hst.583 functional magnetic resonance imaging: data ... · after a blip tell you info about the...
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MIT OpenCourseWare http://ocw.mit.edu
HST.583 Functional Magnetic Resonance Imaging: Data Acquisition and AnalysisFall 2008
For information about citing these materials or our Terms of Use, visit: http://ocw.mit.edu/terms.
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Wald, fMRI MR Physics
MR physics and safetyfor fMRI
Lawrence L. Wald, Ph.D.
HST.583: Functional Magnetic Resonance Imaging: Data Acquisition and Analysis, Fall 2008Harvard-MIT Division of Health Sciences and TechnologyCourse Director: Dr. Randy Gollub.
Massachusetts General HospitalAthinoula A. Martinos Center
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Wald, fMRI MR Physics
• Why, introduction
• How: Review of k-space trajectoriesDifferent techniques (EPI, Spiral)
• Problems from B0 Susceptibility artifacts
Fast MR ImagingTechniques
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Wald, fMRI MR Physics
Why fast imaging
Capture time course,(e.g. hemodynamic)eliminate artifact from motion (during encode.)
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Wald, fMRI MR Physics
Magnetization vector durning MRRF
Voltage(Signal)
time
Mz
time
encode
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Wald, fMRI MR Physics
Review of Image encoding,journey through kspace
Two questions:
1) What does blipping on a gradient do to thewater magnetization.
2) Why does measuring the signal amplitudeafter a blip tell you info about the spatialfrequency composition of the image (k-space).
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Wald, fMRI MR Physics
Aside: Magnetic field gradient
Uniform magnet Field from gradient coils
Total field
Bo Gx x Bo + Gx x
x
zGx =∂Bz ∂x
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Wald, fMRI MR Physics
Step two: encode spatial info. in-plane
x
y
x
B F
ield
(w/ x
gra
dien
t) Bo
BTOT = Bo + Gz x
Freq.
Sign
alBo along z
υoυ
with gradient without gradient
“Frequency encoding”
v = γBTOT = γ(Bo + Gx x)
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Wald, fMRI MR Physics
How does blipping on a grad. encodespatial info?
y
B F
ield
(w/ z
gra
dien
t) Bo
Bo
Gy
τ
y1 y2
z
y
y1
y2
all y locsprocess at same freq.
all y locsprocess at same freq.
spins in foreheadprecessfaster...
υ(y) = γBTOT = γ Bo Δy Gyθ (y) = υ(y) τ = γ Bo Δy (Gy τ)
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Wald, fMRI MR Physics
How does blipping on a grad. encodespatial info?
z
y
y1
y2
yx yx
z
x y
z
υo
90°
yx
after RF After the blipped y gradient...
position y1 position 0 position y2
z z
Bo
θ (y) = υ(y) τ = γ Bo Δy (Gy τ)
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Wald, fMRI MR Physics
How does blipping on a grad. encodespatial info?
The magnetization vectorin the xy plane is wound intoa helix directed along y axis.
Phases are ‘locked in’ oncethe blip is over.
y
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Wald, fMRI MR Physics
θ (y) = υ(y) τ = γ Bo Δy (Gy τ)
The bigger the gradient blip area, the tighter the helix
y
small blip medium blip large blip
Gy
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Wald, fMRI MR Physics
What have you measured?Consider 2 samples:
unifo
rm w
ater 1 cm
signal is as big as if no gradientno signal observed
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Wald, fMRI MR Physics
10 mm
kx
ky
1/10 mm
1/5mm
1/2.5mm
1/1.2mm = 1/Resolution
Measurement intensity at a spatial frequency...
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Wald, fMRI MR Physics
kx
ky1 / Resx
1 / FOVx
FOVx = matrix * Resx
Fourier transform
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Wald, fMRI MR Physics
Sample 3 points in kspace
More efficient!
t
kx
1/10 mm
1/5mm
1/2.5mm
1/1.2mm = 1/Resolution
tGy
Gy
Frequency and phase encoding are the same principle!
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Wald, fMRI MR Physics
Conventional “Spin-warp” encoding
“slice select”
“phase enc”
“freq. enc”(read-out)
RF
tS(t)
tGz tGy
Gx t
t
kx
ky
one excitation, one line of kspace...
a1
a2
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Wald, fMRI MR Physics
Image encoding,
“Journey throughkspace”
The Movie…
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Wald, fMRI MR Physics
kx
ky1 / Resx
1 / FOVx
FOVx = matrix * Resx
Fourier transform
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Wald, fMRI MR Physics
Conventional “Spin-warp” encoding
“slice select”
“phase enc”
“freq. enc”(read-out)
RF
tS(t)
tGz tGy
Gx t
t
kx
ky
one excitation, one line of kspace...
a1
a2
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Wald, fMRI MR Physics
“Echo-planar” encoding
RF
tS(t)(nograds)
tGz tGy
Gx
t
kx
ky
one excitation, many lines of kspace...
etc...
T2*
T2*
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Wald, fMRI MR Physics
Bandwidth is asymmetric in EPI
kx
ky
• Adjacent points in kx have short Δt = 5 us (high bandwidth)
• Adjacent points along ky are takenwith long Δt (= 500us). (low bandwidth)
The phase error (and thus distortions) are in the phase encode direction.
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Wald, fMRI MR Physics
RF tGz tGy
Gx
t
esp = 500 us for whole body grads, readout length = 32 msesp = 270us for head gradients, readout length = 17 ms
Characterization of EPI performancelength of readout train for given resolutionor echo spacing (esp) or freq of readout…
‘echo spacing’ (esp)
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Wald, fMRI MR Physics
What is important in EPI performance?
Short image encoding time.
Parameters related to total encoding time:1) echo spacing.2) frequency of readout waveform.
Key specs for achieving short encode times:1) gradient slew rate.2) gradient strength.3) ability to ramp sample.
Good shimming (second order shims)
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Wald, fMRI MR Physics
Susceptibility in MR
The good.
The bad.
The ugly.
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Wald, fMRI MR Physics
Enemy #1 of EPI: local susceptibility gradients
Bo field maps in the head
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Wald, fMRI MR Physics
Enemy #1 of EPI: local susceptibility gradients
Bo field maps in the head
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Wald, fMRI MR Physics
What do we mean by “susceptibility”?
In physics, it refers to a material’s tendency to magnetize when placed in an external field.
In MR, it refers to the effects of magnetized material on the image through its local distortion of the static magnetic field Bo.
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Wald, fMRI MR Physics
Susceptibility effects occur near magnetically dis-similar materials
Field disturbance around air surrounded by water (e.g. sinuses)
Field map (coronal image)
1.5T
Bo
Ping-pong ball in water…
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Wald, fMRI MR Physics
Bo map in head: it’s the air tissue interface…
Sagittal Bo field maps at 3T
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Wald, fMRI MR Physics
Susceptibility field (in Gauss) increases w/ Bo
1.5T 3T 7T
Ping-pong ball in H20:Field maps (ΔTE = 5ms), black lines spaced by 0.024G (0.8ppm at 3T)
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Wald, fMRI MR Physics
Other Sources of Susceptibility You Should Be Aware of…
Those fillings might be a problem…
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Wald, fMRI MR Physics
Local susceptibility gradients: 2 effects
1) Local dephasing of the signal (signal loss) within a voxel, mainly from thru-plane gradients
2) Local geometric distortions, (voxellocation improperly reconstructed) mainly from local in-plane gradients.
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Wald, fMRI MR Physics
1) Non-uniform Local Field Causes Local Dephasing
Sagittal Bo field map at 3T 5 water protons in different parts of the voxel…
z
slowest
fastestx
y
z90°
T = 0 T = TE
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Wald, fMRI MR Physics
Local susceptibility gradients: thru-plane dephasing in grad echo EPI
Bad for thick slice above frontal sinus…
3T
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Wald, Zhengzhou 2008
1mm isotropic TE=30ms, GRAPPA =2
6/8 part-Fourier
Minimal OFC drop-out issues with 3T 1mm isotropic
Solution: high resolution
3T 32ch EPI
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Wald, fMRI MR Physics
Thru-plane dephasing gets worse at longer TE
3T, TE = 21, 30, 40, 50, 60ms
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Wald, fMRI MR Physics
Problem #2 Susceptibility Causes Image Distortion in EPI
Field near sinus
To encode the image, we control phase evolution as a function of position with applied gradients.
Local suscept. Gradient causes unwanted phase evolution.
The phase encode error builds up with time. Δθ = γ Blocal Δt
y
y
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Wald, fMRI MR Physics
Susceptibility Causes Image Distortion
Field near sinus
y
y
Conventional grad. echo, Δθ α encode time α 1/BW
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Wald, fMRI MR Physics
Susceptibility in EPI can give either a compression or expansion
Altering the direction kspace is transversed causes either local compression or expansion.
choose your poison…
3T whole body gradients
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Wald, fMRI MR Physics
Susceptibility Causes Image Distortion
Field near sinus
z
Echoplanar Image, Δθ α encode time α 1/BW
Encode time = 34, 26, 22, 17ms3T head gradients
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Wald, fMRI MR Physics
EPI and Spirals
kx
ky
Gx
Gy
kx
ky
Gx
Gy
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Wald, fMRI MR Physics
EPI SpiralsSusceptibility: distortion, blurring,
dephasing dephasing
Eddy currents: ghosts blurring
k = 0 is sampled: 1/2 through 1st
Corners of kspace: yes no
Gradient demands: very high pretty high
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Wald, fMRI MR Physics
B0
Nasal Sinus
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Wald, fMRI MR Physics
B0
Nasal Sinus + mouth shim
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Wald, fMRI MR Physics
Effect of Ear & Mouth Shim on EPI
B0
Courtesy of Peter Jezzard. Used with permission.
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Wald, fMRI MR Physics
Acquisition:
With fast gradients, add parallel imaging
SMA
SH
SENSE
Reconstruction:
Folded datasets+
Coil sensitivity maps
Reduced k-space sampling
{
Folded images ineach receiver channel
FOVk π2
=Δ
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Wald, RSNA 2007 A.A. Martinos Center, MGH Radiology
Using the detector array to encode image
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Wald, RSNA 2007 A.A. Martinos Center, MGH Radiology
90 ChannelUncombinedImages
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Wald, RSNA 2007
Parallel acquisition: noise penaltiesCalculating the g-factor map
full kaccel
SNRSNR
G R−=
Rate = 4Gmax=2.17
map of 1/G
noise correlation matrix
coil sensitivity profiles
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Wald, RSNA 2007
1/G-factor Maps, 3 Tesla
0
1.0
0.2
0.4
0.6
0.8
0.9
0.7
0.3
0.1
0.5
MGH96 Ch
Gmax=1.01 Gmax=1.04 Gmax=1.17 Gmax=1.42 Gmax=1.86
Gmax=1.02 Gmax=1.26 Gmax=2.6 Gmax=4.1 Gmax=6.0
12 Ch
Gmax=1.1 Gmax=1.52 Gmax=2.67 Gmax=4.78 Gmax=6.6
R=2 R=3 R=4 R=5 R=6
MGH32 Ch
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Wald, RSNA 2007
1/G-factor, 2D Acceleration
0
1.0
0.2
0.4
0.6
0.8
0.9
0.7
0.3
0.1
0.5
MGH96 Ch
Gmax=1.02 Gmax=1.05 Gmax=1.4 Gmax=1.6 Gmax=2.0
2X2 2X3 4X3 4X4 5X4
Gmax=1.05 Gmax=1.3 Gmax=2.3 Gmax=3.6 Gmax=8.6
MGH32 Ch
12 Ch
Gmax=1.26 Gmax=2.8 Gmax=36
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Wald, RSNA 2007 A.A. Martinos Center, MGH Radiology
3D encoding power of the array: eigenmodes of the sensitivity maps
MGH brain arrays
Analysis following:Univ. WürzburgBreuer et al.ISMRM 2005 p2668
The 90ch coilstill has significant components over 32ch.
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Wald, fMRI MR Physics
Fast gradients are the foundation, but EPIstill suffers distortion
(iPAT) GRAPPA for EPIsusceptibility
3T Trio, MRI Devices Inc. 8 channel arrayb=1000 DWI images
iPAT (GRAPPA) = 0, 2x, 3x
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Wald, fMRI MR Physics
4 fold acceleration of single shot sub-millimeter SE-EPI: 23 channel array
23 Channel array at 1.5T
With and without 4x Accel.
Single shot EPI,256x256, 230mm FOVTE = 78ms
Encoding with RF…
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Extending the phased array to more channels:23 channel “Bucky” array for 1.5T
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Wald, fMRI MR Physics
9 Fold GRAPPA acceleration 3D FLASH
23 Channel array at 1.5TCan speed up encoding by an order of magnitude!
9 minute scan down to 1 minute…
3D Flash, 1mm x 1mm x 1.5mm, 256x256x128
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Wald, Beijing 2008Triantafyllou, Hinds, MIT
3T Retinotopic mapping
32 channel coil improves fMRI
1 run 3 run 5 run 1 run
12 channel coil 32 channel coil
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Wald, Boston 2008 A.A. Martinos Center, MGH Radiology
Graham Wiggins
90 ch 1.5T 96 ch 3T
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3T SNR Maps
96 Ch
32 Ch
12 Ch
0
50
100
150
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Wald, Munich 2008
agn
3T SNR Profiles
Order of magnitude!
Position
SNR
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Wald, fMRI MR Physics
Questions, comments to:
Larry Wald