principles of mri

Principles of MRI

Principles of MRI

• Some terms:– Nuclear Magnetic Resonance (NMR)

• quantum property of protons• energy absorbed when precession frequency matches radio

frequency– Magnetic Resonance Imaging (MRI)

• uses spatial differences in resonance frequencies to form an image• basis of anatomical MRI

– functional Magnetic Resonance Imaging (fMRI)• exploits magnetic properties of hemaglobin to create images

changes in cortical blood flow

Principles of MRI

• Some terms:– Nuclear Magnetic Resonance (NMR)

• quantum property of protons• energy absorbed when precession frequency matches radio

frequency– Magnetic Resonance Imaging (MRI)

• uses spatial differences in resonance frequencies to form an image• basis of anatomical MRI

– functional Magnetic Resonance Imaging (fMRI)• exploits magnetic properties of hemaglobin to create images

changes in cortical blood flow

Principles of MRI

• Some terms:– Nuclear Magnetic Resonance (NMR)

• quantum property of protons• energy absorbed when precession frequency matches radio

frequency– Magnetic Resonance Imaging (MRI)

• uses spatial differences in resonance frequencies to form an image• basis of anatomical MRI

– functional Magnetic Resonance Imaging (fMRI)• exploits magnetic properties of hemaglobin to create images

changes in cortical blood flow

Principles of MRI

• Some terms:– Nuclear Magnetic Resonance (NMR)

• quantum property of protons• energy absorbed when precession frequency matches radio

frequency– Magnetic Resonance Imaging (MRI)

• uses spatial differences in resonance frequencies to form an image• basis of anatomical MRI

– functional Magnetic Resonance Imaging (fMRI)• exploits magnetic properties of hemaglobin to create images

changes in cortical blood flow

Principles of NMR• Protons are like little magnets

– they orient in magnetic fields like compass needles

– what way do they normally point?

Principles of NMR• Protons are like little magnets

– they orient in magnetic fields like compass needles

– what way do they normally point?– normally aligned with Earth’s

magnetic field

Principles of NMR• Protons are like little magnets

– they orient in magnetic fields like compass needles

– what way do they normally point?– normally aligned with Earth’s

magnetic field– NMR uses a big magnet to align all

the protons in a sample (e.g. brain tissue)

Principles of NMR• Protons are like little magnets

– Radio Frequency pulse will knock protons at an angle relative to the magnetic field

Principles of NMR• Protons are like little magnets

– Radio Frequency pulse will knock protons at an angle relative to the magnetic field

– once out of alignment, the protons begin to precess

Principles of NMR• Protons are like little magnets

– Radio Frequency pulse will knock protons at an angle relative to the magnetic field

– once out of alignment, the protons begin to precess

– protons gradually realign with field (relaxation)

Principles of NMR• Protons are like little magnets

– Radio Frequency pulse will knock protons at an angle relative to the magnetic field

– once out of alignment, the protons begin to precess

– protons gradually realign with field (relaxation)

– protons “echo” back the radio frequency that originally tipped them over

– That radio “echo” forms the basis of the MRI image

Principles of NMR• Protons are like little magnets

– The following simple equation explains MRI image formation

Functional Imaging• Recall that precessing protons give

off a radio “echo” as they realign with the magnetic field

• We pick up the combined echo from many protons that are in phase

Cognitive Neuroscience

Cognitive Neuroscience

Cognitive Neuroscience

Cognitive Neuroscience

Cognitive Neuroscience

Cognitive Neuroscience

Cognitive Neuroscience

Cognitive Neuroscience

Cognitive Neuroscience

Cognitive Neuroscience

Cognitive Neuroscience

Cognitive Neuroscience

Cognitive Neuroscience

Cognitive Neuroscience

Cognitive Neuroscience

Functional Imaging• Oxygenated hemoglobin is diamagnetic - it has no magnetic effects on

surrounding molecules

• Deoxygenated hemoglobin is paramagnetic - it has strong magnetic effects on surrounding molecules!

Hemoglobin

Functional Imaging• blood flow overshoots baseline

after a brain region is activated

• More oxygenated blood in that region increases MR signal from that region

Functional Imaging• recall that the precession

frequency depends on the field strength– anything that changes the field at

one proton will cause it to de-phase

Functional Imaging• recall that the precession

frequency depends on the field strength– anything that changes the field at

one proton will cause it to de-phase

• The de-phased region will give off less echo

Functional Imaging

• It is important to recognize that fMRI “sees” changes in the ratio of oxygenated to deoxygenated blood - nothing more– BOLD: Blood Oxygenation Level Dependant

contrast

Functional Imaging

• How do we create those pretty pictures?

• We ask the question “When the subject engages in this cognitive task, where does blood oxygenation change significantly?” “where does it change randomly?”

MRI Image Formation• First you need a scanner:

– The first MRI scanner

MRI Image Formation• Modern Scanners

MRI Image Formation• Our Scanner

MRI Image Formation• Our Scanner

MRI Image Formation• Our Scanner

MRI Image Formation• Our Scanner

Experimental Design in fMRI

• Experimental Design is crucial in using fMRI

• Simplest design is called “Blocked”– alternates between active and “rest” conditions

Active Rest Active Rest

60 sec 60 sec 60 sec 60 sec

Experimental Design in fMRI

• Experimental Design is crucial in using fMRI

• Simplest design is called “Blocked”– alternates between active and “rest” conditions

Active Rest Active Rest

60 sec 60 sec 60 sec 60 sec

Experimental Design in fMRI

• A voxel in tissue insensitive to the task demands shows random signal change

Active Rest Active Rest

60 sec 60 sec 60 sec 60 sec

Sign

al

Experimental Design in fMRI

• A voxel in tissue that responds to the task shows signal change that matches the timecourse of the stimulus

Active Rest Active Rest

60 sec 60 sec 60 sec 60 sec

Sign

al

Experimental Design in fMRI

• A real example of fMRI block design done well:– alternate moving, blank and stationary visual input

Moving Blank Stationary Blank

40 sec 40 sec 40 sec 40 sec

Experimental Design in fMRI

• Voxels in Primary cortex tracked all stimuli

Experimental Design in fMRI

• Voxels in area MT tracked only the onset of motion

Experimental Design in fMRI

• Voxels in area MT tracked only the onset of motion• How did they know to look in area MT?

PET: another way to measure blood Oxygenation

• Positron Emission Tomography (PET)• Injects a radioisotope of oxygen• PET scanner detects the concentration of this isotope as it decays

Advantages of fMRI

• Advantages of MRI:1. Most hospitals have MRI scanners that can be

used for fMRI (PET is rare)2. Better spatial resolution in fMRI than PET3. Structural MRI is usually needed anyway4. No radioactivity in MRI5. Better temporal resolution in MRI

Advantages of PET

• Advantages of PET:1. Quiet2. A number of different molecules can be labeled

and imaged in the body

Limitations of fMRI

• All techniques have constraints and limitations

• A good scientist is careful to interpret data within those constraints

Limitations of fMRI

• Limitations of MRI and PET:1. BOLD signal change does not necessarily mean a

region was specifically engaged in a cognitive operation

2. Poor temporal resolution - depends on slow changes in blood flow

3. expensive