SFN2009 Slicer DTI Workshop

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Mapping the Brain with Diffusion Tensor Imaging - A Hands-On Workshop by the National Alliance for Medical Imaging Computing (NA-MIC)

Friday October 16th, 2009
8:30 AM - 5:00 PM

Satellite Workshop Goals

• To educate attendees in the fundamentals of Diffusion Tensor Imaging (DTI) data required to make informed decisions about how to analyze their own DTI data.
  
• To provide tutorials on DTI data validation and management (including how to put your image data into NRRD format).
  
• To provide hands on tutorials in the use of NA-MIC DTI analysis tools.
  
• To establish contact between NA-MIC Tookit experts (users and developers) and basic and clinical researchers in the global neuroimaging community.
  

Workshop Logistics

• The workshop venue will be posted as soon as we are notified by the SFN staff later this summer. We believe it will be held in the McCormick Center or one of the Co-headquarter hotels in Chicago, IL.
  

• Enrollment is limited to approximately 45-50 attendees due to the highly interactive format of the workshop.

• The material is targeted for an audience of graduate students, research fellows, junior faculty, research assistants and post-doctoral trainees from among the fields of clinical neuroscience (Psychiatry, Psychology, Neurology) as well as Radiology, and Computer Science.

Registration

• Instructions for registration to be posted shortly

• This Workshop is supported by the National Alliance for Medical Image Computing (NAMIC), funded by the National Institutes of Health through the NIH Roadmap for Medical Research, Grant U54 EB005149. Information on the National Centers for Biomedical Computing can be obtained from http://nihroadmap.nih.gov/bioinformatics.

Workshop Faculty

• Martin Styner, PhD, University of North Carolina Chapel Hill
• Guido Gerig, PhD, University of Utah
• Randy Gollub, MD, PhD, Harvard Medical School (Department of Psychiatry and Martinos Center, Department of Radiology, Massachussets General Hospital)
• Steve Pieper, PhD, Harvard Medical School (Surgical Planning Laboratory, Department of Radiology, Brigham and Women's Hospital)
• Anastasia Yendiki, PhD, Harvard Medical School (Martinos Center, Department of Radiology, Massachussets General Hospital)
• Sonia Pujol, PhD, Harvard Medical School (Surgical Planning Laboratory, Department of Radiology, Brigham and Women's Hospital)
• Katie Hayes, Brigham and Women's Hospital Surgical Planning Laboratory

Preparation for Workshop -- Important Information for all attendees

Suggested background reading for workshop:

• Le Bihan D, Mangin JF, Poupon C, et al. Diffusion tensor imaging:. concepts and applications. J Magn Reson Imaging 2001;13:534–546 [pdf download]
• Westin CF, Maier SE, Mamata H, Nabavi A, Jolesz FA, Kikinis R., Processing and Visualization for Diffusion Tensor MRI. Medical Image Analysis, 6(2)::93-108, June 2002 [pdf dowload]
• S. Mori and P.C.M. van Zijl, Fiber tracking: principles and strategies – a technical review. NMR in Biomedicine, 15(7-8):468-480, 2002 [pdf download]
  
  

This is hands-on training. All participants must come with their own computer and install our software and data. Windows XP, Linux or MacOS 10.4 or greater computers are supported. A minimum of 1 GB of RAM (2 GB if possible) and a dedicated graphic accelerator with 64mb of on board graphic memory are recommended.

Please complete the following items prior to the workshop.

• Software Installation Please install the newest release of the Slicer program. Details to be provided in September
  
• Download Data Please install the tutorial datasets </nowiki>
  Details to be provided in September
  

We will be happy to assist anybody who may encounter difficulties in the installation process. As first point of contact, send an email to the NAMIC-developers mailing list which is closely monitored by NA-MIC Tookit experts. Because we will focus on how to use the application(s) during the workshop not on how to install it, please do the install before you arrive. Most people find that the installation can be completed without difficulties. If you need any hands on assistance after making attempts to complete this on your own with email support, please arrive early (8:00 AM).

Tentative Agenda

8:30 AM - 5 PM

• 8:30 - 8:40 AM Goals of Workshop (Randy Gollub)
• 8:40 - 9:20 AM Introduction to DTI: what it is, how it is used in for research and clinical practice and its future potential (Martin Styner)
• 9:20 - 10:15 Mathematical and physical foundations of DTI (Anastasia Yendiki)
• 10:15 -10:30 Coffee Break
• 10:30 - 11:45 Getting to Know DTI really, really well- tensors, glyphs and more (Guido Gerig)
• 11:45 - 1:00 Lunch on own
• 1:00 - 2:00 Clinical applications (Guido Gerig/Randy Gollub)
• 2:00 - 3:00 Hands-on Session 1- Slicer and NA-MIC DTI tools part 1 (Sonia Pujol/Randy Gollub/Steve Pieper/Katie Hayes)
• 3:00 - 3:15 Coffee Break
• 3:15 - 4:30 Hands-on Session 2- Slicer and NA-MIC DTI tools part 2 (Sonia Pujol/Randy Gollub/Steve Pieper/Katie Hayes)
• 4:30 - 4:40 Ongoing NA-MIC Development Activities (Steve Pieper)
• 4:40 - 5:00 Users feedback - input from participants about this Workshop

To learn more about the NA-MIC Toolkit

Please visit our Wiki page [1]