YM Wang's PhD Thesis on Unified Statistical Framework for Registration and Segmentation (2000) |
| 01318723.pdf | manage | 1189.2 K | 23 Nov 2005 - 00:51 | Main.ccb | |
| Monteiro_ShapeFormSize_Paper.pdf | manage | 165.0 K | 14 Jan 2006 - 01:18 | Main.ccb | Mathematical Definition of Biological Shape, Form and Size |