9.

29 PROBLEM SET 2
SANGYU XU
(1) Hodgkin and Huxley Model
(a) Figure 1 shows V, m, h, n as a function of time.
(b) Figure 2 shows ring rate over dieren current injections. The curve obtained with the HH
model is more sigmoidal in shape, having tapers on both high and low ends of current values.
The neuron also starts to re at a higher current value, at around 25 nA as opposed to around
1.5 nA in that of a integrate and re model(Figure 3).
(2) Experiment with HH model
Figures 4- 9 My empirical h
inf
value is 0.25, much lower than the theoretical one (1). This is
because by the time the second peak Na is formed and measured, h value has already exponentially
dropped to lower than h
inf
. Therefore h
inf
can never be captured.
My empirical is orders of magnitude lower, i wonder if my code was wrong.
(3) Ion Channel disorder
Figures 10-14

n80
= 0.0224

n80
= 0.1508

n40
= 0.1931

n40
= 0.0915
(4) Stochastic model of the single channel gating
Figures 15-21
Date: October 5 2009.
1
2 SANGYU XU
0 20 40 60 80 100 120 140 160 180 200
0
0.2
0.4
Time (ms)
I
e
/
A
0 20 40 60 80 100 120 140 160 180 200
100
50
0
50
Time (ms)
V
m
0 20 40 60 80 100 120 140 160 180 200
0
0.5
1
Time (ms)
m
0 20 40 60 80 100 120 140 160 180 200
0
0.5
1
Time (ms)
h
0 20 40 60 80 100 120 140 160 180 200
0
0.5
1
Time (ms)
n
Figure 1. Vm, h, m, n at I
e
= 200nA
0 50 100 150 200 250 300 350 400 450 500
0
20
40
60
80
100
120
Magnitude of Injected Current/nA mm
2
S
p
i
k
e

R
a
t
e
/
H
z
Variation of Spike Rate with Magnitude of Injected Current
Figure 2. Spike rate over dierent current injections of HH neuron
0 0.2 0.4 0.6
80
70
60
50
40
30
20
10
Spike rate at I
e
=1.501nA
Time (s)
V
o
lta
g
e
(m
V
)
0 0.2 0.4 0.6
80
70
60
50
40
30
20
10
Spike rate at I
e
=1.681nA
Time (s)
V
o
lta
g
e
(m
V
)
0 0.2 0.4 0.6
80
70
60
50
40
30
20
10
Spike rate at I
e
=1.861nA
Time (s)
V
o
lta
g
e
(m
V
)
0 0.2 0.4 0.6
80
70
60
50
40
30
20
10
Spike rate at I
e
=2.041nA
Time (s)
V
o
lta
g
e
(m
V
)
0 0.2 0.4 0.6
80
70
60
50
40
30
20
10
Spike rate at I
e
=2.221nA
Time (s)
V
o
lta
g
e
(m
V
)
0 0.2 0.4 0.6
80
70
60
50
40
30
20
10
Spike rate at I
e
=2.401nA
Time (s)
V
o
lta
g
e
(m
V
)
0 0.2 0.4 0.6
80
70
60
50
40
30
20
10
Spike rate at I
e
=2.581nA
Time (s)
V
o
lta
g
e
(m
V
)
1.5 2 2.5 3
0
20
40
60
80
100
120
fI plot
Injected Current (nA)
S
p
ik
e
ra
te
(H
z
)


Simulation Data
Theoretical Model
Figure 3. Spike rate over dierent current injections of an integrate and re model from last homework
9.29 PROBLEM SET 2 3
0 10 20 30 40 50 60 70 80 90 100
80
60
40
20
Time (ms)
V
m

(
m
V
)
Membrane Potentials
0 10 20 30 40 50 60 70 80 90 100
0.03
0.02
0.01
0
0.01
0.02
Ionic Currents
Time (ms)
I

(
n
A
)


I
Na
I
K
I
m
Figure 4. Current proles with voltage steps
0 10 20 30 40 50 60 70 80 90 100
100
50
0
50
Voltage Steps
Time (ms)
V
m

(
m
V
)
0 10 20 30 40 50 60 70 80 90 100
0.03
0.02
0.01
0
I
Na
Time (ms)
I
N
a

(
n
A
)
Figure 5. The empirical determination of h
inf
4 SANGYU XU
100 50 0 50
0.03
0.02
0.01
0
Test Voltage (mV)
I
N
a

(
n
A
)
Relationship between Sodium Current and Magnitude of First Voltage Step
100 50 0 50
0
0.2
0.4
0.6
0.8
1
Test Voltage (mV)
H
i
n
f
Relationship between h
inf
Value and Magnitude of First Voltage Step


Empirical h
inf
Values
Empirical h
inf
Values
Figure 6. Plot of empirical and theoretical h
inf
0 20 40 60 80 100 120
100
0
100
Time (ms)
V
m

(
m
V
)
Membrane Potentials
0 20 40 60 80 100 120
0.02
0.01
0
Na Currents
Time (ms)
I

(
n
A
)
0 20 40 60 80 100 120
0
5
x 10
4
Time(ms)
P
e
a
k

g
N
a
(
u
S
)
Figure 7. The empirical determination of
h
, the lowest panel is an example of the expo-
nential disinactivation of g
Na
9.29 PROBLEM SET 2 5
100 80 60 40 20 0 20
1
0.9
0.8
0.7
0.6
0.5
0.4
0.3
0.2
0.1
0
x 10
4
Vm (mV)
e
m
p
i
r
i
c
a
l

t
a
u
h
(
m
s
)
Figure 8. The empirical
h
100 80 60 40 20 0 20
1
2
3
4
5
6
7
8
9
Vm (mV)
t
h
e
o
r
e
t
i
c
a
l

t
a
u
(
m
s
)
Figure 9. The theoretical
h
6 SANGYU XU
0 50 100 150 200 250 300 350 400
0
0.05
0.1
Time (ms)
I
e
/
A
0 50 100 150 200 250 300 350 400
100
0
100
Time (ms)
V
m
0 50 100 150 200 250 300 350 400
0
0.5
1
Time (ms)
m
0 50 100 150 200 250 300 350 400
0
0.5
1
Time (ms)
h
0 50 100 150 200 250 300 350 400
0
0.5
1
Time (ms)
n
Figure 10. V, m, h, n with I
e
injection to produce 2 spikes
0 50 100 150 200 250 300 350 400
100
0
100
Time (ms)
V
m
0 50 100 150 200 250 300 350 400
0
0.05
0.1
Time (ms)
I
e
/
A
0 50 100 150 200 250 300 350 400
0.02
0.01
0
Time (ms)
I
N
a
0 50 100 150 200 250 300 350 400
0
0.01
0.02
Time (ms)
I
K
Figure 11. The corresponding ionic currents
9.29 PROBLEM SET 2 7
0 50 100 150 200 250 300 350 400
100
0
100
Time (ms)
V
m
0 50 100 150 200 250 300 350 400
0
0.05
0.1
Time (ms)
I
e
/
A
0 50 100 150 200 250 300 350 400
0.02
0.01
0
Time (ms)
I
N
a
0 50 100 150 200 250 300 350 400
0
0.01
0.02
Time (ms)
I
K
Figure 12. Response to the same current injection with shifted h
0 50 100 150 200 250 300 350 400
0
0.05
0.1
Time (ms)
I
e
/
A
0 50 100 150 200 250 300 350 400
100
0
100
Time (ms)
V
m
0 50 100 150 200 250 300 350 400
0
0.5
1
Time (ms)
m
0 50 100 150 200 250 300 350 400
0
0.5
1
Time (ms)
h
0 50 100 150 200 250 300 350 400
0
0.5
1
Time (ms)
n
Figure 13. Response to the same current injection with shifted h, continued
8 SANGYU XU
100 50 0 50
0
0.1
0.2
0.3
0.4
0.5
0.6
0.7
0.8
0.9
1
V
m
(mV)
h
i
n
f

v
a
l
u
e
s
/
Figure 14. The shift in h
inf
values
100 50 0 50
0
0.2
0.4
0.6
0.8
1
1.2
1.4
Vm (mV)
R
a
t
e

C
o
n
s
t
a
n
t
s

(
[
m
s
]

1
)


alpha
n
beta
n
Figure 15. Rate constants
n
and
n
over dierent stepping voltage
9.29 PROBLEM SET 2 9
0 10 20 30 40 50 60 70 80
110
100
90
80
70
60
50
40
Time (ms)
V
m

(
m
V
)
Figure 16. The test voltage step
0 10 20 30 40 50 60 70 80
1
1.5
2
2.5
3
3.5
4
4.5
5
Time(ms)
s
t
a
t
e
s
Figure 17. Example of a state transition diagram to the test voltage step
10 SANGYU XU
0 10 20 30 40 50 60 70 80
1
2
3
4
5
6
7
8
9
10
11
Time (ms)
T
r
i
a
l

N
u
m
b
e
r
Figure 18. opening of 10 potassium channels
0 10 20 30 40 50 60 70 80
0
0.2
0.4
0.6
0.8
1
1.2
1.4
Time (ms)
P
r
o
b
a
b
i
l
i
t
y

o
f

c
h
a
n
n
e
l

o
p
e
n
i
n
g
s
Figure 19. Probability of opening of the 10 channels
9.29 PROBLEM SET 2 11
0 10 20 30 40 50 60 70 80
0
20
40
60
80
100
120
Time (ms)
T
r
i
a
l

N
u
m
b
e
r
Figure 20. 100 channels