whole brain fractional anisotropy (fa) and apparent diffusion coefficient (adc) histogram analysis
DESCRIPTION
Whole Brain Fractional Anisotropy (FA) and Apparent Diffusion Coefficient (ADC) Histogram Analysis Xavier Golay PhD., Srirama V. Swaminathan PhD., Truman R. Brown PhD., Gary M. Brittenham MD., Christina Tosti MS. March 13, 2006. Histogram Procedure - PowerPoint PPT PresentationTRANSCRIPT
Whole Brain Fractional Anisotropy (FA) and Apparent Diffusion Coefficient (ADC) Histogram Analysis
Xavier Golay PhD., Srirama V. Swaminathan PhD., Truman R. Brown PhD., Gary M. Brittenham MD.,
Christina Tosti MS.
March 13, 2006
Histogram Procedure
• PAR/REC diffusion data is used to create FA, ADC, and color maps (DTIStudio, JHU).
• A brain extraction tool is used to create a mask based on the original diffusion data (FSL_BET).
• Mask from the diffusion data is applied to the FA and ADC map (FSL_avwmaths).
• Image histogram of the whole stripped brain is calculated and normalized (ImageJ, Excel).
Uncomplicated Malaria and Two Controls -- First exam
0
0.002
0.004
0.006
0.008
0.01
0.012
0.014
0.016
0.001 0.01 0.1 1
log(fa value) -- value is the bin start number
nu
mb
er o
f co
un
ts/
tota
l n
um
ber
of
cou
nts
control2
control1
UM_pt22
UM_pt07
UM_pt06
HP_pt02
Uncomplicated Malaria and Two Controls -- Second exam
0
0.002
0.004
0.006
0.008
0.01
0.012
0.014
0.016
0.001 0.01 0.1 1
log(fa value) -- value is the bin start number
nu
mb
er o
f co
un
ts/
tota
l n
um
ber
of
cou
nts
control2
control1
UM_pt22
UM_pt07
UM_pt06
HP_pt02
Cerebral Malaria and Two Controls -- First exam
0
0.002
0.004
0.006
0.008
0.01
0.012
0.014
0.016
0.001 0.01 0.1 1
log(fa value) -- value is the bin start number
nu
mb
er o
f co
un
ts/
tota
l n
um
ber
of
cou
nts
control2
control1
CM_pt10
CM_pt16
UM_pt14
CM_pt11
Cerebral Malaria and Two Controls -- Second exam
0
0.002
0.004
0.006
0.008
0.01
0.012
0.014
0.016
0.001 0.01 0.1 1
log(fa value) -- value is the bin start number
nu
mb
er o
f co
un
ts/
tota
l n
um
ber
of
cou
nts
control2
control1
CM_pt10
CM_pt16
UM_pt14
CM_pt11
Uncomplicated Malaria -- Pt22 -- Exam 1 and Exam 2
0
0.002
0.004
0.006
0.008
0.01
0.012
0.014
0.016
0.018
0.001 0.01 0.1 1
log(fa value) -- value is the bin start number
nu
mb
er o
f co
un
ts/
tota
l n
um
ber
of
cou
nts
UM_pt22_ex1
UM_pt22_ex2
Uncomplicated Malaria -- Pt07 -- Exam 1 and Exam 2
0
0.002
0.004
0.006
0.008
0.01
0.012
0.001 0.01 0.1 1
log(fa value) -- value is the bin start number
nu
mb
er o
f co
un
ts/
tota
l n
um
ber
of
cou
nts
UM_pt07_ex1
UM_pt07_ex2
Uncomplicated Malaria w/ Lesion -- Pt06 -- Exam 1 and Exam 2
0
0.002
0.004
0.006
0.008
0.01
0.012
0.014
0.001 0.01 0.1 1
log(fa value) -- value is the bin start number
nu
mb
er o
f co
un
ts/
tota
l n
um
ber
of
cou
nts
UM_pt06_ex1
UM_pt06_ex2
Uncomplicated Malaria w/ Hyperparasitemia + Lesion -- Pt02 -- Exam 1 and Exam 2
0
0.002
0.004
0.006
0.008
0.01
0.012
0.001 0.01 0.1 1
log(fa value) -- value is the bin start number
nu
mb
er o
f co
un
ts/
tota
l n
um
ber
of
cou
nts
UM_pt02_ex1
UM_pt02_ex2
Cerebral Malaria -- Pt10 -- Exam 1 and Exam 2
0
0.002
0.004
0.006
0.008
0.01
0.012
0.014
0.001 0.01 0.1 1
log(fa value) -- value is the bin start number
nu
mb
er o
f co
un
ts/
tota
l n
um
ber
of
cou
nts
CM_pt10_ex1
CM_pt10_ex2
Cerebral Malaria -- Pt16 -- Exam 1 and Exam 2
0
0.002
0.004
0.006
0.008
0.01
0.012
0.014
0.016
0.001 0.01 0.1 1
log(fa value) -- value is the bin start number
nu
mb
er o
f co
un
ts/
tota
l n
um
ber
of
cou
nts
CM_pt16_ex1
CM_pt16_ex2
Cerebral Malaria -- Pt14 -- Exam 1 and Exam 2
0
0.002
0.004
0.006
0.008
0.01
0.012
0.014
0.016
0.001 0.01 0.1 1
log(fa value) -- value is the bin start number
nu
mb
er o
f co
un
ts/
tota
l n
um
ber
of
cou
nts
CM_pt14_ex1
CM_pt14_ex2
Cerebral Malaria -- Pt11 -- Exam 1 and Exam 2
0
0.002
0.004
0.006
0.008
0.01
0.012
0.014
0.001 0.01 0.1 1
log(fa value) -- value is the bin start number
nu
mb
er o
f co
un
ts/
tota
l n
um
ber
of
cou
nts
CM_pt11_ex1
CM_pt11_ex2
Subtraction of FA maps (avwmaths, FSL) for pt07 exam one and exam two. Attempt was to show grey-white matter contrast. Image was coregistered (FLIRT, FSL) and smoothed by ImageJ.
ADC histogram - Uncomplicate Malaria and Controls -- Exam 1
0
0.01
0.02
0.03
0.04
0.05
0.06
0.07
0.00E+00 1.00E-03 2.00E-03 3.00E-03 4.00E-03 5.00E-03 6.00E-03 7.00E-03 8.00E-03
ADC value (bin start number)
No
rmal
ized
nu
mb
er o
f co
un
ts
control02
control01
um_pt22_ex1
um_pt07_ex1
um_pt06_ex1
hp_pt02_ex1
ADC histogram - Uncomplicate Malaria and Controls -- Exam 2
0
0.01
0.02
0.03
0.04
0.05
0.06
0.07
0.00E+00 1.00E-03 2.00E-03 3.00E-03 4.00E-03 5.00E-03 6.00E-03 7.00E-03 8.00E-03
ADC value (bin start number)
No
rmal
ized
nu
mb
er o
f co
un
ts
control02
control01
um_pt22_ex2
um_pt07_ex2
um_pt06_ex2
hp_pt02_ex2
ADC histogram - Cerebral Malaria and Controls -- Exam 1
0
0.01
0.02
0.03
0.04
0.05
0.06
0.07
0.00E+00 1.00E-03 2.00E-03 3.00E-03 4.00E-03 5.00E-03 6.00E-03 7.00E-03
ADC value (bin start number)
No
rmal
ized
nu
mb
er o
f co
un
ts
control02
control01
cm_pt10_ex1
cm_pt16_ex1
cm_pt14_ex1
cm_pt11_ex1
ADC histogram - Cerebral Malaria and Controls -- Exam 2
0
0.01
0.02
0.03
0.04
0.05
0.06
0.07
0.00E+00 1.00E-03 2.00E-03 3.00E-03 4.00E-03 5.00E-03 6.00E-03 7.00E-03
ADC value (bin start number)
No
rmal
ized
nu
mb
er o
f co
un
ts
control02
control01
cm_pt10_ex2
cm_pt16_ex2
cm_pt14_ex2
cm_pt11_ex2
Ucomplicated Malaria -- Pt 22 -- Exam 1 and Exam 2
0
0.01
0.02
0.03
0.04
0.05
0.06
0.00E+00
5.00E-04 1.00E-03 1.50E-03 2.00E-03 2.50E-03 3.00E-03 3.50E-03 4.00E-03 4.50E-03
ADC value (bin start number)
No
rma
lize
d n
um
be
r o
f c
ou
nts
um_pt22_ex1
um_pt22_ex2
Ucomplicated Malaria -- Pt 07 -- Exam 1 and Exam 2
0
0.01
0.02
0.03
0.04
0.05
0.06
0.07
0.00E+00 1.00E-03 2.00E-03 3.00E-03 4.00E-03 5.00E-03 6.00E-03 7.00E-03 8.00E-03
ADC value (bin start number)
No
rma
lize
d n
um
be
r o
f c
ou
nts
um_pt07_ex1
um_pt07_ex2
Ucomplicated Malaria w/ Lesion -- Pt 06 -- Exam 1 and Exam 2
0
0.01
0.02
0.03
0.04
0.05
0.06
0.07
0.00E+00 1.00E-03 2.00E-03 3.00E-03 4.00E-03 5.00E-03 6.00E-03 7.00E-03 8.00E-03
ADC value (bin start number)
No
rma
lize
d n
um
be
r o
f c
ou
nts
um_pt06_ex1
um_pt06_ex2
Ucomplicated Malaria and Hyperparasitemia w/ Lesion -- Pt 02 -- Exam 1 and Exam 2
0
0.01
0.02
0.03
0.04
0.05
0.06
0.07
0.00E+00 1.00E-03 2.00E-03 3.00E-03 4.00E-03 5.00E-03 6.00E-03 7.00E-03 8.00E-03
ADC value (bin start number)
No
rma
lize
d n
um
be
r o
f c
ou
nts
um_pt02_ex1
um_pt02_ex2
Cerebral Malaria -- Pt 10 -- Exam 1 and Exam 2
0
0.01
0.02
0.03
0.04
0.05
0.06
0.07
0.00E+00 1.00E-03 2.00E-03 3.00E-03 4.00E-03 5.00E-03 6.00E-03 7.00E-03
ADC value (bin start number)
No
rma
lize
d n
um
be
r o
f c
ou
nts
um_pt10_ex1
um_pt10_ex2
Cerebral Malaria -- Pt 16 -- Exam 1 and Exam 2
0
0.01
0.02
0.03
0.04
0.05
0.06
0.00E+00 1.00E-03 2.00E-03 3.00E-03 4.00E-03 5.00E-03 6.00E-03
ADC value (bin start number)
No
rma
lize
d n
um
be
r o
f c
ou
nts
um_pt16_ex1
um_pt16_ex2
Cerebral Malaria -- Pt 14 -- Exam 1 and Exam 2
0
0.01
0.02
0.03
0.04
0.05
0.06
0.07
0.00E+00 1.00E-03 2.00E-03 3.00E-03 4.00E-03 5.00E-03 6.00E-03 7.00E-03
ADC value (bin start number)
No
rma
lize
d n
um
be
r o
f c
ou
nts
um_pt14_ex1
um_pt14_ex2
Cerebral Malaria -- Pt 11 -- Exam 1 and Exam 2
0
0.01
0.02
0.03
0.04
0.05
0.06
0.00E+00 1.00E-03 2.00E-03 3.00E-03 4.00E-03 5.00E-03 6.00E-03 7.00E-03
ADC value (bin start number)
No
rma
lize
d n
um
be
r o
f c
ou
nts
um_pt11_ex1
um_pt11_ex2