HST-583

Functional Magnetic Resonance Imaging: 
Data Acquisition and Analysis

Fall 2001

Current Lectures Notes

  • Introduction

    •     Why is human brain mapping exciting? Why does fMRI play a special role?
         [R. Savoy, Acta Psychologica 107 (2001) 9-42] (pdf available on-line through MIT e-journals)
     
  • Human Subjects

    •    Safety issues for human subjects in functional MRI research (notes, presentation, screen-form)
     
     
  • MRI Physics I (notes, presentation)

    •     Overview of an MRI experiment. Equilibrium magnetization. Radio-frequency pulses. MR signal. Relaxation. Bloch equations.
  • MRI Physics II (notes, presentation_part1, presentation_part2)

    •     Spatial encoding of MR signal. Conventional and fast MRI. MRI sequence parameters.
  • MRI Physics III

    •    - Contrast in MRI. Review of Spin-Echo sequence. Proton density contrast. T2 contrast. Inversion Recovery (T1 contrast). Diffusion weighted MRI. (Presentation)
       - BOLD contrast. Extravascular and Intravascular Components in BOLD signal. Spin-Echo versus Gradient-Echo imaging for BOLD. Magnetic field strength effects on BOLD signal. (Presentation)
  • MRI Physics IV

    •     Cerebral blood volume and flow changes: effects on BOLD signal. Alternatives to BOLD contrast. (presentation_part1, presentation_part2)
  • MRI Glossary

    •  

     
     
     

  • Brain Physiology I

    •     Respiratory and Circulatory Physiology for Brain Imagers. (notes, presentation)
  • Brain Physiology II

    •     Physiological basis of BOLD signal. Neurovascular coupling. Global vs regionally specific changes in CBF metabolism. (presentation)
        Neural regulation of CNS vasculature. (notes, presentation)
  • Brain Physiology III

    •     Functional neuroanatomic systems. (notes, presentation)
        Techniques for detecting auditory and brainstem activation signals: cardiac gating and clustered volume acquisition. (notes, presentation)
     
     
  • Brain Structure I

    •     Characterization of structural MR data. Structural to functional registration. (presentation_part1, presentation_part2)
       Diffusion tensor imaging uses for white matter tract tracing. (presentation_part1, presentation_part2)
  • Brain Structure II

    •     Retinotopic structure of early visual cortex. Construction and use of surface models of the cortex. Automatic segmentation of subcortical structures. (presentation_part1, presentation_part2)
     
     
  • Imaging Neuroscience

    •     Experimental designs for fMRI:  block, spaced single trial, rapid single trial, periodic, other mixed designs. (presentation)
     
     
  • Statistics I

    •     Paradigm and statistical inference. (notes, review_notes)
  • Statistics II

    •     Building statistical models for fMRI. (notes)
  • Statistics III

    •     Application of statistical models for fMRI. Statistical considerations in experimental design. (presentation)
  • Statistics IV

    •     MEG-fMRI statistical analysis modeling: optimizing spatio-temporal resolution.
     

    Comments and suggestions to jovicich@mit.edu