Statistical shape analysis is an important tool for understanding biological and anatomical structures from image data. The study of biological shape can give us insights into disease processes as well as normal growth and development. The theory of shape has a rich mathematical underpinning, including the theory of shape manifolds and diffeomorphic transformations. This tutorial will be aimed at researchers in shape analysis methodology as well as clinical researchers interested in applying these methods in applications.

Statistical Shape Analysis: Theory, Software, and Applications
This tutorial will cover the following topics:

• Shape Theory
  • Mathematics of shape spaces
  • Statistics in nonlinear shape spaces
  • Shape from image warping
  • Testing hypotheses about shape
• Shape Analysis Software: Current tools, publicly avaliable as part of the NAMIC and CCB projects, will be presented.
• Clinical Applications: Applications to various clinical studies will be presented, including autism, Alzheimer’s disease, healthy aging studies, and more.

Demonstrations

• Yonggang Shi: Overview of the CCB Shape Analysis Tutorial
• Jon Morra: Pipeline demo of Auto-Context Hippo volume parsing on 800 ADNI datasets
• Vishal Patel: HARDI and DTI Shape Modeling, Representation and Analysis
• Shantanu Joshi: Tools for Shape Representation Analysis
• Yonggang Shi: Direct 3D Shape Mapping and Shape Characterization

Registration
Please register to attend this Workshop via the ISBI 2009 Registration Page.
If you plan to attend, also complete this Registration Form.

Logistics
ISBI 2009 Conference registration: https://www.securecms.com/ISBI2009/Registration.asp

Date
Sunday, 06/28/09, 1:30PM - 6:00PM

Place
Boston Park Plaza Hotel
50 Park Plaza at Arlington Street
Boston, MA 02116
Phone: (617) 426-2000

Materials

Acknowledgment
This workshop is funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 RR021813 and P41 RR013642.

The LONI Pipeline provides a graphical framework for development, maintenance and dissemination of neuroimaging data-analysis protocols. The Pipeline environment offers a scalable infrastructure for graphical integration of diverse, complex and heterogeneous tools for neuroimaging and brain mapping research. This course will provide the necessary training to employ any of the available Pipeline library of modules and workflows. Attendees will also learn how to design new pipeline workflows by using existent modules or by introducing new module descriptors. All LONI tools, including the Pipeline, are freely distributed on the web (http://www.loni.ucla.edu/Software/). Specific neuroimaging workflows (e.g., tissue segmentation, cortical surface processing, etc.) will be demonstrated hands-on during the workshop.

Neuroimaging Solutions: A Hands-on Training Course for Data Processing, Analysis & Interpretation using the LONI Pipeline
Part 1: Introduction to the LONI Pipeline What is the LONI Pipeline? How does the Pipeline work? How to construct basic module-descriptions and pipeline-workflows? Pipeline optimization, environment variables, variable transformations, etc. Part 2: Neuroimaging Solutions - automated and robust neuroimaging pipelines for Data management, DB connections Skull-stripping and tissue classification Automated Brain-Volume parsing Cortical surface extraction Volume-based (VBM) and Tensor-based (TBM) morphometry

Pipeline Features

Pipeline Features: Data, Executable and Workflow Provenance: enables tracking data, workflow and execution history of all processes. Intelligence: facilitates the automated construction of elaborate, functional and valid workflows. Scripting: Pipeline workflows may be exported as makefiles or a bash scripts for external execution. Remote File Browser: enables browsing & selection of files at remote servers Server Status: provides information about the status of the connected Pipeline server(s). Job Execution Monitor: Provide status information of job execution Libraries: Server (remote) and Personal (client) Libraries of modules and workflows Data Interfaces: Provide diverse functions for data, database and remote server data retrieval. Heterogeneous Tool Integration: Enables the integration of data, tools and services from multiple sites, platforms and formats. Server Failover: Pipeline server provides a failover functionality to support smooth job completion despite accidental server loss.

Registration
Complete this Registration Form and Email for more information. All approved applicants will be informed of their registration status via email by May 2009.

Logistics
Organization for Human Brain Mapping 15 Annual Meeting: http://www.humanbrainmapping.org/sanfrancisco2009/

Date
Wed, 06/17/09, 4-6 PM

Place
San Francisco Marriott
Room: Foothill G
55 Fourth Street
San Francisco, California 94103 USA
Phone: 1-415-896-1600
Reservations: 1-800-228-9290
Fax: 1-415-486-8101

http://www.marriott.com/hotels/travel/sfodt-san-francisco-marriott/

Acknowledgment
This workshop is funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 RR021813 and P41 RR013642.

Back to the 2008 CCB SAB Meeting Page

• Dinner:  Napa Valley Grill, Wed 11/05/08, 6:30–8:30 PM

• Minutes

]]> http://ccb.loni.ucla.edu/2008/08/ccb-courses-training-and-education/feed/ http://ccb.loni.ucla.edu/2008/08/ccb-visitors-projects/ http://ccb.loni.ucla.edu/2008/08/ccb-visitors-projects/#comments Wed, 20 Aug 2008 16:59:02 +0000 cmena http://ccb.loni.ucla.edu/?p=387 Year Quarter Time Name Details 2008 July 14–21, 2008 All Day CCB/IPAM 2008 MBI Workshop CCB/IPAM 2008 MBI Workshop 2008 July 19, 2008 All Day CCB Demo Day CCB SW Tool Demo Day Training 2008 July 19, 2008 10AM–4 PM Chen Qin’s Visit to CCB/LONI Chen Qin - PA II Applicant 2008 Spring Mon, 05/05/08 Stanley Liang from Boston U, Visit to CCB/LONI hosted by Ivo Dinov Stanley Liang visit to CCB 2008 Spring 04/25/08 UCLA Math/IPAM CSUMS, Visit to CCB/LONI hosted by Ivo Dinov CSUMS Visit 2008 Spring Thu, 04/17/08 Anand Joshi from USC, Visit to CCB/LONI hosted by Ivo Dinov Anand Joshi visit to CCB 2008 Spring 04/10/08 Zhang Wanjun/Shanghai Jiao-Tong University (SJTU), China, Visit to CCB/LONI hosted by Ilya Eckstein & Ivo Dinov Zhang Wanjun/Shanghai Jiao-Tung University (SJTU), China 2008 Spring 04/03–04/08/08 Maxime Descoteaux, Visit to CCB/LONI hosted by Natasha Lepore & Ivo Dinov Maxime Descoteaux Visit 2008 Winter Fri, 02/15/08 Paul Laurienti from Wake Forest University, Background, Visit to CCB/LONI hosted by Ivo Dinov Paul Laurienti Visit 2008 Winter Fri, 02/01/08 Alistair Young from University of Auckland, NZ and PI of the Cardiac Atlas Project, Visit to CCB/LONI hosted by Ivo Dinov Alistair Young Visit 2008 Winter Mon 01/28/08, 3 PM Visit by David Gu Visit by David Gu 2007 Fall Fri, 11/16/07 Rashmi Sundareswara from CA / Univ. of Minnesota, Visit to CCB/LONI hosted by ZhuowenTu]] Rashmi Sundareswara visit to CCB 2007 Fall Thu, 11/01/07 Shantanu Joshi from FSU, Visit to CCB/LONI hosted by Ivo Dinov Shantanu Joshi visit to CCB 2007 Fall Wed/Thu, 09/26–27/07 Colin Taylor from Taylor MicroTechnology (TMT), Visit to CCB/LONI hosted by Ivo Dinov Colin Taylor visit to CCB/LONI 2007 Summer Sept. 17–18, 2007, Kansas University ADNI group visit Kansas University ADNI Group Visit Kansas U Visit 2007 Summer Sept. 10, 2007, Dick Knapp visit Dick Knapp from AAMC Dick Knapp Visit 2007 Summer 07/26/07, Fabian Nunez Visit California Assembly Speaker Visit CA Assembly Speaker Visit 2007 Summer Fri, 07/20/07, 10:00–12:00 Noon Sue Coliton from Paul G. Allen Family Foundation, Visit to CCB/LONI hosted by Ivo Dinov Sue Coliton visit to CCB/LONI 2007 Summer Thu/Fri, 07/19–20/07, 10:00AM–4:00PM David Houle from FSU Bio, Visit to CCB/LONI hosted by Ivo Dinov David Houle visit to CCB/LONI 2007 Summer Wed, 06/27/07, 11:00–12:00 Noon NYLF Visit to CCB/LONI hosted by Ivo Dinov NYLF visit to CCB/LONI 2007 Summer Wed, 06/06/07, 2:20–5:00 PM CCB Collaborators Visit to CCB/LONI hosted by Ivo Dinov Simpson/Bressler/Leahy 2007 May 21-25, 2007 TBD CCB/IPAM 2007 Workshop on Random Shapes CCB/IPAM 2007 Workshop on Random Shapes 2007 Spring Tue., 04/24/2007, 11:00 - 12:00 Noon Buckley Students’ Visit Buckley Students Visit 2007 Spring Mon., Mar. 26 2007, 11:00–12:00 Noon St. Paul 6th Grader Students’ Visit St. Paul Students Visit 2007 Ongoing Ongoing Researcher TBD Fractal Representation of Biological Shape: Project Details 2007 Ongoing Ongoing Researcher TBD Wavelet Representation of Biological Shape: Project Details 2007 Winter Wed., Mar. 07 2007, 3:30–5:30PM Young Presidents’ Organization (YPO) Visit Young Presidents’ Organization 2007 Winter Wed., Mar. 07 2007, 2:00–2:30PM UCLA Alumni Academy Visit UCLA Alumni Academy 2007 Winter Feb. 06, 2007, Kansas University ADNI group visit Kansas University ADNI Group Visit Kansas U Visit 2007 Winter Mon., Mar. 05 2007, 2:00–4:00PM UCLA NS IDP Site Visit UCLA NS IDP Visit/Training 2007 Winter Mon., Feb. 05 2007, 2:00–4:00PM UCLA NS IDP Site Visit UCLA NS IDP Visit/Training 2006 Oct. 20, 2006 1–3 PM CCB SW Tool Projects CCB SW Tool Projects 2006 Ongoing Ongoing Individual Researcher’s Projects Individual Researcher’s Projects 2006 Summer May–August 2006 Bret Hanlon Bret Hanlon’s Project Details 2006 Summer June–August 2006 Val Stamboltsian (PA II) Val Stamboltsian Project Details 2006 Spring Fri., April 14 2006, 11:30AM–12:00PM UCLA NS IDP Site Visit UCLA NS IDP Site Visit 2006 Spring 04/21/06 Byung-Woo Hong’s Remeshing Project Byung-Woo Hong’s Remeshing Project 2006 Spring TBD Technical Writer Possition Technical Writer Position 2006 Spring TBD Sumiko Takayanagi, Technical Writer Candidate Sumiko Takayanagi’s Project 2006 Winter Mon, 03/20/06 Neuroscience IDP Grad Rectuits Visit hosted by Ivo Dinov Prospective NS IDP Graduate Students Visit 2006 Winter Quarter Project Neuroimaging and Brain Mapping Vocabilary Project. Supervised by by Ivo Dinov Neuroimaging and Brain Mapping Vocabilary Project 2006 Summer June–August 2006 Olof Lindberg Olof Lindberg’s Project Details 2006 Summer Tue, 06/27/06, 10:00–12:00 Noon NYLF Visit to CCB/LONI hosted by Ivo Dinov NYLF visit to CCB/LONI 2006 Winter Thu, 03/09/06 Stefano Soatto’s CS Grad Rectuits Visit hosted by Ivo Dinov Prospective CS Graduate Students Visit 2006 Winter Fri, 02/10/06 Peter Lyster’s Visit to CCB/LONI Hosted by Ivo Dinov Peter Lyster’s visit to CCB/LONI ]]> http://ccb.loni.ucla.edu/2008/08/ccb-visitors-projects/feed/ http://ccb.loni.ucla.edu/2008/08/385/ http://ccb.loni.ucla.edu/2008/08/385/#comments Wed, 20 Aug 2008 16:55:22 +0000 cmena http://ccb.loni.ucla.edu/?p=385 Date Title Time Contact More Ongoing CCB Principals Meeting Flexible (Fridays 12-1 PM) Ivo Dinov CCBPrincipalsMeetings Nov. 06, 2008 CCB SAB DIVE Ivo Dinov 2008 CCB SAB August 13–14, 2008 2008 NCBC All-Hands Meeting 2 Days Ivo Dinov 2008 NCBC All-Hands Meeting July 19, 2008 IPAM/CCB Mathematics of Brain Imaging (MBI) Workshop IPAM/CCB Paul Thompson 2008 IPAM/CCB MBI Workshop July 07–11, 2008 CCB/SIAM Imaging Science Meeting SIAM/San Diego Luminiva Vese & Ivo Dinov 2008 CCB/SIAM Meeting March 13, 2008 CCB Semiannual SW Demos Location: DIVE Ivo Dinov Semiannual CCB SW Demos Thu, 11/29/2007 CCB AHM /SW Demos Location: NRB Auditorium Ivo Dinov CCB All-Hands Meeting & SW Demos Thu, 05/08/07 CCB SAB DIVE Ivo Dinov 2007 CCB SAB 2007 CCB 2007 Events varying Ivo Dinov CCB Major 2007 Events Feb 06, 2007 Kansas University ADNI group visit All Day Ivo Dinov Kansas University ADNI Group Visit TBD Week of 10/09–13/2006 Pipeline/SCIRun TCon Location: TCon/T-Room Ivo Dinov Pipeline/SCIRun Thu, 08/10/06 CCB Education/Workshop Web Needs T-Room Ivo Dinov CCB Edu Planning Meeting Ongoing CCB/LONI Data Processing Protocols meetings Varies Ivo Dinov CCB/LONI Data Processing Protocols meetings Ongoing CCB Shape Paper Meeting Flexible Ivo Dinov CCB/LONI Biological Shape, Form and Size Paper Ongoing CCB SIG Meetings Various CCB Special Interest Group Chairs CCB SIGs Ongoing CCB Web Calendar Various CCB Web Calendar Manager (Grace Liang) CCB Calendar Ongoing CCB Presents Series Various Ivo Dinov CCB Presents Talks Winter Quarter 2006 CCB Course Computaitonal Brain Mapping and Neuroimaging 10:00–11:15 AM, UCLA/BMC #221 Ivo Dinov NS 272 Fri, 09/08/06 LONI Open House Location: NRB Grace Liang LONI Open House Thu–Fri, 07/13–14/2006 CCB AHM / LONI Retreat Location: Calamigos Ranch, 327 S. Latigo Canyon Road, Malibu, CA 90265, http://www.calamigos.com/ Ivo Dinov CCB All-Hands Meeting Tue, 06/27/06 NYLF Visit to CCB/LONI 10:00–12:00 Noon Ivo Dinov NYLF visit to CCB/LONI Thu–Fri, 06/22-23/06 CCB SW Tool Demos 2–4 PM, DIVE Ivo Dinov CCB SW Tool Demos Thu, 05/25/06 CCB SAB Location: DIVE Ivo Dinov CCB SAB 05/15–17/06, Minneapolis, MN, USA CCB-SIAM Symposium on Imaging and Volumetric Brain Segmentaiton All Day 05/16/06 Ivo Dinov CCB-SIAM Symposium on Imaging 03/24–25/06 NCBC Ontology Workshop All day Ivo Dinov NCBC Ontology Workshop 03/07/05 Zhuang H and Valentino DJ “Intracranial segmentation of MR Images: challenges and methods,” presented at the meeting of the CCB Special Interest Group on Segmentation (CCB SIG-SEG) 10:00 AM Dr. Daniel J. Valentino Complete Presentation (PDF, 18MB) 02/24/05 Software Demonstrations Ivo Dinov Agenda and Notes 02/17/05 Virtual Aneurysm 2005 Workshop Dr. Daniel J. Valentino Aneurysm Project 02/09/05 Technology Infrastructure Committee TBD Dr. Daniel J. Valentino 01/27/05 CCB SIG-SEG meeting Agenda Ivo Dinov Agenda (PDF) 11/06/04 CCB Kickoff All-Hands Meeting Ivo Dinov Agenda and Notes ]]> http://ccb.loni.ucla.edu/2008/08/385/feed/ http://ccb.loni.ucla.edu/2008/07/ccb-demo-day-software-demos-training-event/ http://ccb.loni.ucla.edu/2008/07/ccb-demo-day-software-demos-training-event/#comments Sat, 19 Jul 2008 19:11:15 +0000 kaliprando http://ccb.loni.ucla.edu/?p=1345 Saturday, July 19, 2008, UCLA, NRB Auditorium

The Center for Computational Biology is organizing a 1-day training workshop that will include demonstrations of novel tools for computational, translational and applied neuroscience research. This year, we have decided to organize the CCB software tools training in three distinct sessions – Shape Tools, DTI/HARDI Software, and Workflows and Validation Resources. These three topics reflect the core aims, vision, research and development efforts undertaken by Center faculty, students, trainees and other investigators.

The complete details about this Event are included here.