I need help developing the code and answering 1a- c based on the code:

1a) Convert Berkeley Madonna code to Matlab (submit your m.file). Runtime is from 0 to 10, with dt of 0.02. Code a stimulus for 0.5 seconds at timepoint 3, with an intensity of 100 and graph the time course. Plot Q, Imemb and the stimulus.

1b) What happens if you change the capacitance C_m (cap)? How does the speed of the response change? Show in a graph and describe in 2 sentences.

1c) Deactivate the K⁺ channel (set IK=0), set it back and subsequently deactivate the Na⁺ channel. How does the inactivation of each channel change the behavior? Provide graphs for both perturbations and describe in 2-3 sentences how to interpret the differences between K and Na channel inactivation.

Here is the Berkeley Madonna code:

{Top model}

{Reservoirs}

d/dt (Q) = + Stimulus - Imemb

INIT Q = -65/cap

{Flows}

Stimulus = Intensity*SquarePulse(3,.5) {at t=3 of 0.5 duration}

Imemb = IL+IK+INa

{Functions}

Intensity = 100 {microamps}

cap = 1

E = Q/cap

{Submodel "INa_"}

{Functions}

ENa = 50

INa = gNa*(E-ENa)

GNaMax = 120

gNa = GNaMax*m*m*m*h

{Submodel "m_gates"}

{Reservoirs}

d/dt (m) = + m_prod - m_decay

INIT m = am/(am+bm)

{Flows}

m_prod = am*(1-m)

m_decay = bm*m

{Functions}

am = 0.1*(E+40)/(1-exp(-(E+40)/10))

bm = 4*exp(-(E+65)/18)

{Submodel "h_gates"}

{Reservoirs}

d/dt (h) = + h_prod - h_decay

INIT h = ah/(ah+bh)

{Flows}

h_prod = ah*(1-h)

h_decay = bh*h

{Functions}

ah = 0.07*exp(-(E+65)/20)

bh = 1/(exp(-(E+35)/10)+1)

{Submodel "IK_"}

{Functions}

EK = -77

IK = gK*(E-EK)

gK_max = 36

gK = gK_max*n*n*n*n

{Submodel "n_gates"}

{Reservoirs}

d/dt (n) = + n_prod - n_decay

INIT n = an/(an+bn)

{Flows}

n_prod = an*(1-n)

n_decay = bn*n

{Functions}

an = 0.01*(E+55)/(1-exp(-(E+55)/10))

bn = 0.125*exp(-(E+65)/80)

{Submodel "IL_"}

{Functions}

IL = gL*(E-EL)

EL = -54.4

gL = .3

{Globals}

{End Globals}

One way to code a square pulse in Matlab:

___________________________________________________

% % Generate Pulse between 3 and 3.5 seconds

if t>3 && t

else squarepulse = 0;

end

Background info:

Please help!! Thank you :)

1a) Convert Berkeley Madonna code to Matlab (submit your m.file). Runtime is from 0 to 10 , with dt of 0.02 . Code a stimulus for 0.5 seconds at timepoint 3, with an intensity of 100 and graph the time course. Plot Q, Imemb and the stimulus. 1b) What happens if you change the capacitance Cm (cap)? How does the speed of the response change? Show in a graph and describe in 2 sentences. 1c) Deactivate the K+channel (set IK=0 ), set it back and subsequently deactivate the Na+channel. How does the inactivation of each channel change the behavior? Provide graphs for both perturbations and describe in 2-3 sentences how to interpret the differences between K and Na channel inactivation. Here is the Berkeley Madonna code: Top model } \{Reservoirs d/dt(Q)=+ Stimulus - Imemb INIT Q=65/ cap \{Flows Stimulus = Intensity SquarePulse(3,.5) at t=3 of 0.5 duration } Imemb =IL+IK+INa \{Functions\} Intensity =100 \{microamps } cap =1 E=Q/cap \{Submodel "INa_" Voltage ACtivated Channels A. Background An excitable nerve has voltage activated Na+and K+ channels. We can no longer use the constant values passive cells. We will begin with the axon model we developed in the last exercise and patch in some voltage activated K channels (slow K gates). The Na channels will be dealt with later. Hodgkin and Huxley assumed that the K conductance, gK, is controlled by 4 independently operating charge "gating charges". In order for the channel to open each of these charges must be in its correct configuration. They assumed that the fraction of these charges in the "open" state, denoted by n(t), followed the equation: Figure 1 dtdn=productionratean(1n)decayratebnn,00.)