SPM8 for PET and SPECT - Baltimore

SPM8 for PET and SPECT is an intermediate-level, 4-day data analysis workshop designed for investigators having familiarity with the fundamental principles of PET and SPECT data acquisition, with at least six months experience in analysis. It will be held at Johns Hopkins University in Baltimore, MD from AUG 14-17, 2012.

It is a satellite meeting of The 9th International Symposium on Functional Neuroreceptor Mapping of the Living Brain (NRM12).

The workshop will focus on using SPM8 and its extensions for preprocessing, statistical modeling and visualization of data associated with a range of image data types used in PET and SPECT basic and clinical experimental designs. While the primary emphasis will involve using the core SPM8 programs for these purposes, there will also be extensive discussion of a variety of software tools that extend the power of SPM8. Some of these tools facilitate quality assurance through artifact detection and mitigation at various analysis stages. Other tools support a variety of data visualization methods, including MRIcron and xjView.

As the presentations will include demonstrations and tutorials utilizing SPM8, participants are expected to bring a laptop with MATLAB, SPM8 and MRIcron already installed. Detailed setup instructions can be found here.

Each afternoon will end with a laboratory session, in which participants will gather in small groups to work through the stages of analyzing data from example experiments.

In addition, the website will provide guidance for subsequent self-study.

The course is sponsored by the JHU Department of Radiology and Radiological Sciences

Location: Directions to the classroom (ROOM 510) in the School of Nursing Building can be found here.

Register for the program here.

Payment: You can arrange payment using PAYPAL here.

The fee for the program is US$1500. Reduced rates of US$1250 for post-doctoral fellows and US$1000 for undergraduate, graduate or medical students are available.  A 20% discount is available to all Johns Hopkins University investigators.

Accommodations: Lodging near the medical campus is available at McElderry House.

Questions about the course arrangements or content should be directed to spmbasics@neurometrika.org

The course instructor will be Thomas Zeffiro.

 

Educational Objectives 

  • Understand the basic organization of the SPM GUI
  • Understand the organization of the SPM "toolbox"
  • Be able to construct batch processing scripts for preprocessing and statistical modeling
  • Understand the basic data preprocessing steps
  • Be able to construct a preprocessing sequence including realignment and spatial filtering
  • Understand the origins of the artifacts most commonly encountered in PET and SPECT datasets
  • Be able to explore a PET dataset for artifacts
  • Understand the basic PET single subject experimental design types
  • Be able to implement statistical analysis procedures for the basic single subject PET designs
  • Understand the basic single group experimental design types
  • Be able to implement statistical analysis procedures for the basic single group designs
  • Understand the basic multiple group experimental design types
  • Be able to implement statistical analysis procedures for the basic multiple group designs
  • Understand the process of incorporation of covariates in experimental designs
  • Be able to construct and estimate statistical models involving covariates
  • Be able to utilize the RIC Talairach Daemon for region labeling
  • Be able to utilize the SPM Anatomy toolbox for region labeling
  • Be able to use MRIcron for visualization, including volume rendering
  • Be able to use xjView for visualization and labeling
  • Understand the basic principles and procedures associated with ROI analysis

 

Tentative Schedule

Day 1

9:00AM-9:30PM  Course introduction

9:30AM-12:00PM  SPM introduction

  • SPM history
  • SPM architecture
  • The MATLAB environment
  • SPM toolboxes
  • SPM GUI
  • Batch editor
  • SPM Visualization

12:00PM-1:00PM LUNCH

1:00PM-3:00PM  Single subject analysis

  • Preprocessing
  • Model specification
  • Model estimation
  • Inference
  • Structure/function visualization

3:00-5:00 Laboratory exercises and homework assignment

Day 2

9:00AM-9:30PM  Homework review

9:30AM-12:00PM  Preprocessing

  • Preprocessing overview and background
  • Realignment
  • Spatial normalization
  • Spatial filtering

12:00PM-1:00PM  LUNCH

1:00PM-2:00PM  Preprocessing

  • Outlier detection and repair
  • ROI specification and processing

2:00PM-3:00PM  Statistics review: t-tests, regression, ANOVA, ANCOVA and the general linear model

3:00-5:00 Laboratory exercises and homework assignment 

Day 3

9:00AM-9:30PM  Homework review

9:30AM-12:00PM  Single subject design

  • Single subject design theory
  • Single subject  design demonstrations
  • Covariates in single subject designs

12:00PM-1:00PM LUNCH

1:00PM-3:00PM  Single subject estimation and inference

  • Estimation
  • Contrast specification
  • Critical thresholds

3:00PM-5:00PM  Laboratory exercises and homework assignment 

Day 4

9:00AM-9:30PM  Homework review

9:30AM-12:00PM  Single group design and estimation

  • Statistical modeling: summary statistics
  • Single group design theory
  • Contrast specification

12:00PM-1:00PM LUNCH 

1:00PM-3:00PM  Multiple group design and estimation

  • Multiple group design theory
  • Multiple group design inference
  • Covariates
  • Repeated measures

3:00PM-5:00PM  Visualization and anatomical labeling

  • Visualization with SPM8, MRIcron and xjview
  • Anatomical labeling with the Talairach Daemon, xjView and the SPM Anatomy Toolbox

 

LECTURE SLIDES