diff --git a/Dist_tuft_LTP_CA1/figures/2stim_3xTBS_volt_curr_v2.png b/Dist_tuft_LTP_CA1/figures/2stim_3xTBS_volt_curr_v2.png
deleted file mode 100644
index d05494f..0000000
Binary files a/Dist_tuft_LTP_CA1/figures/2stim_3xTBS_volt_curr_v2.png and /dev/null differ
diff --git a/Dist_tuft_LTP_CA1/figures/5stim_3xTBS_IClamp_volt_curr_v2.png b/Dist_tuft_LTP_CA1/figures/5stim_3xTBS_IClamp_volt_curr_v2.png
deleted file mode 100644
index ec9dd72..0000000
Binary files a/Dist_tuft_LTP_CA1/figures/5stim_3xTBS_IClamp_volt_curr_v2.png and /dev/null differ
diff --git a/Dist_tuft_LTP_CA1/figures/5stim_3xTBS_IClamp_volt_curr_v2.svg b/Dist_tuft_LTP_CA1/figures/5stim_3xTBS_IClamp_volt_curr_v2.svg
deleted file mode 100644
index b240ea5..0000000
--- a/Dist_tuft_LTP_CA1/figures/5stim_3xTBS_IClamp_volt_curr_v2.svg
+++ /dev/null
@@ -1,1677 +0,0 @@
-
-
-
diff --git a/Dist_tuft_LTP_CA1/figures/5stim_3xTBS_VClamp_volt_curr_v2.png b/Dist_tuft_LTP_CA1/figures/5stim_3xTBS_VClamp_volt_curr_v2.png
deleted file mode 100644
index f23a52c..0000000
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diff --git a/Dist_tuft_LTP_CA1/figures/5stim_3xTBS_VClamp_volt_curr_v2.svg b/Dist_tuft_LTP_CA1/figures/5stim_3xTBS_VClamp_volt_curr_v2.svg
deleted file mode 100644
index 2c00125..0000000
--- a/Dist_tuft_LTP_CA1/figures/5stim_3xTBS_VClamp_volt_curr_v2.svg
+++ /dev/null
@@ -1,1636 +0,0 @@
-
-
-
diff --git a/Dist_tuft_LTP_CA1/figures/5stim_3xTBS_volt_curr_no_inac.png b/Dist_tuft_LTP_CA1/figures/5stim_3xTBS_volt_curr_no_inac.png
new file mode 100644
index 0000000..1a869f0
Binary files /dev/null and b/Dist_tuft_LTP_CA1/figures/5stim_3xTBS_volt_curr_no_inac.png differ
diff --git a/Dist_tuft_LTP_CA1/figures/2stim_3xTBS_volt_curr_v2.svg b/Dist_tuft_LTP_CA1/figures/5stim_3xTBS_volt_curr_no_inac.svg
similarity index 72%
rename from Dist_tuft_LTP_CA1/figures/2stim_3xTBS_volt_curr_v2.svg
rename to Dist_tuft_LTP_CA1/figures/5stim_3xTBS_volt_curr_no_inac.svg
index 155be24..a94276f 100644
--- a/Dist_tuft_LTP_CA1/figures/2stim_3xTBS_volt_curr_v2.svg
+++ b/Dist_tuft_LTP_CA1/figures/5stim_3xTBS_volt_curr_no_inac.svg
@@ -6,11 +6,11 @@
- 2023-08-09T11:08:19.424923
+ 2024-03-10T16:07:21.205879
image/svg+xml
- Matplotlib v3.5.3, https://matplotlib.org/
+ Matplotlib v3.6.3, https://matplotlib.org/
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@@ -175,9 +195,14 @@ z
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@@ -262,7 +297,7 @@ z
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diff --git a/Dist_tuft_LTP_CA1/figures/LTP_distribution_v4_mean_parabola_fit.png b/Dist_tuft_LTP_CA1/figures/LTP_distribution_v4_mean_parabola_fit.png
new file mode 100644
index 0000000..44b7d2c
Binary files /dev/null and b/Dist_tuft_LTP_CA1/figures/LTP_distribution_v4_mean_parabola_fit.png differ
diff --git a/Dist_tuft_LTP_CA1/figures/LTP_distribution_v4_mean_parabola_fit.svg b/Dist_tuft_LTP_CA1/figures/LTP_distribution_v4_mean_parabola_fit.svg
new file mode 100644
index 0000000..783f279
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/figures/LTP_distribution_v4_mean_parabola_fit.svg
@@ -0,0 +1,3823 @@
+
+
+
diff --git a/Dist_tuft_LTP_CA1/figures/LTP_v3.png b/Dist_tuft_LTP_CA1/figures/LTP_v3.png
new file mode 100644
index 0000000..073c416
Binary files /dev/null and b/Dist_tuft_LTP_CA1/figures/LTP_v3.png differ
diff --git a/Dist_tuft_LTP_CA1/figures/LTP_v3.svg b/Dist_tuft_LTP_CA1/figures/LTP_v3.svg
new file mode 100644
index 0000000..c3116a2
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/figures/LTP_v3.svg
@@ -0,0 +1,1140 @@
+
+
+
diff --git a/Dist_tuft_LTP_CA1/figures/avg_LTP_no_inac.json b/Dist_tuft_LTP_CA1/figures/avg_LTP_no_inac.json
new file mode 100644
index 0000000..7b1fe30
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/figures/avg_LTP_no_inac.json
@@ -0,0 +1,110 @@
+{
+ "2stim_3xTBS": {
+ "00": {
+ "avg": 1.1861220837006654,
+ "std": 0.024523776187362137,
+ "sem": 0.002002357940841797
+ },
+ "01": {
+ "avg": 1.1483796557663375,
+ "std": 0.046604393512331636,
+ "sem": 0.003805232795902908
+ },
+ "02": {
+ "avg": 1.1494155892370526,
+ "std": 0.06311276849342146,
+ "sem": 0.005153135968776173
+ },
+ "03": {
+ "avg": 1.1448805045463155,
+ "std": 0.053454863252890096,
+ "sem": 0.004364571307994391
+ },
+ "04": {
+ "avg": 1.1493356047220074,
+ "std": 0.0564950068227814,
+ "sem": 0.004612797991028957
+ }
+ },
+ "5stim_3xTBS": {
+ "00": {
+ "avg": 1.5269016407422065,
+ "std": 0.12616544240670952,
+ "sem": 0.010301365235631226
+ },
+ "01": {
+ "avg": 1.5932106415908518,
+ "std": 0.1274182278378213,
+ "sem": 0.01040365473774511
+ },
+ "02": {
+ "avg": 1.5894184949842471,
+ "std": 0.1272772657948674,
+ "sem": 0.010392145235133864
+ },
+ "03": {
+ "avg": 1.5918060385899386,
+ "std": 0.1312465964034867,
+ "sem": 0.01071623972218481
+ },
+ "04": {
+ "avg": 1.5308617704676681,
+ "std": 0.14989668285330687,
+ "sem": 0.012239012904213276
+ }
+ },
+ "5stim_3xTBS_IClamp": {
+ "00": {
+ "avg": 1.6005763032214815,
+ "std": 0.10841582076635149,
+ "sem": 0.008852114697419915
+ },
+ "01": {
+ "avg": 1.6170126977342294,
+ "std": 0.10956096240078952,
+ "sem": 0.008945615120339579
+ },
+ "02": {
+ "avg": 1.6008395912970856,
+ "std": 0.1229642014647107,
+ "sem": 0.010039985007244437
+ },
+ "03": {
+ "avg": 1.604924306977445,
+ "std": 0.11335418798449766,
+ "sem": 0.009255330692318106
+ },
+ "04": {
+ "avg": 1.622847373430614,
+ "std": 0.09845615803041934,
+ "sem": 0.008038911640311727
+ }
+ },
+ "5stim_3xTBS_VClamp": {
+ "00": {
+ "avg": 1.6311618160686092,
+ "std": 0.1255243917582817,
+ "sem": 0.010249023669366945
+ },
+ "01": {
+ "avg": 1.5236911748425526,
+ "std": 0.12807313387026553,
+ "sem": 0.010457127591377076
+ },
+ "02": {
+ "avg": 1.5264386986882186,
+ "std": 0.13615138429729526,
+ "sem": 0.011116713976731847
+ },
+ "03": {
+ "avg": 1.506928849065211,
+ "std": 0.12633133626994753,
+ "sem": 0.010314910412844299
+ },
+ "04": {
+ "avg": 1.5392394691864304,
+ "std": 0.12046889615035859,
+ "sem": 0.00983624418149051
+ }
+ }
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/figures/figure_2v2.svg b/Dist_tuft_LTP_CA1/figures/figure_2v2.svg
deleted file mode 100644
index b912bc6..0000000
--- a/Dist_tuft_LTP_CA1/figures/figure_2v2.svg
+++ /dev/null
@@ -1,19753 +0,0 @@
-
-
-
-
diff --git a/Dist_tuft_LTP_CA1/figures/figure_2v2_svg b/Dist_tuft_LTP_CA1/figures/figure_2v2_svg
deleted file mode 100644
index 52477d4..0000000
--- a/Dist_tuft_LTP_CA1/figures/figure_2v2_svg
+++ /dev/null
@@ -1,19752 +0,0 @@
-
-
-
-
diff --git a/Dist_tuft_LTP_CA1/figures/figures.py b/Dist_tuft_LTP_CA1/figures/figures.py
index aa1fe68..039c985 100644
--- a/Dist_tuft_LTP_CA1/figures/figures.py
+++ b/Dist_tuft_LTP_CA1/figures/figures.py
@@ -4,7 +4,9 @@
import matplotlib.patches as mpatches
import matplotlib as mpl
from matplotlib import pyplot as plt, cm
+from scipy.optimize import curve_fit
from neuron import h, gui
+from scipy.stats import f_oneway, tukey_hsd, ttest_ind_from_stats
plt.style.use('seaborn-colorblind')
mpl.rcParams['pdf.fonttype'] = 42
@@ -19,14 +21,18 @@
def main():
# avg_LTP()
- fig_LTP()
+ avg_LTP_no_inac()
+ fig_LTP_no_inac()
+ # fig_LTP()
+ statistics()
+ statistics_figure_2()
# fig_LTP_distribution()
- # fig_lm_voltage()
+ fig_mean_LTP_distribution_no_inac()
# fig_lm_voltage_na_ca_current()
+ fig_lm_voltage_na_current_no_inac()
# fig_lm_voltage_weights()
- # fig_shape_synapses()
- # fig_voltage()
- # fig_LTP_IClamp()
+ fig_lm_voltage_weights_no_inac()
+ fig_shape_synapses()
def load_json_data(file):
@@ -58,6 +64,181 @@ def avg_LTP():
raise fnf_error
+def avg_LTP_no_inac():
+ AVG_LTP = {}
+ for e in EXPERIMENTS:
+ AVG_LTP[e] = {}
+ for i in ['00', '01', '02', '03', '04']:
+ synapses = load_json_data('../recordings/no_inac/' + e + '/' + i + '/synapses.json')
+ ltp = []
+ for sec in synapses:
+ if len(synapses[sec]) > 0:
+ for syn in synapses[sec]:
+ if syn['receptor'] == 'AMPA':
+ ltp.append(syn['final_weight'] / syn['init_weight'])
+ AVG_LTP[e][i] = {}
+ AVG_LTP[e][i]['avg'] = np.average(ltp)
+ AVG_LTP[e][i]['std'] = np.std(ltp, ddof=1)
+ AVG_LTP[e][i]['sem'] = AVG_LTP[e][i]['std'] / np.sqrt(np.size(ltp))
+ try:
+ with open('./avg_LTP_no_inac.json', 'w') as f:
+ json.dump(AVG_LTP, f, indent=4)
+ except FileNotFoundError as fnf_error:
+ raise fnf_error
+
+
+def fig_LTP_no_inac():
+ avg = []
+ std = []
+ sem = []
+ avg_paper = [1.27507, 1.78743, 1.45153, 1.35464] # 1 min
+ sem_paper = [0.0709625, 0.278596, 0.224964, 0.0816961] # 1 min
+ std_paper = [0.255858932, 0.622959594, 0.67488, 0.2450883] # 1 min
+
+ data = load_json_data('../figures/avg_LTP_no_inac.json')
+
+ for experiment, runs in data.items():
+ # Extract average LTP values from runs
+ average_ltps = [run['avg'] for run in runs.values()]
+
+ # Calculate average LTP, standard deviation, and SEM
+ avg.append(np.mean(average_ltps))
+ std.append(np.std(average_ltps, ddof=1))
+ sem.append(np.std(average_ltps, ddof=1) / np.sqrt(len(average_ltps)))
+
+ barWidth = 0.3
+ r1 = np.arange(start=0, stop=4, step=1)
+ r2 = np.arange(start=0.3, stop=4.3, step=1)
+ r3 = np.arange(start=0.15, stop=4.15, step=1)
+
+ pparam = dict(ylabel='Potentiation ratio\n (Post TBS / Baseline)')
+ fig = plt.figure(figsize=(2.8, 2.24), dpi=300)
+ ax = plt.axes()
+ ax.bar(r1, avg_paper, yerr=sem_paper, width=barWidth, label='exp. data', color='#0173b2',
+ error_kw=dict(lw=0.5, capsize=2.0, capthick=0.5))
+ ax.bar(r2, avg, yerr=sem, width=barWidth, label='simulation', color='#029e73',
+ error_kw=dict(lw=0.5, capsize=2.0, capthick=0.5))
+ ax.set_xticks(r3, EXPERIMENTS, rotation=45)
+ ax.spines['top'].set_visible(False)
+ ax.spines['right'].set_visible(False)
+ ax.tick_params(axis='both', which='both', top=False, right=False, bottom=False)
+ ax.legend(fontsize=4)
+ # ax.autoscale(tight=True)
+ ax.set(**pparam)
+ fig.tight_layout()
+ fig.savefig('./LTP_v3.svg', format='svg')
+ fig.savefig('./LTP_v3.png', format='png')
+ plt.show()
+ plt.close(fig)
+
+
+def statistics_figure_2():
+ avg_paper = [1.27507, 1.78743, 1.45153, 1.35464] # 1 min
+ std_paper = [0.255858932, 0.622959594, 0.67488, 0.2450883] # 1 min
+ n_runs = [13, 5, 9, 9]
+
+ data = load_json_data('./avg_LTP_no_inac.json')
+
+ from scipy.stats import ttest_ind_from_stats
+
+ avg = []
+ std = []
+ sem = []
+ for experiment, runs in data.items():
+ # Extract average LTP values from runs
+ average_ltps = [run['avg'] for run in runs.values()]
+
+ # Calculate average LTP, standard deviation, and SEM
+ avg.append(np.mean(average_ltps))
+ std.append(np.std(average_ltps, ddof=1))
+ sem.append(np.std(average_ltps, ddof=1) / np.sqrt(len(average_ltps)))
+
+ for i in range(4):
+ # Perform one-sample t-test
+ stat, p_value = ttest_ind_from_stats(mean1=avg[i], mean2=avg_paper[i], std1=std[i], std2=std_paper[i], nobs1=5,
+ nobs2=n_runs[i], equal_var=False, alternative='two-sided')
+
+ # Check for statistical significance
+ if p_value < 0.05:
+ print(EXPERIMENTS[i], p_value,
+ "The mean of the simulated data is significantly different from the overall "
+ "mean of the experimental data.")
+ else:
+ print(EXPERIMENTS[i], p_value,
+ "There is no significant difference between the mean of the simulated data and the overall mean "
+ "of the experimental data.")
+
+
+def statistics():
+ avg = []
+ std = []
+ sem = []
+ avg_paper = [1.27507, 1.78743, 1.45153, 1.35464] # 1 min
+ sem_paper = [0.0709625, 0.278596, 0.224964, 0.0816961] # 1 min
+ std_paper = [0.255858932, 0.622959594, 0.67488, 0.2450883] # 1 min
+ n_runs = [13, 5, 9, 9]
+
+ data = load_json_data('./avg_LTP_no_inac.json')
+
+ ltp = {}
+ for experiment in data:
+ ltp[experiment] = []
+ for run in data[experiment]:
+ ltp[experiment].append(data[experiment][run]['avg'])
+ print(ltp)
+
+ e3 = [1.21272462284121, 1.3803989664718, 1.5340014367375, 1.51996892583603, 2.82907770798241, 1.44194372904417,
+ 1.54978045450028, 1.41622638102568, 1.7447052459666]
+ e2 = [2.14507118601826, 1.77765725019381, 1.68805097005857, 1.73208047823569, 1.38258519310608]
+ e4 = [1.95887883347082, 1.31896576351817, 1.56207805967297, 1.24926388548037, 1.3698828630185, 1.48377544685584,
+ 1.58531414838713, 1.60640946992406, 1.6443934368406]
+ e1 = [1.71602588298212, 1.75120211054787, 1.64313213155936, 1.16786772264828, 1.30788290022603, 1.65183567750089,
+ 1.39585783609154, 1.70870277253596, 1.19818881570973, 1.48223277133868, 1.4175601325884, 1.48485645257694,
+ 1.69199218791291]
+
+ f_statistic, p_value = f_oneway(e1, e2, e3, e4)
+ print(f_statistic, p_value)
+
+ f_statistic, p_value = f_oneway(ltp['2stim_3xTBS'], ltp['5stim_3xTBS'], ltp['5stim_3xTBS_IClamp'],
+ ltp['5stim_3xTBS_VClamp'])
+ print(f_statistic, p_value)
+ if p_value < 0.05:
+ print("One-way ANOVA is statistically significant, indicating differences among groups.")
+ else:
+ print("One-way ANOVA did not find significant differences among groups.")
+
+ # Perform Tukey's HSD post hoc test
+ tukey_results = tukey_hsd(ltp['2stim_3xTBS'], ltp['5stim_3xTBS'], ltp['5stim_3xTBS_IClamp'],
+ ltp['5stim_3xTBS_VClamp'])
+
+ # Print the results
+ print(tukey_results)
+
+ for experiment, runs in data.items():
+ # Extract average LTP values from runs
+ average_ltps = [run['avg'] for run in runs.values()]
+
+ # Calculate average LTP, standard deviation, and SEM
+ avg.append(np.mean(average_ltps))
+ std.append(np.std(average_ltps, ddof=1))
+ sem.append(np.std(average_ltps, ddof=1) / np.sqrt(len(average_ltps)))
+
+ for i in range(4):
+ # Perform one-sample t-test
+ stat, p_value = ttest_ind_from_stats(mean1=avg[i], mean2=avg_paper[i], std1=std[i], std2=std_paper[i], nobs1=5,
+ nobs2=n_runs[i], equal_var=True, alternative='two-sided')
+
+ # Check for statistical significance
+ if p_value < 0.05:
+ print(i, p_value,
+ "The mean of the simulated data is significantly different from the overall "
+ "mean of the experimental data.")
+ else:
+ print(i, p_value,
+ "There is no significant difference between the mean of the simulated data and the overall mean "
+ "of the experimental data.")
+
+
def fig_LTP():
avg = []
std = []
@@ -65,6 +246,7 @@ def fig_LTP():
avg_paper = [1.27507, 1.78743, 1.45153, 1.35464] # 1 min
sem_paper = [0.0709625, 0.278596, 0.224964, 0.0816961] # 1 min
std_paper = [0.255858932, 0.622959594, 0.67488, 0.2450883] # 1 min
+ n_runs = [13, 5, 9, 9]
data = load_json_data('./avg_LTP.json')
for e in EXPERIMENTS:
@@ -80,9 +262,9 @@ def fig_LTP():
pparam = dict(ylabel='Potentiation ratio\n (Post TBS / Baseline)')
fig = plt.figure(figsize=(2.8, 2.24), dpi=300)
ax = plt.axes()
- ax.bar(r1, avg_paper, yerr=sem_paper, width=barWidth, label='exp. data', color='#949494',
+ ax.bar(r1, avg_paper, yerr=std_paper, width=barWidth, label='exp. data', color='#0173b2',
error_kw=dict(lw=0.5, capsize=2.0, capthick=0.5))
- ax.bar(r2, avg, yerr=sem, width=barWidth, label='simulation', color='#029e73',
+ ax.bar(r2, avg, yerr=std, width=barWidth, label='simulation', color='#029e73',
error_kw=dict(lw=0.5, capsize=2.0, capthick=0.5))
ax.set_xticks(r3, EXPERIMENTS, rotation=45)
ax.spines['top'].set_visible(False)
@@ -97,6 +279,21 @@ def fig_LTP():
plt.show()
plt.close(fig)
+ for i in range(4):
+ # Perform one-sample t-test
+ stat, p_value = ttest_ind_from_stats(mean1=avg[i], mean2=avg_paper[i], std1=std[i], std2=std_paper[i], nobs1=5,
+ nobs2=n_runs[i], equal_var=False, alternative='two-sided')
+
+ # Check for statistical significance
+ if p_value < 0.05:
+ print(i, p_value,
+ "The mean of the simulated data is significantly different from the overall "
+ "mean of the experimental data.")
+ else:
+ print(i, p_value,
+ "There is no significant difference between the mean of the simulated data and the overall mean "
+ "of the experimental data.")
+
def fig_LTP_distribution():
fig = plt.figure(figsize=(2.3, 7), dpi=300)
@@ -139,6 +336,72 @@ def fig_LTP_distribution():
plt.close(fig)
+def parabola(x, a, b, c):
+ return a * x ** 2 + b * x + c
+
+
+def log_function(x, a, b, c):
+ return a * np.log(b * x) + c
+
+
+def fig_mean_LTP_distribution_no_inac():
+ fig = plt.figure(figsize=(2.3, 7), dpi=300)
+ for i in range(1, 5, 1):
+ ax = fig.add_subplot(4, 1, i)
+ LTP = [[], [], [], [], []]
+ dist = [[], [], [], [], []]
+ for j in range(5):
+ synapses = load_json_data('../recordings/no_inac/' + EXPERIMENTS[i - 1] + '/0' + str(j) + '/synapses.json')
+ for sec in synapses:
+ if len(synapses[sec]) > 0:
+ for syn in synapses[sec]:
+ if syn['receptor'] == 'AMPA':
+ LTP[j].append(syn['final_weight'] / syn['init_weight'])
+ dist[j].append(syn['distance'])
+ if i == 2 and j == 0 and syn['distance'] > 650:
+ print(syn['section'], LTP[j][-1], dist[j][-1])
+
+ LTP_array = np.array(LTP)
+ mean_LTP = np.mean(LTP_array, axis=0)
+
+ fit_params, pcov = curve_fit(parabola, dist[0], mean_LTP)
+ line_y = parabola(np.array(dist[0]), *fit_params)
+
+ # coefficients = np.polyfit(dist[0], mean_LTP, 1)
+ # line_fit = np.poly1d(coefficients)
+
+ # Generate y values for the line of best fit
+ # line_y = line_fit(dist[0])
+
+ ax.scatter(x=dist[0], y=mean_LTP, label='Control', color='#029e73', marker='.')
+ plt.plot(dist[0], line_y, label='Fit', color='red', alpha=0.5)
+
+ synapses = load_json_data('../recordings/no_inac/' + EXPERIMENTS[i - 1] + '/00_TTX/synapses.json')
+ LTP = []
+ dist = []
+ for sec in synapses:
+ if len(synapses[sec]) > 0:
+ for syn in synapses[sec]:
+ if syn['receptor'] == 'AMPA':
+ LTP.append(syn['final_weight'] / syn['init_weight'])
+ dist.append(syn['distance'])
+ ax.scatter(x=dist, y=LTP, label='TTX', color='#de8f05', marker='.')
+ ax.set_title(EXPERIMENTS[i - 1])
+ ax.set_ylim(0.9, 1.9)
+ ax.set_ylabel('Potentiation ratio\n (Post TBS / Baseline)')
+ ax.set_xlabel('Distance from the soma ($\mu$m)')
+ if i == 1:
+ plt.legend(loc='upper left', fontsize=4)
+ ax.spines['top'].set_visible(False)
+ ax.spines['right'].set_visible(False)
+ ax.tick_params(axis='both', which='both', top=False, right=False)
+ fig.tight_layout()
+ fig.savefig('./LTP_distribution_v4_mean_parabola_fit.svg', format='svg')
+ fig.savefig('./LTP_distribution_v4_mean_parabola_fit.png', format='png')
+ plt.show()
+ plt.close(fig)
+
+
def fig_lm_voltage_na_ca_current():
for e in EXPERIMENTS:
data_voltage = pickle.load(gzip.GzipFile('../recordings/' + e + '/01_01/voltages.p', 'rb'))
@@ -158,7 +421,7 @@ def fig_lm_voltage_na_ca_current():
ax1.set_title(e)
ax1.spines['top'].set_visible(False)
ax1.spines['right'].set_visible(False)
- ax1.tick_params(axis='both', which='both', top=False, right=False, bottom=False)
+ ax1.tick_params(axis='both', which='both', top=False, right=False)
plt.legend(fontsize=4)
ax2 = fig.add_subplot(2, 1, 2)
@@ -172,7 +435,7 @@ def fig_lm_voltage_na_ca_current():
ax2.set_xlabel('Time (ms)')
ax2.spines['top'].set_visible(False)
ax2.spines['right'].set_visible(False)
- ax2.tick_params(axis='both', which='both', top=False, right=False, bottom=False)
+ ax2.tick_params(axis='both', which='both', top=False, right=False)
fig.tight_layout()
plt.savefig('./' + e + '_volt_curr_v2.svg', format='svg')
@@ -180,6 +443,46 @@ def fig_lm_voltage_na_ca_current():
plt.close(fig)
+def fig_lm_voltage_na_current_no_inac():
+ data_voltage = pickle.load(gzip.GzipFile('../recordings/no_inac/5stim_3xTBS/00/voltages.p', 'rb'))
+ data_voltage_TTX = pickle.load(gzip.GzipFile('../recordings/no_inac/5stim_3xTBS/00_TTX/voltages.p', 'rb'))
+ data_current = pickle.load(gzip.GzipFile('../recordings/no_inac/5stim_3xTBS/00/currents.p', 'rb'))
+ data_current_TTX = pickle.load(gzip.GzipFile('../recordings/no_inac/5stim_3xTBS/00_TTX/currents.p', 'rb'))
+ fig = plt.figure(figsize=(2.031, 3.385))
+ ax1 = fig.add_subplot(2, 1, 1)
+ ax1.plot(data_voltage['T'], data_voltage['V_dends']['dendA5_0111111111111111111'][1]['vector'],
+ label='Control', color='#029e73')
+ ax1.plot(data_voltage_TTX['T'], data_voltage_TTX['V_dends']['dendA5_0111111111111111111'][1]['vector'],
+ label='TTX', color='#de8f05')
+ ax1.set_xlim(180, 280)
+ ax1.set_ylim(-75, -10)
+ ax1.set_ylabel('Voltage (mV)')
+ ax1.set_xlabel('Time (ms)')
+ ax1.set_title('5stim_3xTBS')
+ ax1.spines['top'].set_visible(False)
+ ax1.spines['right'].set_visible(False)
+ ax1.tick_params(axis='both', which='both', top=False, right=False)
+ plt.legend(fontsize=4)
+
+ ax2 = fig.add_subplot(2, 1, 2)
+ ax2.plot(data_current['T'], data_current['ina']['dendA5_0111111111111111111'][1]['vector'],
+ label='Control', color='#029e73')
+ ax2.plot(data_current_TTX['T'], data_current_TTX['ina']['dendA5_0111111111111111111'][1]['vector'],
+ label='TTX', color='#de8f05')
+ ax2.set_xlim(180, 280)
+ ax2.set_ylim(-0.8, 0.05)
+ ax2.set_ylabel(r'Na current (mA/cm$^2$)')
+ ax2.set_xlabel('Time (ms)')
+ ax2.spines['top'].set_visible(False)
+ ax2.spines['right'].set_visible(False)
+ ax2.tick_params(axis='both', which='both', top=False, right=False)
+
+ fig.tight_layout()
+ plt.savefig('./5stim_3xTBS_volt_curr_no_inac.svg', format='svg')
+ plt.savefig('./5stim_3xTBS_volt_curr_no_inac.png', format='png')
+ plt.close(fig)
+
+
def fig_lm_voltage_weights():
fig = plt.figure(figsize=(2.031, 3.386), dpi=300)
ax1 = fig.add_subplot(3, 1, 1)
@@ -210,15 +513,14 @@ def fig_lm_voltage_weights():
ax2.set_xlabel('Time (ms)')
ax2.spines['top'].set_visible(False)
ax2.spines['right'].set_visible(False)
- ax2.tick_params(axis='both', which='both', top=False, right=False, bottom=False)
+ ax2.tick_params(axis='both', which='both', top=False, right=False)
ax3.set_xlim(190, 290)
- # ax2.set_ylim(-0.8, 0.05)
ax3.set_ylabel(r'Synaptic weight (nS)')
ax3.set_xlabel('Time (ms)')
ax3.spines['top'].set_visible(False)
ax3.spines['right'].set_visible(False)
- ax3.tick_params(axis='both', which='both', top=False, right=False, bottom=False)
+ ax3.tick_params(axis='both', which='both', top=False, right=False)
ax3.legend(loc='upper right', fontsize=4)
fig.tight_layout()
@@ -227,6 +529,52 @@ def fig_lm_voltage_weights():
plt.close(fig)
+def fig_lm_voltage_weights_no_inac():
+ fig = plt.figure(figsize=(2.031, 3.386), dpi=300)
+ ax1 = fig.add_subplot(3, 1, 1)
+ ax2 = fig.add_subplot(3, 1, 2)
+ ax3 = fig.add_subplot(3, 1, 3)
+ colors = ['#d55e00', '#cc78bc', '#ca9161', '#fbafe4']
+
+ ax1.eventplot(positions=[200, 210, 220, 230, 240], orientation='horizontal', color='#0173b2')
+ ax1.set_xlim(190, 290)
+ ax1.set_ylabel('Input spikes')
+ ax1.set_xlabel('Time (ms)')
+ ax1.spines['top'].set_visible(False)
+ ax1.spines['right'].set_visible(False)
+ ax1.tick_params(axis='both', which='both', top=False, right=False)
+
+ for i in range(4):
+ data_voltage = pickle.load(gzip.GzipFile('../recordings/no_inac/' + EXPERIMENTS[i] + '/00/voltages.p', 'rb'))
+ data_weights = pickle.load(gzip.GzipFile('../recordings/no_inac/' + EXPERIMENTS[i] + '/00/synapses.p', 'rb'))
+ ax2.plot(data_voltage['T'], data_voltage['V_dends']['dendA5_0111111111111111111'][1]['vector'],
+ label=EXPERIMENTS[i], color=colors[i])
+
+ ax3.plot(data_weights['T'], data_weights['synapses']['dendA5_0111111111111111111'][12]['weight'] * 1000,
+ label=EXPERIMENTS[i], color=colors[i])
+
+ ax2.set_xlim(190, 290)
+ ax2.set_ylim(-75, -10)
+ ax2.set_ylabel('Voltage (mV)')
+ ax2.set_xlabel('Time (ms)')
+ ax2.spines['top'].set_visible(False)
+ ax2.spines['right'].set_visible(False)
+ ax2.tick_params(axis='both', which='both', top=False, right=False)
+
+ ax3.set_xlim(190, 290)
+ ax3.set_ylabel(r'Synaptic weight (nS)')
+ ax3.set_xlabel('Time (ms)')
+ ax3.spines['top'].set_visible(False)
+ ax3.spines['right'].set_visible(False)
+ ax3.tick_params(axis='both', which='both', top=False, right=False)
+ ax3.legend(loc='upper right', fontsize=4)
+
+ fig.tight_layout()
+ # plt.savefig('./volt_weight_no_inac.svg', format='svg')
+ # plt.savefig('./volt_weight_no_inac.png', format='png')
+ plt.close(fig)
+
+
def fig_shape_synapses():
h.load_file('../hoc/morphology_ri06.nrn')
h.load_file('../hoc/naceaxon.nrn')
@@ -301,9 +649,8 @@ def fig_shape_synapses():
ax.view_init(elev=90, azim=-90, vertical_axis='z')
ax.set_box_aspect(None, zoom=1.5)
ax.set_axis_off()
- plt.savefig('./shape_synapses4.png', format='png', dpi=600)
- # plt.savefig('./shape_synapses3.pdf', format='pdf')
- # plt.savefig('./shape_synapses3.svg', format='svg')
+ plt.savefig('./shape_synapses.png', format='png', dpi=600)
+ plt.savefig('./shape_synapses.svg', format='svg')
plt.show()
plt.close()
diff --git a/Dist_tuft_LTP_CA1/figures/shape_synapses4.png b/Dist_tuft_LTP_CA1/figures/shape_synapses.png
similarity index 100%
rename from Dist_tuft_LTP_CA1/figures/shape_synapses4.png
rename to Dist_tuft_LTP_CA1/figures/shape_synapses.png
diff --git a/Dist_tuft_LTP_CA1/figures/shape_synapses4.svg b/Dist_tuft_LTP_CA1/figures/shape_synapses.svg
similarity index 100%
rename from Dist_tuft_LTP_CA1/figures/shape_synapses4.svg
rename to Dist_tuft_LTP_CA1/figures/shape_synapses.svg
diff --git a/Dist_tuft_LTP_CA1/figures/significance.png b/Dist_tuft_LTP_CA1/figures/significance.png
new file mode 100644
index 0000000..7121581
Binary files /dev/null and b/Dist_tuft_LTP_CA1/figures/significance.png differ
diff --git a/Dist_tuft_LTP_CA1/figures/volt_weight.png b/Dist_tuft_LTP_CA1/figures/volt_weight.png
new file mode 100644
index 0000000..d33eb2b
Binary files /dev/null and b/Dist_tuft_LTP_CA1/figures/volt_weight.png differ
diff --git a/Dist_tuft_LTP_CA1/figures/volt_weight.svg b/Dist_tuft_LTP_CA1/figures/volt_weight.svg
new file mode 100644
index 0000000..6f68a52
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/figures/volt_weight.svg
@@ -0,0 +1,2217 @@
+
+
+
diff --git a/Dist_tuft_LTP_CA1/figures/volt_weight_no_inac.png b/Dist_tuft_LTP_CA1/figures/volt_weight_no_inac.png
new file mode 100644
index 0000000..402c2dc
Binary files /dev/null and b/Dist_tuft_LTP_CA1/figures/volt_weight_no_inac.png differ
diff --git a/Dist_tuft_LTP_CA1/figures/volt_weight_no_inac.svg b/Dist_tuft_LTP_CA1/figures/volt_weight_no_inac.svg
new file mode 100644
index 0000000..83302d0
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/figures/volt_weight_no_inac.svg
@@ -0,0 +1,2398 @@
+
+
+
diff --git a/Dist_tuft_LTP_CA1/libcell.py b/Dist_tuft_LTP_CA1/libcell.py
index bfe9e3a..3f5c04b 100644
--- a/Dist_tuft_LTP_CA1/libcell.py
+++ b/Dist_tuft_LTP_CA1/libcell.py
@@ -5,12 +5,10 @@
from CA1_plasticity.model.utils import Synapse
import sys
-
class CA1:
def __init__(self, setting):
self.setting = setting
- # h.nrn_load_dll('C:/Users/tomko/PycharmProjects/Neuron_CA1/Dist_tuft_LTP_CA1/mods/nrnmech.dll')
load_mechanisms('./mods/')
h.xopen('./hoc/morphology_ri06.nrn')
h.xopen('./hoc/naceaxon.nrn')
@@ -96,8 +94,19 @@ def add_synapses_distTuf(self):
rand_gen_anat = h.Random(self.setting['simulation']['SEED'] + 1e6)
rand_gen_anat.uniform(0, 1)
- AMPA_gmax = self.setting['synapse']['AMPA_GMAX'] * self.setting['synapse']['SCALING_FACTOR']
- NMDA_gmax = self.setting['synapse']['NMDA_GMAX'] * self.setting['synapse']['SCALING_FACTOR']
+ # AMPA_gmax = self.setting['synapse']['AMPA_GMAX'] * self.setting['synapse']['SCALING_FACTOR']
+ # NMDA_gmax = self.setting['synapse']['NMDA_GMAX'] * self.setting['synapse']['SCALING_FACTOR']
+
+ # Generate random synaptic weigths from normal distribution
+ num_weights = 150
+ mean_weight = self.setting['synapse']['AMPA_GMAX_MEAN']
+ sigma = self.setting['synapse']['AMPA_GMAX_SIGMA']
+
+ # Generate random weights from a normal distribution
+ # synaptic_weights = np.random.normal(loc=mean_weight, scale=sigma, size=num_weights)
+
+ # Generate random weights from a log-normal distribution
+ synaptic_weights = np.random.lognormal(mean=np.log(mean_weight), sigma=sigma, size=num_weights)
cur_syn = 0
h('access somaA')
@@ -122,6 +131,7 @@ def add_synapses_distTuf(self):
syn_ampa.d = self.setting['synapse']['AMPA_D0']
syn_ampa.p = self.setting['synapse']['AMPA_P0']
+ AMPA_gmax = synaptic_weights[i] * self.setting['synapse']['SCALING_FACTOR']
syn = Synapse(synapse=syn_ampa, synapse_id=i, section=h.secname(),
segment_x=cur_rand_anat_B,
distance=h.distance(cur_rand_anat_B), weight_vec=h.Vector(),
@@ -137,6 +147,7 @@ def add_synapses_distTuf(self):
syn_nmda.tau2 = self.setting['synapse']['NMDA_TAU1']
syn_nmda.e = self.setting['synapse']['NMDA_E']
+ NMDA_gmax = synaptic_weights[i] * self.setting['synapse']['SCALING_FACTOR']
syn = Synapse(synapse=syn_nmda, synapse_id=i, section=h.secname(),
segment_x=cur_rand_anat_B,
distance=h.distance(cur_rand_anat_B), weight_vec=h.Vector(),
@@ -246,9 +257,19 @@ def set_recording_vectors_dist_tuft(self):
def apply_TTX(self):
"""Simulates the application of TTX as a reduction of sodium channel conductance."""
- for sec in self.dends:
- if h.ismembrane('nad', sec=sec):
- sec.gbar_nad = sec.gbar_nad * 0.2
+ ttxScale = 0.5 # amount that 20 nM TTX scales the available Na conductance; 1 = noblock; 0 = complete block
+ gnainit0 = 0.042 # Na conductance at soma
+ gnaslope0 = 0.000025 # Na channel density decay per um
+ gnainit = gnainit0 * ttxScale
+ gnaslope = gnaslope0 * ttxScale
+
+ h('access somaA')
+ h('area(0.5)')
+ h('distance()')
+ for sec in self.all_apicals:
+ for x in sec:
+ xdist = h.distance(x, sec=sec)
+ x.gbar_nax = gnainit - xdist * gnaslope
def set_theta_burst_iclamp(self, stim):
diff --git a/Dist_tuft_LTP_CA1/main_TBS_SLM.py b/Dist_tuft_LTP_CA1/main_TBS_SLM.py
index 00346fc..44a7715 100644
--- a/Dist_tuft_LTP_CA1/main_TBS_SLM.py
+++ b/Dist_tuft_LTP_CA1/main_TBS_SLM.py
@@ -89,8 +89,8 @@ def run_segmented_simulation(cell):
def figures():
"""Shows selected figures."""
fs = FiguresShower(setting=setting, save_figures=False,
- path_saving='./recordings/5stim_3xTBS/01_01/',
- path_recordings='./recordings/5stim_3xTBS/01_01/')
+ path_saving='./recordings/no_inac/5stim_3xTBS/01/',
+ path_recordings='./recordings/no_inac/5stim_3xTBS/01/')
fs.show_somatic_voltage()
fs.show_dendritic_voltage(threshold=-37)
fs.show_na_current()
@@ -106,7 +106,7 @@ def figures():
if __name__ == '__main__':
- ioh = IOHelper(path_saving='./recordings/5stim_3xTBS/01_01/',
+ ioh = IOHelper(path_saving='./recordings/no_inac/5stim_3xTBS/01/',
path_settings='./settings_distLTP/')
try:
setting = ioh.load_setting()
@@ -117,4 +117,4 @@ def figures():
set_simulation_settings()
# run_segmented_simulation(cell=cell)
ioh.delete_temporary_files()
- figures()
+ # figures()
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/00/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/00/setting.json
new file mode 100644
index 0000000..1d4bb52
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/00/setting.json
@@ -0,0 +1,143 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
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+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 2,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
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+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
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+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1
+ },
+ "synapse": {
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+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
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+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/00/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/00/synapses.json
new file mode 100644
index 0000000..4ed6dc2
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/00/synapses.json
@@ -0,0 +1,4074 @@
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+ "dendA5_0100": [],
+ "dendA5_01111": [],
+ "dendA5_01110": [],
+ "dendA5_01101": [],
+ "dendA5_01100": [],
+ "dendA5_011111": [],
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+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
+ "dendA5_0111100": [],
+ "dendA5_0110111": [],
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+ "dendA5_01111100": [],
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+ "dendA5_011111110": [],
+ "dendA5_011111011": [],
+ "dendA5_011111010": [],
+ "dendA5_0111111111": [],
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+ }
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+ "dendA3_0101": [],
+ "dendA3_0100": [],
+ "dendA3_0011": [],
+ "dendA3_0010": [],
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+ "dendA4_00": [],
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/00_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/00_TTX/setting.json
new file mode 100644
index 0000000..29444e9
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/00_TTX/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 2,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/00_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/00_TTX/synapses.json
new file mode 100644
index 0000000..009101e
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/00_TTX/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_00": [],
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+ "dendA5_0101": [],
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+ "dendA5_01111": [],
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+ "dendA5_01101": [],
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+ "dendA5_011111": [],
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+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
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+ "dendA5_0110111": [],
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+ "dendA5_01111111111": [],
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+ "dendA5_01111111111110101": [],
+ "dendA5_01111111111110100": [],
+ "dendA5_011111111111111111": [
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+ "pathway": null,
+ "type": "perforated",
+ "synapse_id": 127,
+ "init_weight": 0.00010915733689297158,
+ "final_weight": 0.00010915733689297158
+ }
+ ],
+ "dendA1_0": [],
+ "dendA1_01": [],
+ "dendA1_00": [],
+ "dendA1_011": [],
+ "dendA1_010": [],
+ "dendA1_0111": [],
+ "dendA1_0110": [],
+ "dendA1_0101": [],
+ "dendA1_0100": [],
+ "dendA1_01101": [],
+ "dendA1_01100": [],
+ "dendA1_01011": [],
+ "dendA1_01010": [],
+ "dendA1_01001": [],
+ "dendA1_01000": [],
+ "dendA2_0": [],
+ "dendA2_01": [],
+ "dendA2_00": [],
+ "dendA2_011": [],
+ "dendA2_010": [],
+ "dendA2_0111": [],
+ "dendA2_0110": [],
+ "dendA2_0101": [],
+ "dendA2_0100": [],
+ "dendA2_01111": [],
+ "dendA2_01110": [],
+ "dendA2_01101": [],
+ "dendA2_01100": [],
+ "dendA2_01011": [],
+ "dendA2_01010": [],
+ "dendA2_01001": [],
+ "dendA2_01000": [],
+ "dendA2_011111": [],
+ "dendA2_011110": [],
+ "dendA2_010111": [],
+ "dendA2_010110": [],
+ "dendA2_010101": [],
+ "dendA2_010100": [],
+ "dendA2_0111111": [],
+ "dendA2_0111110": [],
+ "dendA2_0101111": [],
+ "dendA2_0101110": [],
+ "dendA2_0101011": [],
+ "dendA2_0101010": [],
+ "dendA2_01010101": [],
+ "dendA2_01010100": [],
+ "dendA3_0": [],
+ "dendA3_01": [],
+ "dendA3_00": [],
+ "dendA3_011": [],
+ "dendA3_010": [],
+ "dendA3_001": [],
+ "dendA3_000": [],
+ "dendA3_0111": [],
+ "dendA3_0110": [],
+ "dendA3_0101": [],
+ "dendA3_0100": [],
+ "dendA3_0011": [],
+ "dendA3_0010": [],
+ "dendA3_00111": [],
+ "dendA3_00110": [],
+ "dendA4_0": [],
+ "dendA4_01": [],
+ "dendA4_00": [],
+ "dendA4_011": [],
+ "dendA4_010": [],
+ "dendA4_0111": [],
+ "dendA4_0110": [],
+ "dendA4_01111": [],
+ "dendA4_01110": [],
+ "dendA4_01101": [],
+ "dendA4_01100": [],
+ "dendA4_011101": [],
+ "dendA4_011100": []
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/01/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/01/setting.json
new file mode 100644
index 0000000..29444e9
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/01/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 2,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/01/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/01/synapses.json
new file mode 100644
index 0000000..ca26bfd
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/01/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_00": [],
+ "dendA5_011": [],
+ "dendA5_010": [],
+ "dendA5_0111": [],
+ "dendA5_0110": [],
+ "dendA5_0101": [],
+ "dendA5_0100": [],
+ "dendA5_01111": [],
+ "dendA5_01110": [],
+ "dendA5_01101": [],
+ "dendA5_01100": [],
+ "dendA5_011111": [],
+ "dendA5_011110": [],
+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
+ "dendA5_0111100": [],
+ "dendA5_0110111": [],
+ "dendA5_0110110": [],
+ "dendA5_01111111": [],
+ "dendA5_01111110": [],
+ "dendA5_01111101": [],
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+ "dendA5_011111111": [],
+ "dendA5_011111110": [],
+ "dendA5_011111011": [],
+ "dendA5_011111010": [],
+ "dendA5_0111111111": [],
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+ "dendA5_0111110111": [],
+ "dendA5_0111110110": [],
+ "dendA5_01111111111": [],
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+ "dendA5_01111111101": [],
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+ "dendA5_01111111111111111": [],
+ "dendA5_01111111111111110": [],
+ "dendA5_01111111111110101": [],
+ "dendA5_01111111111110100": [],
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+ {
+ "name": "Exp2SynETDP_multNNb_precentred[79]",
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/02/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/02/setting.json
new file mode 100644
index 0000000..29444e9
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/02/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
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+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
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+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 2,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/02/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/02/synapses.json
new file mode 100644
index 0000000..4702962
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/02/synapses.json
@@ -0,0 +1,4074 @@
+{
+ "dendA5_0": [],
+ "dendA5_01": [],
+ "dendA5_00": [],
+ "dendA5_011": [],
+ "dendA5_010": [],
+ "dendA5_0111": [],
+ "dendA5_0110": [],
+ "dendA5_0101": [],
+ "dendA5_0100": [],
+ "dendA5_01111": [],
+ "dendA5_01110": [],
+ "dendA5_01101": [],
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+ }
+ ],
+ "dendA1_0": [],
+ "dendA1_01": [],
+ "dendA1_00": [],
+ "dendA1_011": [],
+ "dendA1_010": [],
+ "dendA1_0111": [],
+ "dendA1_0110": [],
+ "dendA1_0101": [],
+ "dendA1_0100": [],
+ "dendA1_01101": [],
+ "dendA1_01100": [],
+ "dendA1_01011": [],
+ "dendA1_01010": [],
+ "dendA1_01001": [],
+ "dendA1_01000": [],
+ "dendA2_0": [],
+ "dendA2_01": [],
+ "dendA2_00": [],
+ "dendA2_011": [],
+ "dendA2_010": [],
+ "dendA2_0111": [],
+ "dendA2_0110": [],
+ "dendA2_0101": [],
+ "dendA2_0100": [],
+ "dendA2_01111": [],
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+ "dendA2_01101": [],
+ "dendA2_01100": [],
+ "dendA2_01011": [],
+ "dendA2_01010": [],
+ "dendA2_01001": [],
+ "dendA2_01000": [],
+ "dendA2_011111": [],
+ "dendA2_011110": [],
+ "dendA2_010111": [],
+ "dendA2_010110": [],
+ "dendA2_010101": [],
+ "dendA2_010100": [],
+ "dendA2_0111111": [],
+ "dendA2_0111110": [],
+ "dendA2_0101111": [],
+ "dendA2_0101110": [],
+ "dendA2_0101011": [],
+ "dendA2_0101010": [],
+ "dendA2_01010101": [],
+ "dendA2_01010100": [],
+ "dendA3_0": [],
+ "dendA3_01": [],
+ "dendA3_00": [],
+ "dendA3_011": [],
+ "dendA3_010": [],
+ "dendA3_001": [],
+ "dendA3_000": [],
+ "dendA3_0111": [],
+ "dendA3_0110": [],
+ "dendA3_0101": [],
+ "dendA3_0100": [],
+ "dendA3_0011": [],
+ "dendA3_0010": [],
+ "dendA3_00111": [],
+ "dendA3_00110": [],
+ "dendA4_0": [],
+ "dendA4_01": [],
+ "dendA4_00": [],
+ "dendA4_011": [],
+ "dendA4_010": [],
+ "dendA4_0111": [],
+ "dendA4_0110": [],
+ "dendA4_01111": [],
+ "dendA4_01110": [],
+ "dendA4_01101": [],
+ "dendA4_01100": [],
+ "dendA4_011101": [],
+ "dendA4_011100": []
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/02_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/02_TTX/setting.json
new file mode 100644
index 0000000..29444e9
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/02_TTX/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 2,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/02_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/02_TTX/synapses.json
new file mode 100644
index 0000000..b42413f
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/02_TTX/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_0101": [],
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+ "dendA5_01111": [],
+ "dendA5_01110": [],
+ "dendA5_01101": [],
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+ "dendA5_011111": [],
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+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
+ "dendA5_0111100": [],
+ "dendA5_0110111": [],
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+ "dendA5_01111111": [],
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+ "dendA5_011111011": [],
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+ "dendA5_0111110110": [],
+ "dendA5_01111111111": [],
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+ "dendA5_01111111101": [],
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+ "dendA5_01111111111110101": [],
+ "dendA5_01111111111110100": [],
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+ "dendA5_011111111111111110": [
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/03/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/03/setting.json
new file mode 100644
index 0000000..29444e9
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/03/setting.json
@@ -0,0 +1,144 @@
+{
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+ "BCM_ORI_P0": 1e-05,
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+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
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+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
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+ "NETSTIM_NOISE": 0.0,
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+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
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+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
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+ },
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+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
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+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
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+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
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+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
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+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
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+ "AMPA_GMAX_SIGMA": 0.35,
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+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/03/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/03/synapses.json
new file mode 100644
index 0000000..cf99081
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/03/synapses.json
@@ -0,0 +1,4074 @@
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+ "dendA5_0100": [],
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+ "dendA5_01110": [],
+ "dendA5_01101": [],
+ "dendA5_01100": [],
+ "dendA5_011111": [],
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+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
+ "dendA5_0111100": [],
+ "dendA5_0110111": [],
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/03_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/03_TTX/setting.json
new file mode 100644
index 0000000..29444e9
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/03_TTX/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
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+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
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+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
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+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
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+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
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+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
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+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
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+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
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+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
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+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
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+ "AMPA_GMAX": 0.00018,
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+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
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+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/03_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/03_TTX/synapses.json
new file mode 100644
index 0000000..bc0c8af
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/03_TTX/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA2_010": [],
+ "dendA2_0111": [],
+ "dendA2_0110": [],
+ "dendA2_0101": [],
+ "dendA2_0100": [],
+ "dendA2_01111": [],
+ "dendA2_01110": [],
+ "dendA2_01101": [],
+ "dendA2_01100": [],
+ "dendA2_01011": [],
+ "dendA2_01010": [],
+ "dendA2_01001": [],
+ "dendA2_01000": [],
+ "dendA2_011111": [],
+ "dendA2_011110": [],
+ "dendA2_010111": [],
+ "dendA2_010110": [],
+ "dendA2_010101": [],
+ "dendA2_010100": [],
+ "dendA2_0111111": [],
+ "dendA2_0111110": [],
+ "dendA2_0101111": [],
+ "dendA2_0101110": [],
+ "dendA2_0101011": [],
+ "dendA2_0101010": [],
+ "dendA2_01010101": [],
+ "dendA2_01010100": [],
+ "dendA3_0": [],
+ "dendA3_01": [],
+ "dendA3_00": [],
+ "dendA3_011": [],
+ "dendA3_010": [],
+ "dendA3_001": [],
+ "dendA3_000": [],
+ "dendA3_0111": [],
+ "dendA3_0110": [],
+ "dendA3_0101": [],
+ "dendA3_0100": [],
+ "dendA3_0011": [],
+ "dendA3_0010": [],
+ "dendA3_00111": [],
+ "dendA3_00110": [],
+ "dendA4_0": [],
+ "dendA4_01": [],
+ "dendA4_00": [],
+ "dendA4_011": [],
+ "dendA4_010": [],
+ "dendA4_0111": [],
+ "dendA4_0110": [],
+ "dendA4_01111": [],
+ "dendA4_01110": [],
+ "dendA4_01101": [],
+ "dendA4_01100": [],
+ "dendA4_011101": [],
+ "dendA4_011100": []
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/04/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/04/setting.json
new file mode 100644
index 0000000..29444e9
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/04/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 2,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/04/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/04/synapses.json
new file mode 100644
index 0000000..77656ec
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/04/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_00": [],
+ "dendA5_011": [],
+ "dendA5_010": [],
+ "dendA5_0111": [],
+ "dendA5_0110": [],
+ "dendA5_0101": [],
+ "dendA5_0100": [],
+ "dendA5_01111": [],
+ "dendA5_01110": [],
+ "dendA5_01101": [],
+ "dendA5_01100": [],
+ "dendA5_011111": [],
+ "dendA5_011110": [],
+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
+ "dendA5_0111100": [],
+ "dendA5_0110111": [],
+ "dendA5_0110110": [],
+ "dendA5_01111111": [],
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+ "dendA5_01111101": [],
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+ "dendA5_011111111": [],
+ "dendA5_011111110": [],
+ "dendA5_011111011": [],
+ "dendA5_011111010": [],
+ "dendA5_0111111111": [],
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+ "dendA5_0111110111": [],
+ "dendA5_0111110110": [],
+ "dendA5_01111111111": [],
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+ "dendA5_01111111101": [],
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+ "dendA5_0111111111111011": [],
+ "dendA5_0111111111111010": [],
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+ "dendA5_01111111111111110": [],
+ "dendA5_01111111111110101": [],
+ "dendA5_01111111111110100": [],
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+ "name": "Exp2SynETDP_multNNb_precentred[79]",
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+ "name": "Exp2SynETDP_multNNb_precentred[90]",
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/04_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/04_TTX/setting.json
new file mode 100644
index 0000000..29444e9
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/04_TTX/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
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+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
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+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 2,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
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+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/04_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/04_TTX/synapses.json
new file mode 100644
index 0000000..6b23f22
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/2stim_3xTBS/04_TTX/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_01": [],
+ "dendA5_00": [],
+ "dendA5_011": [],
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+ "dendA5_0101": [],
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+ "dendA5_01111": [],
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+ "dendA5_011111": [],
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+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
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+ "dendA5_01111111": [],
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+ "dendA5_011111011": [],
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+ "final_weight": 0.00019271117653725528
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+ {
+ "name": "Exp2SynNMDA_SLM[127]",
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+ "final_weight": 0.00013378490900655982
+ }
+ ],
+ "dendA1_0": [],
+ "dendA1_01": [],
+ "dendA1_00": [],
+ "dendA1_011": [],
+ "dendA1_010": [],
+ "dendA1_0111": [],
+ "dendA1_0110": [],
+ "dendA1_0101": [],
+ "dendA1_0100": [],
+ "dendA1_01101": [],
+ "dendA1_01100": [],
+ "dendA1_01011": [],
+ "dendA1_01010": [],
+ "dendA1_01001": [],
+ "dendA1_01000": [],
+ "dendA2_0": [],
+ "dendA2_01": [],
+ "dendA2_00": [],
+ "dendA2_011": [],
+ "dendA2_010": [],
+ "dendA2_0111": [],
+ "dendA2_0110": [],
+ "dendA2_0101": [],
+ "dendA2_0100": [],
+ "dendA2_01111": [],
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+ "dendA2_01011": [],
+ "dendA2_01010": [],
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+ "dendA2_01000": [],
+ "dendA2_011111": [],
+ "dendA2_011110": [],
+ "dendA2_010111": [],
+ "dendA2_010110": [],
+ "dendA2_010101": [],
+ "dendA2_010100": [],
+ "dendA2_0111111": [],
+ "dendA2_0111110": [],
+ "dendA2_0101111": [],
+ "dendA2_0101110": [],
+ "dendA2_0101011": [],
+ "dendA2_0101010": [],
+ "dendA2_01010101": [],
+ "dendA2_01010100": [],
+ "dendA3_0": [],
+ "dendA3_01": [],
+ "dendA3_00": [],
+ "dendA3_011": [],
+ "dendA3_010": [],
+ "dendA3_001": [],
+ "dendA3_000": [],
+ "dendA3_0111": [],
+ "dendA3_0110": [],
+ "dendA3_0101": [],
+ "dendA3_0100": [],
+ "dendA3_0011": [],
+ "dendA3_0010": [],
+ "dendA3_00111": [],
+ "dendA3_00110": [],
+ "dendA4_0": [],
+ "dendA4_01": [],
+ "dendA4_00": [],
+ "dendA4_011": [],
+ "dendA4_010": [],
+ "dendA4_0111": [],
+ "dendA4_0110": [],
+ "dendA4_01111": [],
+ "dendA4_01110": [],
+ "dendA4_01101": [],
+ "dendA4_01100": [],
+ "dendA4_011101": [],
+ "dendA4_011100": []
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/00/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/00/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/00/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/00/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/00/synapses.json
new file mode 100644
index 0000000..4e05551
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/00/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_00": [],
+ "dendA5_011": [],
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+ "dendA5_0111": [],
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+ "dendA5_0101": [],
+ "dendA5_0100": [],
+ "dendA5_01111": [],
+ "dendA5_01110": [],
+ "dendA5_01101": [],
+ "dendA5_01100": [],
+ "dendA5_011111": [],
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+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
+ "dendA5_0111100": [],
+ "dendA5_0110111": [],
+ "dendA5_0110110": [],
+ "dendA5_01111111": [],
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+ "dendA5_011111111": [],
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+ "dendA5_011111011": [],
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+ "dendA5_01111111111": [],
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+ "dendA5_01111111111110100": [],
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+ "dendA5_011111111111111110": [
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/00_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/00_TTX/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/00_TTX/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
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+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
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+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
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+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
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+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
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+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
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+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
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+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
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+ "TB_ICLAMP_BURSTS_NUM": 5,
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+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
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+ "PRELTP_TEST_NUM": 6,
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+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
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+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
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+ "NMDA_TAU1": 1,
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+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
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+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/00_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/00_TTX/synapses.json
new file mode 100644
index 0000000..60166f6
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/00_TTX/synapses.json
@@ -0,0 +1,4074 @@
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+ ],
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+ "dendA1_010": [],
+ "dendA1_0111": [],
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+ "dendA3_0011": [],
+ "dendA3_0010": [],
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+ "dendA4_01111": [],
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+ "dendA4_011100": []
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/01/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/01/setting.json
new file mode 100644
index 0000000..b1769d4
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/01/setting.json
@@ -0,0 +1,143 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
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+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/01/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/01/synapses.json
new file mode 100644
index 0000000..6ce20d5
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/01/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_011111": [],
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+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
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+ "dendA5_01111111111110100": [],
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+ "dendA3_0111": [],
+ "dendA3_0110": [],
+ "dendA3_0101": [],
+ "dendA3_0100": [],
+ "dendA3_0011": [],
+ "dendA3_0010": [],
+ "dendA3_00111": [],
+ "dendA3_00110": [],
+ "dendA4_0": [],
+ "dendA4_01": [],
+ "dendA4_00": [],
+ "dendA4_011": [],
+ "dendA4_010": [],
+ "dendA4_0111": [],
+ "dendA4_0110": [],
+ "dendA4_01111": [],
+ "dendA4_01110": [],
+ "dendA4_01101": [],
+ "dendA4_01100": [],
+ "dendA4_011101": [],
+ "dendA4_011100": []
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/01_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/01_TTX/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/01_TTX/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/01_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/01_TTX/synapses.json
new file mode 100644
index 0000000..6e3ebe5
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/01_TTX/synapses.json
@@ -0,0 +1,4074 @@
+{
+ "dendA5_0": [],
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+ "dendA5_00": [],
+ "dendA5_011": [],
+ "dendA5_010": [],
+ "dendA5_0111": [],
+ "dendA5_0110": [],
+ "dendA5_0101": [],
+ "dendA5_0100": [],
+ "dendA5_01111": [],
+ "dendA5_01110": [],
+ "dendA5_01101": [],
+ "dendA5_01100": [],
+ "dendA5_011111": [],
+ "dendA5_011110": [],
+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
+ "dendA5_0111100": [],
+ "dendA5_0110111": [],
+ "dendA5_0110110": [],
+ "dendA5_01111111": [],
+ "dendA5_01111110": [],
+ "dendA5_01111101": [],
+ "dendA5_01111100": [],
+ "dendA5_011111111": [],
+ "dendA5_011111110": [],
+ "dendA5_011111011": [],
+ "dendA5_011111010": [],
+ "dendA5_0111111111": [],
+ "dendA5_0111111110": [],
+ "dendA5_0111110111": [],
+ "dendA5_0111110110": [],
+ "dendA5_01111111111": [],
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+ "dendA5_01111111101": [],
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+ "dendA5_0111111111111110": [],
+ "dendA5_0111111111111011": [],
+ "dendA5_0111111111111010": [],
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+ "dendA5_01111111111111110": [],
+ "dendA5_01111111111110101": [],
+ "dendA5_01111111111110100": [],
+ "dendA5_011111111111111111": [
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+ {
+ "name": "Exp2SynETDP_multNNb_precentred[90]",
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+ "dendA1_01011": [],
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+ "dendA3_010": [],
+ "dendA3_001": [],
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+ "dendA3_0110": [],
+ "dendA3_0101": [],
+ "dendA3_0100": [],
+ "dendA3_0011": [],
+ "dendA3_0010": [],
+ "dendA3_00111": [],
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+ "dendA4_0": [],
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+ "dendA4_00": [],
+ "dendA4_011": [],
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+ "dendA4_0110": [],
+ "dendA4_01111": [],
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+ "dendA4_01101": [],
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+ "dendA4_011100": []
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/02/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/02/setting.json
new file mode 100644
index 0000000..b1769d4
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/02/setting.json
@@ -0,0 +1,143 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/02/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/02/synapses.json
new file mode 100644
index 0000000..054f6af
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/02/synapses.json
@@ -0,0 +1,4074 @@
+{
+ "dendA5_0": [],
+ "dendA5_01": [],
+ "dendA5_00": [],
+ "dendA5_011": [],
+ "dendA5_010": [],
+ "dendA5_0111": [],
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+ "dendA5_0101": [],
+ "dendA5_0100": [],
+ "dendA5_01111": [],
+ "dendA5_01110": [],
+ "dendA5_01101": [],
+ "dendA5_01100": [],
+ "dendA5_011111": [],
+ "dendA5_011110": [],
+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
+ "dendA5_0111100": [],
+ "dendA5_0110111": [],
+ "dendA5_0110110": [],
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+ "dendA5_01111101": [],
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+ "dendA5_011111110": [],
+ "dendA5_011111011": [],
+ "dendA5_011111010": [],
+ "dendA5_0111111111": [],
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+ "dendA5_0111110110": [],
+ "dendA5_01111111111": [],
+ "dendA5_01111111110": [],
+ "dendA5_01111111101": [],
+ "dendA5_01111111100": [],
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+ "dendA5_0111111111111110": [],
+ "dendA5_0111111111111011": [],
+ "dendA5_0111111111111010": [],
+ "dendA5_01111111111111111": [],
+ "dendA5_01111111111111110": [],
+ "dendA5_01111111111110101": [],
+ "dendA5_01111111111110100": [],
+ "dendA5_011111111111111111": [
+ {
+ "name": "Exp2SynETDP_multNNb_precentred[18]",
+ "section": "dendA5_011111111111111111",
+ "segment_x": 0.7857142857142857,
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+ {
+ "name": "Exp2SynNMDA_SLM[127]",
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+ "final_weight": 0.00016728626306885158
+ }
+ ],
+ "dendA1_0": [],
+ "dendA1_01": [],
+ "dendA1_00": [],
+ "dendA1_011": [],
+ "dendA1_010": [],
+ "dendA1_0111": [],
+ "dendA1_0110": [],
+ "dendA1_0101": [],
+ "dendA1_0100": [],
+ "dendA1_01101": [],
+ "dendA1_01100": [],
+ "dendA1_01011": [],
+ "dendA1_01010": [],
+ "dendA1_01001": [],
+ "dendA1_01000": [],
+ "dendA2_0": [],
+ "dendA2_01": [],
+ "dendA2_00": [],
+ "dendA2_011": [],
+ "dendA2_010": [],
+ "dendA2_0111": [],
+ "dendA2_0110": [],
+ "dendA2_0101": [],
+ "dendA2_0100": [],
+ "dendA2_01111": [],
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+ "dendA2_01011": [],
+ "dendA2_01010": [],
+ "dendA2_01001": [],
+ "dendA2_01000": [],
+ "dendA2_011111": [],
+ "dendA2_011110": [],
+ "dendA2_010111": [],
+ "dendA2_010110": [],
+ "dendA2_010101": [],
+ "dendA2_010100": [],
+ "dendA2_0111111": [],
+ "dendA2_0111110": [],
+ "dendA2_0101111": [],
+ "dendA2_0101110": [],
+ "dendA2_0101011": [],
+ "dendA2_0101010": [],
+ "dendA2_01010101": [],
+ "dendA2_01010100": [],
+ "dendA3_0": [],
+ "dendA3_01": [],
+ "dendA3_00": [],
+ "dendA3_011": [],
+ "dendA3_010": [],
+ "dendA3_001": [],
+ "dendA3_000": [],
+ "dendA3_0111": [],
+ "dendA3_0110": [],
+ "dendA3_0101": [],
+ "dendA3_0100": [],
+ "dendA3_0011": [],
+ "dendA3_0010": [],
+ "dendA3_00111": [],
+ "dendA3_00110": [],
+ "dendA4_0": [],
+ "dendA4_01": [],
+ "dendA4_00": [],
+ "dendA4_011": [],
+ "dendA4_010": [],
+ "dendA4_0111": [],
+ "dendA4_0110": [],
+ "dendA4_01111": [],
+ "dendA4_01110": [],
+ "dendA4_01101": [],
+ "dendA4_01100": [],
+ "dendA4_011101": [],
+ "dendA4_011100": []
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/02_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/02_TTX/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/02_TTX/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/02_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/02_TTX/synapses.json
new file mode 100644
index 0000000..8cb5448
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/02_TTX/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_0101": [],
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+ "dendA5_011111": [],
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+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
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+ "dendA5_011111011": [],
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+ "dendA5_01111111111": [],
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/03/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/03/setting.json
new file mode 100644
index 0000000..b1769d4
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/03/setting.json
@@ -0,0 +1,143 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
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+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
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+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
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+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
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+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
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+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/03/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/03/synapses.json
new file mode 100644
index 0000000..dc9a39e
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/03/synapses.json
@@ -0,0 +1,4074 @@
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/03_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/03_TTX/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/03_TTX/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
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+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
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+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
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+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
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+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
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+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
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+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/03_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/03_TTX/synapses.json
new file mode 100644
index 0000000..e71dbc6
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/03_TTX/synapses.json
@@ -0,0 +1,4074 @@
+{
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\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/04/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/04/setting.json
new file mode 100644
index 0000000..b1769d4
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/04/setting.json
@@ -0,0 +1,143 @@
+{
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+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/04/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/04/synapses.json
new file mode 100644
index 0000000..333cc5d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/04/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_00": [],
+ "dendA5_011": [],
+ "dendA5_010": [],
+ "dendA5_0111": [],
+ "dendA5_0110": [],
+ "dendA5_0101": [],
+ "dendA5_0100": [],
+ "dendA5_01111": [],
+ "dendA5_01110": [],
+ "dendA5_01101": [],
+ "dendA5_01100": [],
+ "dendA5_011111": [],
+ "dendA5_011110": [],
+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
+ "dendA5_0111100": [],
+ "dendA5_0110111": [],
+ "dendA5_0110110": [],
+ "dendA5_01111111": [],
+ "dendA5_01111110": [],
+ "dendA5_01111101": [],
+ "dendA5_01111100": [],
+ "dendA5_011111111": [],
+ "dendA5_011111110": [],
+ "dendA5_011111011": [],
+ "dendA5_011111010": [],
+ "dendA5_0111111111": [],
+ "dendA5_0111111110": [],
+ "dendA5_0111110111": [],
+ "dendA5_0111110110": [],
+ "dendA5_01111111111": [],
+ "dendA5_01111111110": [],
+ "dendA5_01111111101": [],
+ "dendA5_01111111100": [],
+ "dendA5_011111111111": [],
+ "dendA5_011111111110": [],
+ "dendA5_0111111111111": [],
+ "dendA5_0111111111110": [],
+ "dendA5_01111111111111": [],
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+ "dendA5_01111111111101": [],
+ "dendA5_01111111111100": [],
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+ "dendA5_0111111111111111": [],
+ "dendA5_0111111111111110": [],
+ "dendA5_0111111111111011": [],
+ "dendA5_0111111111111010": [],
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+ "dendA5_01111111111111110": [],
+ "dendA5_01111111111110101": [],
+ "dendA5_01111111111110100": [],
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/04_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/04_TTX/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/04_TTX/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/04_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/04_TTX/synapses.json
new file mode 100644
index 0000000..8423801
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS/04_TTX/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_0101": [],
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+ "dendA5_01101": [],
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+ "dendA5_011111": [],
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+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
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+ "dendA5_0110111": [],
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+ "dendA5_011111011": [],
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+ "dendA5_01111111111": [],
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+ "dendA5_01111111101": [],
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+ "dendA5_01111111111111110": [],
+ "dendA5_01111111111110101": [],
+ "dendA5_01111111111110100": [],
+ "dendA5_011111111111111111": [
+ {
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+ {
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+ },
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+ "final_weight": 0.00012946963446247692
+ },
+ {
+ "name": "Exp2SynNMDA_SLM[127]",
+ "section": "dendA5_0111111111111111111010",
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+ "distance": 685.2580416447654,
+ "stimulated": true,
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+ "type": "perforated",
+ "synapse_id": 127,
+ "init_weight": 0.00012946963446247692,
+ "final_weight": 0.00012946963446247692
+ }
+ ],
+ "dendA1_0": [],
+ "dendA1_01": [],
+ "dendA1_00": [],
+ "dendA1_011": [],
+ "dendA1_010": [],
+ "dendA1_0111": [],
+ "dendA1_0110": [],
+ "dendA1_0101": [],
+ "dendA1_0100": [],
+ "dendA1_01101": [],
+ "dendA1_01100": [],
+ "dendA1_01011": [],
+ "dendA1_01010": [],
+ "dendA1_01001": [],
+ "dendA1_01000": [],
+ "dendA2_0": [],
+ "dendA2_01": [],
+ "dendA2_00": [],
+ "dendA2_011": [],
+ "dendA2_010": [],
+ "dendA2_0111": [],
+ "dendA2_0110": [],
+ "dendA2_0101": [],
+ "dendA2_0100": [],
+ "dendA2_01111": [],
+ "dendA2_01110": [],
+ "dendA2_01101": [],
+ "dendA2_01100": [],
+ "dendA2_01011": [],
+ "dendA2_01010": [],
+ "dendA2_01001": [],
+ "dendA2_01000": [],
+ "dendA2_011111": [],
+ "dendA2_011110": [],
+ "dendA2_010111": [],
+ "dendA2_010110": [],
+ "dendA2_010101": [],
+ "dendA2_010100": [],
+ "dendA2_0111111": [],
+ "dendA2_0111110": [],
+ "dendA2_0101111": [],
+ "dendA2_0101110": [],
+ "dendA2_0101011": [],
+ "dendA2_0101010": [],
+ "dendA2_01010101": [],
+ "dendA2_01010100": [],
+ "dendA3_0": [],
+ "dendA3_01": [],
+ "dendA3_00": [],
+ "dendA3_011": [],
+ "dendA3_010": [],
+ "dendA3_001": [],
+ "dendA3_000": [],
+ "dendA3_0111": [],
+ "dendA3_0110": [],
+ "dendA3_0101": [],
+ "dendA3_0100": [],
+ "dendA3_0011": [],
+ "dendA3_0010": [],
+ "dendA3_00111": [],
+ "dendA3_00110": [],
+ "dendA4_0": [],
+ "dendA4_01": [],
+ "dendA4_00": [],
+ "dendA4_011": [],
+ "dendA4_010": [],
+ "dendA4_0111": [],
+ "dendA4_0110": [],
+ "dendA4_01111": [],
+ "dendA4_01110": [],
+ "dendA4_01101": [],
+ "dendA4_01100": [],
+ "dendA4_011101": [],
+ "dendA4_011100": []
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/00/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/00/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/00/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/00/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/00/synapses.json
new file mode 100644
index 0000000..6b8f338
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/00/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_011111": [],
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+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
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+ "dendA5_0110111": [],
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+ "dendA5_011111011": [],
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+ "dendA5_01111111111": [],
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+ ],
+ "dendA5_0111111111111111111010": [
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+ }
+ ],
+ "dendA1_0": [],
+ "dendA1_01": [],
+ "dendA1_00": [],
+ "dendA1_011": [],
+ "dendA1_010": [],
+ "dendA1_0111": [],
+ "dendA1_0110": [],
+ "dendA1_0101": [],
+ "dendA1_0100": [],
+ "dendA1_01101": [],
+ "dendA1_01100": [],
+ "dendA1_01011": [],
+ "dendA1_01010": [],
+ "dendA1_01001": [],
+ "dendA1_01000": [],
+ "dendA2_0": [],
+ "dendA2_01": [],
+ "dendA2_00": [],
+ "dendA2_011": [],
+ "dendA2_010": [],
+ "dendA2_0111": [],
+ "dendA2_0110": [],
+ "dendA2_0101": [],
+ "dendA2_0100": [],
+ "dendA2_01111": [],
+ "dendA2_01110": [],
+ "dendA2_01101": [],
+ "dendA2_01100": [],
+ "dendA2_01011": [],
+ "dendA2_01010": [],
+ "dendA2_01001": [],
+ "dendA2_01000": [],
+ "dendA2_011111": [],
+ "dendA2_011110": [],
+ "dendA2_010111": [],
+ "dendA2_010110": [],
+ "dendA2_010101": [],
+ "dendA2_010100": [],
+ "dendA2_0111111": [],
+ "dendA2_0111110": [],
+ "dendA2_0101111": [],
+ "dendA2_0101110": [],
+ "dendA2_0101011": [],
+ "dendA2_0101010": [],
+ "dendA2_01010101": [],
+ "dendA2_01010100": [],
+ "dendA3_0": [],
+ "dendA3_01": [],
+ "dendA3_00": [],
+ "dendA3_011": [],
+ "dendA3_010": [],
+ "dendA3_001": [],
+ "dendA3_000": [],
+ "dendA3_0111": [],
+ "dendA3_0110": [],
+ "dendA3_0101": [],
+ "dendA3_0100": [],
+ "dendA3_0011": [],
+ "dendA3_0010": [],
+ "dendA3_00111": [],
+ "dendA3_00110": [],
+ "dendA4_0": [],
+ "dendA4_01": [],
+ "dendA4_00": [],
+ "dendA4_011": [],
+ "dendA4_010": [],
+ "dendA4_0111": [],
+ "dendA4_0110": [],
+ "dendA4_01111": [],
+ "dendA4_01110": [],
+ "dendA4_01101": [],
+ "dendA4_01100": [],
+ "dendA4_011101": [],
+ "dendA4_011100": []
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/00_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/00_TTX/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/00_TTX/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/00_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/00_TTX/synapses.json
new file mode 100644
index 0000000..70aa1f9
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/00_TTX/synapses.json
@@ -0,0 +1,4074 @@
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+ "dendA3_0101": [],
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+ "dendA3_0011": [],
+ "dendA3_0010": [],
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+ "dendA4_011": [],
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/01/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/01/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/01/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/01/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/01/synapses.json
new file mode 100644
index 0000000..a8c33ac
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/01/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_011111": [],
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+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
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+ "dendA5_0111101": [],
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/01_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/01_TTX/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/01_TTX/setting.json
@@ -0,0 +1,144 @@
+{
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+ "BCM_ORI_P0": 1e-05,
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+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
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+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
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+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/01_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/01_TTX/synapses.json
new file mode 100644
index 0000000..eff2a57
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/01_TTX/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_00": [],
+ "dendA5_011": [],
+ "dendA5_010": [],
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+ "dendA5_0110": [],
+ "dendA5_0101": [],
+ "dendA5_0100": [],
+ "dendA5_01111": [],
+ "dendA5_01110": [],
+ "dendA5_01101": [],
+ "dendA5_01100": [],
+ "dendA5_011111": [],
+ "dendA5_011110": [],
+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
+ "dendA5_0111100": [],
+ "dendA5_0110111": [],
+ "dendA5_0110110": [],
+ "dendA5_01111111": [],
+ "dendA5_01111110": [],
+ "dendA5_01111101": [],
+ "dendA5_01111100": [],
+ "dendA5_011111111": [],
+ "dendA5_011111110": [],
+ "dendA5_011111011": [],
+ "dendA5_011111010": [],
+ "dendA5_0111111111": [],
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+ "dendA5_0111110111": [],
+ "dendA5_0111110110": [],
+ "dendA5_01111111111": [],
+ "dendA5_01111111110": [],
+ "dendA5_01111111101": [],
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+ "dendA5_0111111111111": [],
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/02/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/02/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/02/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/02/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/02/synapses.json
new file mode 100644
index 0000000..48bf91f
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/02/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_011011": [],
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+ "dendA5_0111111": [],
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+ "dendA5_0111101": [],
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+ "dendA5_01111111111110100": [],
+ "dendA5_011111111111111111": [
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+ }
+ ],
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+ "dendA1_01": [],
+ "dendA1_00": [],
+ "dendA1_011": [],
+ "dendA1_010": [],
+ "dendA1_0111": [],
+ "dendA1_0110": [],
+ "dendA1_0101": [],
+ "dendA1_0100": [],
+ "dendA1_01101": [],
+ "dendA1_01100": [],
+ "dendA1_01011": [],
+ "dendA1_01010": [],
+ "dendA1_01001": [],
+ "dendA1_01000": [],
+ "dendA2_0": [],
+ "dendA2_01": [],
+ "dendA2_00": [],
+ "dendA2_011": [],
+ "dendA2_010": [],
+ "dendA2_0111": [],
+ "dendA2_0110": [],
+ "dendA2_0101": [],
+ "dendA2_0100": [],
+ "dendA2_01111": [],
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+ "dendA2_01000": [],
+ "dendA2_011111": [],
+ "dendA2_011110": [],
+ "dendA2_010111": [],
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+ "dendA2_010101": [],
+ "dendA2_010100": [],
+ "dendA2_0111111": [],
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+ "dendA2_0101111": [],
+ "dendA2_0101110": [],
+ "dendA2_0101011": [],
+ "dendA2_0101010": [],
+ "dendA2_01010101": [],
+ "dendA2_01010100": [],
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+ "dendA3_00": [],
+ "dendA3_011": [],
+ "dendA3_010": [],
+ "dendA3_001": [],
+ "dendA3_000": [],
+ "dendA3_0111": [],
+ "dendA3_0110": [],
+ "dendA3_0101": [],
+ "dendA3_0100": [],
+ "dendA3_0011": [],
+ "dendA3_0010": [],
+ "dendA3_00111": [],
+ "dendA3_00110": [],
+ "dendA4_0": [],
+ "dendA4_01": [],
+ "dendA4_00": [],
+ "dendA4_011": [],
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+ "dendA4_0111": [],
+ "dendA4_0110": [],
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+ "dendA4_011100": []
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/02_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/02_TTX/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/02_TTX/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
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+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
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+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/02_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/02_TTX/synapses.json
new file mode 100644
index 0000000..008cfd9
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/02_TTX/synapses.json
@@ -0,0 +1,4074 @@
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/03/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/03/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/03/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/03/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/03/synapses.json
new file mode 100644
index 0000000..7d5c33e
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/03/synapses.json
@@ -0,0 +1,4074 @@
+{
+ "dendA5_0": [],
+ "dendA5_01": [],
+ "dendA5_00": [],
+ "dendA5_011": [],
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/03_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/03_TTX/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/03_TTX/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
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+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
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+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
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+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
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+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
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+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/03_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/03_TTX/synapses.json
new file mode 100644
index 0000000..7b85371
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/03_TTX/synapses.json
@@ -0,0 +1,4074 @@
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/04/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/04/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/04/setting.json
@@ -0,0 +1,144 @@
+{
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+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
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+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
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+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
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+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
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+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/04/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/04/synapses.json
new file mode 100644
index 0000000..59ab539
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/04/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_011": [],
+ "dendA5_010": [],
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+ "dendA5_0110": [],
+ "dendA5_0101": [],
+ "dendA5_0100": [],
+ "dendA5_01111": [],
+ "dendA5_01110": [],
+ "dendA5_01101": [],
+ "dendA5_01100": [],
+ "dendA5_011111": [],
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+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
+ "dendA5_0111100": [],
+ "dendA5_0110111": [],
+ "dendA5_0110110": [],
+ "dendA5_01111111": [],
+ "dendA5_01111110": [],
+ "dendA5_01111101": [],
+ "dendA5_01111100": [],
+ "dendA5_011111111": [],
+ "dendA5_011111110": [],
+ "dendA5_011111011": [],
+ "dendA5_011111010": [],
+ "dendA5_0111111111": [],
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+ "dendA5_0111110110": [],
+ "dendA5_01111111111": [],
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+ "dendA5_01111111101": [],
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/04_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/04_TTX/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/04_TTX/setting.json
@@ -0,0 +1,144 @@
+{
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+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
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+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
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+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
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+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
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+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
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+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
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+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
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+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
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+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/04_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/04_TTX/synapses.json
new file mode 100644
index 0000000..33e139b
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_IClamp/04_TTX/synapses.json
@@ -0,0 +1,4074 @@
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+ "dendA2_0110": [],
+ "dendA2_0101": [],
+ "dendA2_0100": [],
+ "dendA2_01111": [],
+ "dendA2_01110": [],
+ "dendA2_01101": [],
+ "dendA2_01100": [],
+ "dendA2_01011": [],
+ "dendA2_01010": [],
+ "dendA2_01001": [],
+ "dendA2_01000": [],
+ "dendA2_011111": [],
+ "dendA2_011110": [],
+ "dendA2_010111": [],
+ "dendA2_010110": [],
+ "dendA2_010101": [],
+ "dendA2_010100": [],
+ "dendA2_0111111": [],
+ "dendA2_0111110": [],
+ "dendA2_0101111": [],
+ "dendA2_0101110": [],
+ "dendA2_0101011": [],
+ "dendA2_0101010": [],
+ "dendA2_01010101": [],
+ "dendA2_01010100": [],
+ "dendA3_0": [],
+ "dendA3_01": [],
+ "dendA3_00": [],
+ "dendA3_011": [],
+ "dendA3_010": [],
+ "dendA3_001": [],
+ "dendA3_000": [],
+ "dendA3_0111": [],
+ "dendA3_0110": [],
+ "dendA3_0101": [],
+ "dendA3_0100": [],
+ "dendA3_0011": [],
+ "dendA3_0010": [],
+ "dendA3_00111": [],
+ "dendA3_00110": [],
+ "dendA4_0": [],
+ "dendA4_01": [],
+ "dendA4_00": [],
+ "dendA4_011": [],
+ "dendA4_010": [],
+ "dendA4_0111": [],
+ "dendA4_0110": [],
+ "dendA4_01111": [],
+ "dendA4_01110": [],
+ "dendA4_01101": [],
+ "dendA4_01100": [],
+ "dendA4_011101": [],
+ "dendA4_011100": []
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/00/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/00/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/00/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/00/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/00/synapses.json
new file mode 100644
index 0000000..9d01143
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/00/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_0101": [],
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+ "dendA5_011111": [],
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+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
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+ "dendA5_011111011": [],
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+ "dendA5_01111111111": [],
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/00_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/00_TTX/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/00_TTX/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
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+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
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+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
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+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/00_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/00_TTX/synapses.json
new file mode 100644
index 0000000..8e0b3ad
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/00_TTX/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_0111111111": [],
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+ "final_weight": 0.00022561596395453309
+ },
+ {
+ "name": "Exp2SynETDP_multNNb_precentred[106]",
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+ {
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+ "name": "Exp2SynETDP_multNNb_precentred[117]",
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+ "name": "Exp2SynNMDA_SLM[117]",
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+ "final_weight": 0.00022829337858460596
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+ {
+ "name": "Exp2SynETDP_multNNb_precentred[127]",
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+ "stimulated": true,
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+ "final_weight": 0.00015022544570645913
+ },
+ {
+ "name": "Exp2SynNMDA_SLM[127]",
+ "section": "dendA5_0111111111111111111010",
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+ "stimulated": true,
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+ "type": "perforated",
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+ "init_weight": 0.00015022544570645913,
+ "final_weight": 0.00015022544570645913
+ }
+ ],
+ "dendA1_0": [],
+ "dendA1_01": [],
+ "dendA1_00": [],
+ "dendA1_011": [],
+ "dendA1_010": [],
+ "dendA1_0111": [],
+ "dendA1_0110": [],
+ "dendA1_0101": [],
+ "dendA1_0100": [],
+ "dendA1_01101": [],
+ "dendA1_01100": [],
+ "dendA1_01011": [],
+ "dendA1_01010": [],
+ "dendA1_01001": [],
+ "dendA1_01000": [],
+ "dendA2_0": [],
+ "dendA2_01": [],
+ "dendA2_00": [],
+ "dendA2_011": [],
+ "dendA2_010": [],
+ "dendA2_0111": [],
+ "dendA2_0110": [],
+ "dendA2_0101": [],
+ "dendA2_0100": [],
+ "dendA2_01111": [],
+ "dendA2_01110": [],
+ "dendA2_01101": [],
+ "dendA2_01100": [],
+ "dendA2_01011": [],
+ "dendA2_01010": [],
+ "dendA2_01001": [],
+ "dendA2_01000": [],
+ "dendA2_011111": [],
+ "dendA2_011110": [],
+ "dendA2_010111": [],
+ "dendA2_010110": [],
+ "dendA2_010101": [],
+ "dendA2_010100": [],
+ "dendA2_0111111": [],
+ "dendA2_0111110": [],
+ "dendA2_0101111": [],
+ "dendA2_0101110": [],
+ "dendA2_0101011": [],
+ "dendA2_0101010": [],
+ "dendA2_01010101": [],
+ "dendA2_01010100": [],
+ "dendA3_0": [],
+ "dendA3_01": [],
+ "dendA3_00": [],
+ "dendA3_011": [],
+ "dendA3_010": [],
+ "dendA3_001": [],
+ "dendA3_000": [],
+ "dendA3_0111": [],
+ "dendA3_0110": [],
+ "dendA3_0101": [],
+ "dendA3_0100": [],
+ "dendA3_0011": [],
+ "dendA3_0010": [],
+ "dendA3_00111": [],
+ "dendA3_00110": [],
+ "dendA4_0": [],
+ "dendA4_01": [],
+ "dendA4_00": [],
+ "dendA4_011": [],
+ "dendA4_010": [],
+ "dendA4_0111": [],
+ "dendA4_0110": [],
+ "dendA4_01111": [],
+ "dendA4_01110": [],
+ "dendA4_01101": [],
+ "dendA4_01100": [],
+ "dendA4_011101": [],
+ "dendA4_011100": []
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/01/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/01/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/01/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/01/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/01/synapses.json
new file mode 100644
index 0000000..38dd919
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/01/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_00": [],
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+ "dendA5_0101": [],
+ "dendA5_0100": [],
+ "dendA5_01111": [],
+ "dendA5_01110": [],
+ "dendA5_01101": [],
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+ "dendA5_011111": [],
+ "dendA5_011110": [],
+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
+ "dendA5_0111100": [],
+ "dendA5_0110111": [],
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+ "dendA5_01111111": [],
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+ "dendA5_011111111": [],
+ "dendA5_011111110": [],
+ "dendA5_011111011": [],
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+ "dendA5_0111110111": [],
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+ "dendA5_01111111111": [],
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+ "dendA5_01111111111111110": [],
+ "dendA5_01111111111110101": [],
+ "dendA5_01111111111110100": [],
+ "dendA5_011111111111111111": [
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+ "dendA5_011111111111111110": [
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/01_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/01_TTX/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/01_TTX/setting.json
@@ -0,0 +1,144 @@
+{
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+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
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+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
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+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
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+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
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+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
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+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
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+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
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+ "NMDA_TAU1": 1,
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+ },
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+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/01_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/01_TTX/synapses.json
new file mode 100644
index 0000000..1090e60
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/01_TTX/synapses.json
@@ -0,0 +1,4074 @@
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+ "dendA3_011": [],
+ "dendA3_010": [],
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+ "dendA3_0101": [],
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+ "dendA3_0011": [],
+ "dendA3_0010": [],
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+ "dendA4_00": [],
+ "dendA4_011": [],
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/02/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/02/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/02/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/02/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/02/synapses.json
new file mode 100644
index 0000000..8de3e57
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/02/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_011111": [],
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+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
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+ "dendA5_0111101": [],
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+ "dendA3_000": [],
+ "dendA3_0111": [],
+ "dendA3_0110": [],
+ "dendA3_0101": [],
+ "dendA3_0100": [],
+ "dendA3_0011": [],
+ "dendA3_0010": [],
+ "dendA3_00111": [],
+ "dendA3_00110": [],
+ "dendA4_0": [],
+ "dendA4_01": [],
+ "dendA4_00": [],
+ "dendA4_011": [],
+ "dendA4_010": [],
+ "dendA4_0111": [],
+ "dendA4_0110": [],
+ "dendA4_01111": [],
+ "dendA4_01110": [],
+ "dendA4_01101": [],
+ "dendA4_01100": [],
+ "dendA4_011101": [],
+ "dendA4_011100": []
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/02_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/02_TTX/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/02_TTX/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/02_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/02_TTX/synapses.json
new file mode 100644
index 0000000..5b6b898
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/02_TTX/synapses.json
@@ -0,0 +1,4074 @@
+{
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+ "dendA5_0100": [],
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+ "dendA5_01100": [],
+ "dendA5_011111": [],
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+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
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+ "dendA5_01111111": [],
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/03/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/03/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/03/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/03/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/03/synapses.json
new file mode 100644
index 0000000..194fcae
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/03/synapses.json
@@ -0,0 +1,4074 @@
+{
+ "dendA5_0": [],
+ "dendA5_01": [],
+ "dendA5_00": [],
+ "dendA5_011": [],
+ "dendA5_010": [],
+ "dendA5_0111": [],
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+ "dendA5_0101": [],
+ "dendA5_0100": [],
+ "dendA5_01111": [],
+ "dendA5_01110": [],
+ "dendA5_01101": [],
+ "dendA5_01100": [],
+ "dendA5_011111": [],
+ "dendA5_011110": [],
+ "dendA5_011011": [],
+ "dendA5_011010": [],
+ "dendA5_0111111": [],
+ "dendA5_0111110": [],
+ "dendA5_0111101": [],
+ "dendA5_0111100": [],
+ "dendA5_0110111": [],
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+ "dendA5_01111111": [],
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+ "dendA5_01111101": [],
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+ "dendA5_011111111": [],
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+ "dendA5_011111011": [],
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+ "dendA5_0111111111": [],
+ "dendA5_0111111110": [],
+ "dendA5_0111110111": [],
+ "dendA5_0111110110": [],
+ "dendA5_01111111111": [],
+ "dendA5_01111111110": [],
+ "dendA5_01111111101": [],
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+ "dendA5_011111111111": [],
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+ "dendA5_01111111111111": [],
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+ "dendA5_011111111111101": [],
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+ "dendA5_0111111111111110": [],
+ "dendA5_0111111111111011": [],
+ "dendA5_0111111111111010": [],
+ "dendA5_01111111111111111": [],
+ "dendA5_01111111111111110": [],
+ "dendA5_01111111111110101": [],
+ "dendA5_01111111111110100": [],
+ "dendA5_011111111111111111": [
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+ }
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+ "dendA1_0": [],
+ "dendA1_01": [],
+ "dendA1_00": [],
+ "dendA1_011": [],
+ "dendA1_010": [],
+ "dendA1_0111": [],
+ "dendA1_0110": [],
+ "dendA1_0101": [],
+ "dendA1_0100": [],
+ "dendA1_01101": [],
+ "dendA1_01100": [],
+ "dendA1_01011": [],
+ "dendA1_01010": [],
+ "dendA1_01001": [],
+ "dendA1_01000": [],
+ "dendA2_0": [],
+ "dendA2_01": [],
+ "dendA2_00": [],
+ "dendA2_011": [],
+ "dendA2_010": [],
+ "dendA2_0111": [],
+ "dendA2_0110": [],
+ "dendA2_0101": [],
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+ "dendA2_01111": [],
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+ "dendA2_010111": [],
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+ "dendA2_010100": [],
+ "dendA2_0111111": [],
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+ "dendA2_0101011": [],
+ "dendA2_0101010": [],
+ "dendA2_01010101": [],
+ "dendA2_01010100": [],
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+ "dendA3_01": [],
+ "dendA3_00": [],
+ "dendA3_011": [],
+ "dendA3_010": [],
+ "dendA3_001": [],
+ "dendA3_000": [],
+ "dendA3_0111": [],
+ "dendA3_0110": [],
+ "dendA3_0101": [],
+ "dendA3_0100": [],
+ "dendA3_0011": [],
+ "dendA3_0010": [],
+ "dendA3_00111": [],
+ "dendA3_00110": [],
+ "dendA4_0": [],
+ "dendA4_01": [],
+ "dendA4_00": [],
+ "dendA4_011": [],
+ "dendA4_010": [],
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+ "dendA4_0110": [],
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+ "dendA4_011100": []
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/03_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/03_TTX/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/03_TTX/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
+ "LTP_STIMULI_NUM": 50,
+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/03_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/03_TTX/synapses.json
new file mode 100644
index 0000000..92eb155
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/03_TTX/synapses.json
@@ -0,0 +1,4074 @@
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/04/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/04/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/04/setting.json
@@ -0,0 +1,144 @@
+{
+ "BCM": {
+ "BCM_ALPHA": 1500,
+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
+ "NETSTIM_FREQUENCY": 0.5,
+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
+ "HFS_INTERTRAIN": 180000,
+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
+ "HFS_WEIGHT": 0.0002,
+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
+ "SQ_PULSES_NUM": 5,
+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
+ "TB_STIMULI_NUM": 5,
+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
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+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
+ "DT": 0.025,
+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
+ "AMPA_DTAU": 15.0,
+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
+ "AMPA_GMAX": 0.00018,
+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/04/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/04/synapses.json
new file mode 100644
index 0000000..0f7efd4
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/04/synapses.json
@@ -0,0 +1,4074 @@
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+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/04_TTX/setting.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/04_TTX/setting.json
new file mode 100644
index 0000000..363c31d
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/04_TTX/setting.json
@@ -0,0 +1,144 @@
+{
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+ "BCM_ORI_D0": 1e-05,
+ "BCM_ORI_P0": 1e-05,
+ "BCM_RAD_D0": 0.0001,
+ "BCM_RAD_P0": 0.0001,
+ "BCM_LM_D0": 2e-06,
+ "BCM_LM_P0": 5e-05,
+ "BCM_SCOUNT0": 0.0,
+ "BCM_SCOUNTTAU": 10000
+ },
+ "netstim": {
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+ "NETSTIM_NUMBER": 3,
+ "NETSTIM_SEED": 10,
+ "NETSTIM_START": 200,
+ "NETSTIM_NOISE": 0.0,
+ "GAUSS_SD": 40,
+ "GAUSS_DELAY": 50,
+ "NETSTIMRES_RESONANCE": 125,
+ "NETSTIMRES_INTERVAL": 125,
+ "NETSTIMRES_NUMBER": 1000000000.0,
+ "NETSTIMRES_START": 100
+ },
+ "protocol": {
+ "Dong_SSt": {
+ "DONG_COM_START": 300020,
+ "DONG_INTERPULSE_INTERVAL": 200,
+ "DONG_PULSES_NUM": 600,
+ "DONG_SCH_START": 300000,
+ "DONG_STIMULATED_PERC": 1.0,
+ "DONG_WEIGHT": 0.00073
+ },
+ "Pavlowsky_Alarcon": {
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+ "HFS_START": 100000,
+ "HFS_STIMULATED_PERC": 0.8,
+ "HFS_TRAINS_NUM": 4,
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+ "LFS_START": 300000,
+ "LFS_STIMULATED_PERC": 1.0,
+ "LFS_STIM_LEN": 900000,
+ "LFS_WEIGHT": 0.0002,
+ "PP_NUM": 900,
+ "PP_START": 100000,
+ "PP_STIMULATED_PERC": 0.8,
+ "PP_WEIGHT": 0.00072
+ },
+ "square_pulses": {
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+ "SQ_INTERPULSE_INTERVAL": 200,
+ "SQ_FREQUENCY": 100,
+ "SQ_INTERSPIKE_INTERVAL": 10,
+ "SQ_STIMULI_NUM": 100,
+ "SQ_START": 10000,
+ "SQ_WEIGHT": 0.0073
+ },
+ "theta_burst": {
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+ "TB_INTERSPIKE_INTERVAL": 10,
+ "TB_BURSTS_NUM": 5,
+ "TB_INTERBURST_INTERVAL": 200,
+ "TB_PATTERNS_NUM": 3,
+ "TB_PATTERNS_INTERVAL": 3000,
+ "TB_START": 200,
+ "TB_STIMULATED_PERC": 1.0
+ },
+ "theta_burst_iclamp": {
+ "TB_ICLAMP_AMP": 1.4,
+ "TB_ICLAMP_DUR": 3,
+ "TB_ICLAMP_STIMULI_NUM": 3,
+ "TB_ICLAMP_INTERSPIKE_INTERVAL": 20,
+ "TB_ICLAMP_BURSTS_NUM": 5,
+ "TB_ICLAMP_INTERBURST_INTERVAL": 200,
+ "TB_ICLAMP_PATTERNS_NUM": 3,
+ "TB_ICLAMP_PATTERNS_INTERVAL": 3000,
+ "TB_ICLAMP_START": 207
+ },
+ "SEClamp": {
+ "DUR1": 10000,
+ "AMP1": -70.0
+ },
+ "Makara_LTP": {
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+ "LTP_INTERVAL": 333.33,
+ "LTP_START": 12000,
+ "PRELTP_TEST_NUM": 6,
+ "PRELTP_TEST_INTERVAL": 2000,
+ "PRELTP_TEST_START": 500,
+ "POSTLTP_TEST_NUM": 6,
+ "POSTLTP_TEST_INTERVAL": 2000,
+ "POSTLTP_TEST_START": 29000
+ }
+ },
+ "simulation": {
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+ "RECORDING_STEP": 1.0,
+ "TSTOP": 10000,
+ "NUM_SEGMENTS": 10,
+ "SEG_DURATION": 1000,
+ "SEED": 1,
+ "NA_SLOW_INACT": 1.0
+ },
+ "synapse": {
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+ "AMPA_E": 0,
+ "AMPA_PTAU": 15.0,
+ "AMPA_START": 0,
+ "AMPA_TAU1": 0.2,
+ "AMPA_TAU2": 2,
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+ "AMPA_GMAX_MEAN": 0.00018,
+ "AMPA_GMAX_SIGMA": 0.35,
+ "AMPA_P0": 0.009,
+ "AMPA_D0": 0.0012,
+ "NMDA_E": 0,
+ "NMDA_TAU1": 1,
+ "NMDA_TAU2": 50,
+ "NMDA_GMAX": 0.00018,
+ "SCALING_FACTOR": 1.0
+ },
+ "dends_recordings": [
+ "dendA5_011111111111111111",
+ "dendA5_011111111111111110",
+ "dendA5_0111111111111111111",
+ "dendA5_0111111111111111101",
+ "dendA5_0111111111111111100",
+ "dendA5_01111111111111111111",
+ "dendA5_01111111111111111110",
+ "dendA5_01111111111111111011",
+ "dendA5_01111111111111111010",
+ "dendA5_011111111111111111111",
+ "dendA5_011111111111111111110",
+ "dendA5_011111111111111111101",
+ "dendA5_011111111111111111100",
+ "dendA5_011111111111111110111",
+ "dendA5_011111111111111110110",
+ "dendA5_0111111111111111111111",
+ "dendA5_0111111111111111111110",
+ "dendA5_0111111111111111111011",
+ "dendA5_0111111111111111111010"
+ ]
+}
\ No newline at end of file
diff --git a/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/04_TTX/synapses.json b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/04_TTX/synapses.json
new file mode 100644
index 0000000..c36e737
--- /dev/null
+++ b/Dist_tuft_LTP_CA1/recordings/no_inac/5stim_3xTBS_VClamp/04_TTX/synapses.json
@@ -0,0 +1,4074 @@
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index 0000000..f2ae8bd
--- /dev/null
+++ b/Subthreshold_LTP_CA1/figures/LTP_distal_10min_others.svg
@@ -0,0 +1,1234 @@
+
+
+
diff --git a/Subthreshold_LTP_CA1/figures/LTP_distal_10min_v2.png b/Subthreshold_LTP_CA1/figures/LTP_distal_10min_v2.png
index 9156e3b..e69de29 100644
Binary files a/Subthreshold_LTP_CA1/figures/LTP_distal_10min_v2.png and b/Subthreshold_LTP_CA1/figures/LTP_distal_10min_v2.png differ
diff --git a/Subthreshold_LTP_CA1/figures/LTP_distal_10min_v2.svg b/Subthreshold_LTP_CA1/figures/LTP_distal_10min_v2.svg
index f23c022..e69de29 100644
--- a/Subthreshold_LTP_CA1/figures/LTP_distal_10min_v2.svg
+++ b/Subthreshold_LTP_CA1/figures/LTP_distal_10min_v2.svg
@@ -1,1178 +0,0 @@
-
-
-
diff --git a/Subthreshold_LTP_CA1/figures/LTP_distal_10min_v3.png b/Subthreshold_LTP_CA1/figures/LTP_distal_10min_v3.png
new file mode 100644
index 0000000..e69de29
diff --git a/Subthreshold_LTP_CA1/figures/LTP_distal_10min_v3.svg b/Subthreshold_LTP_CA1/figures/LTP_distal_10min_v3.svg
new file mode 100644
index 0000000..2064805
--- /dev/null
+++ b/Subthreshold_LTP_CA1/figures/LTP_distal_10min_v3.svg
@@ -0,0 +1,1242 @@
+
+
+
diff --git a/Subthreshold_LTP_CA1/figures/avg_LTP.json b/Subthreshold_LTP_CA1/figures/avg_LTP.json
index 7899bf6..cfefd7e 100644
--- a/Subthreshold_LTP_CA1/figures/avg_LTP.json
+++ b/Subthreshold_LTP_CA1/figures/avg_LTP.json
@@ -1,4 +1,11 @@
{
+ "2_synapses_distal": [
+ 1.0,
+ 1.0,
+ 1.0,
+ 1.0,
+ 1.0
+ ],
"3_synapses_distal": [
1.1849021701800473,
1.1856923473517884,
@@ -7,7 +14,7 @@
1.1861900693820828
],
"4_synapses_distal": [
- 1.1864437742212024,
+ 1.1869463326174172,
1.1872104542402706,
1.1874682633559184,
1.1874139657987193,
diff --git a/Subthreshold_LTP_CA1/figures/avg_LTP_others.json b/Subthreshold_LTP_CA1/figures/avg_LTP_others.json
new file mode 100644
index 0000000..88cec86
--- /dev/null
+++ b/Subthreshold_LTP_CA1/figures/avg_LTP_others.json
@@ -0,0 +1,32 @@
+{
+ "12_synapses_proximal": {
+ "mean": 1.0,
+ "std": 0.0,
+ "sem": 0.0
+ },
+ "14_synapses_proximal": {
+ "mean": 1.0,
+ "std": 0.0,
+ "sem": 0.0
+ },
+ "16_synapses_proximal": {
+ "mean": 1.0,
+ "std": 0.0,
+ "sem": 0.0
+ },
+ "4_11_synapses_proximal": {
+ "mean": 1.1882383389749687,
+ "std": 0.00035848794173922474,
+ "sem": 9.25611885448128e-05
+ },
+ "4_synapses_distal_short": {
+ "mean": 1.0173645799122153,
+ "std": 0.0,
+ "sem": 0.0
+ },
+ "8_synapses_distal_short": {
+ "mean": 1.0173696841073947,
+ "std": 1.4114786297609438e-05,
+ "sem": 4.990330553019298e-06
+ }
+}
\ No newline at end of file
diff --git a/Subthreshold_LTP_CA1/figures/figure_3_v2 b/Subthreshold_LTP_CA1/figures/figure_3_v2
deleted file mode 100644
index 01661d2..0000000
Binary files a/Subthreshold_LTP_CA1/figures/figure_3_v2 and /dev/null differ
diff --git a/Subthreshold_LTP_CA1/figures/figure_3v2.svg b/Subthreshold_LTP_CA1/figures/figure_3v2.svg
deleted file mode 100644
index 2a9dd97..0000000
--- a/Subthreshold_LTP_CA1/figures/figure_3v2.svg
+++ /dev/null
@@ -1,38110 +0,0 @@
-
-
-
-
diff --git a/Subthreshold_LTP_CA1/figures/figures.py b/Subthreshold_LTP_CA1/figures/figures.py
index e28698c..3090303 100644
--- a/Subthreshold_LTP_CA1/figures/figures.py
+++ b/Subthreshold_LTP_CA1/figures/figures.py
@@ -22,16 +22,21 @@
REC_SOMA = 'soma'
REC_SOMA_X = 0.5
DENDS = ['dend1_00', 'dend5_00', 'dend2_01001', 'dend2_01110', 'dend2_010100']
-EXPERIMENTS = ['3_synapses_distal', '4_synapses_distal', '8_synapses_distal']
+EXPERIMENTS = ['2_synapses_distal', '3_synapses_distal', '4_synapses_distal', '8_synapses_distal']
+EXPERIMENTS_OTHERS = ['12_synapses_proximal', '14_synapses_proximal', '16_synapses_proximal', '4_11_synapses_proximal',
+ '4_synapses_distal_short', '8_synapses_distal_short']
def main():
# avg_LTP()
+ # avg_LTP_others()
fig_LTP_distal()
- # fig_spine_voltage_weight_zoom()
- # fig_spine_voltage_weight()
- # fig_voltage_derivative()
- # fig_shape()
+ fig_LTP_others()
+ statistics_figure_3()
+ statistics_others()
+ fig_spine_voltage_weight_zoom()
+ fig_spine_voltage_weight()
+ fig_shape()
def load_json_data(file):
@@ -63,6 +68,27 @@ def avg_LTP():
raise fnf_error
+def avg_LTP_others():
+ AVG_LTP = {}
+ for e in EXPERIMENTS_OTHERS:
+ AVG_LTP[e] = {}
+ synapses = load_json_data('../recordings/dend5_00/' + e + '/synapses.json')
+ ltp = []
+ for sec in synapses:
+ if len(synapses[sec]) > 0:
+ for syn in synapses[sec]:
+ if syn['receptor'] == 'AMPA':
+ ltp.append(syn['final_weight'] / syn['init_weight'])
+ AVG_LTP[e]['mean'] = np.mean(ltp)
+ AVG_LTP[e]['std'] = np.std(ltp)
+ AVG_LTP[e]['sem'] = np.std(ltp) / np.sqrt(len(ltp))
+ try:
+ with open('avg_LTP_others.json', 'w') as f:
+ json.dump(AVG_LTP, f, indent=4)
+ except FileNotFoundError as fnf_error:
+ raise fnf_error
+
+
def fig_LTP_distal():
LTP = {}
avg = []
@@ -70,9 +96,15 @@ def fig_LTP_distal():
sem = []
# avg_paper_distal = [0.84, 1.35, 1.32, 1.52]
# sem_paper_distal = [0.11, 0.13, 0.11, 0.20]
- avg_paper_distal = [1.1476101288582556, 1.1476101288582556, 1.18]
- std_paper_distal = [3.245931617, 4.293963916, 3.54]
- sem_paper_distal = [0.07, 0.07, 0.10]
+ # avg_paper_distal = [1.1476101288582556, 1.1476101288582556, 1.18] # old
+ # std_paper_distal = [3.245931617, 4.293963916, 3.54] # old
+ # sem_paper_distal = [0.07, 0.07, 0.10] # old
+
+ avg_paper_distal = [0.9088785046728969, 1.2523364485981303, 1.0957943925233642, 1.1892428487945217]
+ sem_paper_distal = [0.105140187, 0.16588785, 0.053738318, 0.091504713]
+ std_paper_distal = [0.297381357, 0.469201696, 0.201070374, 0.274514138]
+ n_runs = [8, 8, 14, 9]
+
data = load_json_data('./avg_LTP.json')
for e in EXPERIMENTS:
avg.append(np.average(data[e]))
@@ -80,32 +112,157 @@ def fig_LTP_distal():
sem.append(std[-1] / np.sqrt(len(data[e])))
barWidth = 0.4
- r1 = np.arange(start=0, stop=3, step=1)
- r2 = np.arange(start=0.4, stop=3.4, step=1)
- r3 = np.arange(start=0.2, stop=3.2, step=1)
+ r1 = np.arange(start=0, stop=4, step=1)
+ r2 = np.arange(start=0.4, stop=4.4, step=1)
+ r3 = np.arange(start=0.2, stop=4.2, step=1)
+ ticks = ['2_synapses', '3_synapses', '4_synapses', '8_synapses']
fig = plt.figure(figsize=(2.8, 2.24), dpi=300)
ax = plt.axes()
ax.bar(r1, avg_paper_distal, yerr=sem_paper_distal, width=barWidth, label='exp. data', color='#949494',
error_kw=dict(lw=0.5, capsize=2.0, capthick=0.5))
ax.bar(r2, avg, yerr=sem, width=barWidth, label='simulation', color='#029e73',
error_kw=dict(lw=0.5, capsize=2.0, capthick=0.5))
- ax.set_xticks(r3, EXPERIMENTS, rotation=45)
+ ax.set_xticks(r3, ticks, rotation=45)
ax.spines['top'].set_visible(False)
ax.spines['right'].set_visible(False)
ax.tick_params(axis='both', which='both', top=False, right=False, bottom=False)
# ax.autoscale(tight=True)
ax.set_ylabel('Potentiation ratio\n (Post TBS / Baseline)')
- ax.set_ylim(0.8, 1.4)
+ ax.set_ylim(0.8, 1.5)
ax.legend(fontsize=4)
fig.tight_layout()
- plt.savefig('./LTP_distal_10min_v2.svg', format='svg')
- plt.savefig('./LTP_distal_10min_v2.png', format='png')
+ plt.savefig('./LTP_distal_10min_v3.svg', format='svg')
+ plt.savefig('./LTP_distal_10min_v3.png', format='png')
plt.show()
plt.close(fig)
+def fig_LTP_others():
+ LTP = {}
+ avg = []
+ std = []
+ sem = []
+
+ # 12-16 proximal, 4+11 proximal, 4 distal short, 8 distal short
+ avg_paper = [0.8849, 2.0691, 1.1189, 0.9390]
+ sem_paper = [0.079, 0.4858, 0.1433, 0.0671]
+ n_runs = [5, 7, 5, 4]
+
+ data = load_json_data('./avg_LTP_others.json')
+ for e in EXPERIMENTS_OTHERS:
+ avg.append(data[e]['mean'])
+ std.append(data[e]['std'])
+ sem.append(data[e]['sem'])
+
+ avg = [np.mean(avg[:3])] + avg[3:]
+ std = [np.mean(std[:3])] + std[3:]
+ sem = [np.mean(sem[:3])] + sem[3:]
+
+ barWidth = 0.4
+ r1 = np.arange(start=0, stop=4, step=1)
+ r2 = np.arange(start=0.4, stop=4.4, step=1)
+ r3 = np.arange(start=0.2, stop=4.2, step=1)
+
+ ticks = ['12-16_synapses_proximal', '4+11_synapses_proximal', '4_synapses_distal_short', '8_synapses_distal_short']
+ fig = plt.figure(figsize=(2.8, 2.24), dpi=300)
+ ax = plt.axes()
+ ax.bar(r1, avg_paper, yerr=sem_paper, width=barWidth, label='exp. data', color='#949494',
+ error_kw=dict(lw=0.5, capsize=2.0, capthick=0.5))
+ ax.bar(r2, avg, yerr=sem, width=barWidth, label='simulation', color='#029e73',
+ error_kw=dict(lw=0.5, capsize=2.0, capthick=0.5))
+ ax.set_xticks(r3, ticks, rotation=45)
+
+ ax.spines['top'].set_visible(False)
+ ax.spines['right'].set_visible(False)
+ ax.tick_params(axis='both', which='both', top=False, right=False)
+ # ax.autoscale(tight=True)
+ ax.set_ylabel('Potentiation ratio\n (Post TBS / Baseline)')
+ ax.set_ylim(0.6, 2.6)
+ ax.legend(fontsize=4)
+ fig.tight_layout()
+ plt.savefig('./LTP_distal_10min_others.svg', format='svg')
+ plt.savefig('./LTP_distal_10min_others.png', format='png')
+ plt.show()
+ plt.close(fig)
+
+
+def statistics_figure_3():
+ avg_paper_distal = [0.9088785046728969, 1.2523364485981303, 1.0957943925233642, 1.1892428487945217]
+ sem_paper_distal = [0.105140187, 0.16588785, 0.053738318, 0.091504713]
+ std_paper_distal = [0.297381357, 0.469201696, 0.201070374, 0.274514138]
+ n_runs = [8, 8, 14, 9]
+
+ data = load_json_data('./avg_LTP.json')
+
+ from scipy.stats import ttest_ind_from_stats
+
+ avg = []
+ std = []
+ sem = []
+ for e in EXPERIMENTS:
+ avg.append(np.average(data[e]))
+ std.append(np.std(data[e], axis=0))
+ sem.append(std[-1] / np.sqrt(len(data[e])))
+
+ for i in range(4):
+ # Perform one-sample t-test
+ stat, p_value = ttest_ind_from_stats(mean1=avg[i], mean2=avg_paper_distal[i], std1=std[i],
+ std2=std_paper_distal[i], nobs1=5, nobs2=n_runs[i], equal_var=False,
+ alternative='two-sided')
+
+ # Check for statistical significance
+ if p_value < 0.05:
+ print(EXPERIMENTS[i], p_value,
+ "The mean of the simulated data is significantly different from the overall "
+ "mean of the experimental data.")
+ else:
+ print(EXPERIMENTS[i], p_value,
+ "There is no significant difference between the mean of the simulated data and the overall mean "
+ "of the experimental data.")
+
+
+def statistics_others():
+ avg_paper = [0.8849, 2.0691, 1.1189, 0.9390]
+ sem_paper = [0.079, 0.4858, 0.1433, 0.0671]
+ std_paper = [0.1766, 1.2853, 0.3204, 0.1342]
+ n_runs = [5, 7, 5, 4]
+
+ data = load_json_data('./avg_LTP_others.json')
+
+ from scipy.stats import ttest_ind_from_stats
+
+ avg = []
+ std = []
+ sem = []
+ for e in EXPERIMENTS_OTHERS:
+ avg.append(data[e]['mean'])
+ std.append(data[e]['std'])
+ sem.append(data[e]['sem'])
+
+ avg = [np.mean(avg[:3])] + avg[3:]
+ std = [np.mean(std[:3])] + std[3:]
+ sem = [np.mean(sem[:3])] + sem[3:]
+
+ ticks = ['12_16_synapses_proximal', '4_11_synapses_proximal', '4_synapses_distal_short', '8_synapses_distal_short']
+ for i in range(4):
+ # Perform one-sample t-test
+ stat, p_value = ttest_ind_from_stats(mean1=avg[i], mean2=avg_paper[i], std1=std[i],
+ std2=std_paper[i], nobs1=5, nobs2=n_runs[i], equal_var=False,
+ alternative='two-sided')
+
+ # Check for statistical significance
+ if p_value < 0.05:
+ print(ticks[i], p_value,
+ "The mean of the simulated data is significantly different from the overall "
+ "mean of the experimental data.")
+ else:
+ print(ticks[i], p_value,
+ "There is no significant difference between the mean of the simulated data and the overall mean "
+ "of the experimental data.")
+
+
def fig_spine_voltage_weight_zoom():
labels_distal = ['2_synapses', '3_synapses', '4_synapses', '8_synapses']
colors = ['#d55e00', '#cc78bc', '#ca9161', '#fbafe4']
@@ -203,8 +360,8 @@ def fig_shape():
ax.view_init(elev=90, azim=-90, vertical_axis='z')
ax.set_box_aspect(None, zoom=1.5)
ax.set_axis_off()
- plt.savefig('./shape_v2.png', format='png', dpi=300)
- plt.savefig('./shape_v2.svg', format='svg')
+ plt.savefig('./shape.png', format='png', dpi=300)
+ plt.savefig('./shape.svg', format='svg')
plt.show()
diff --git a/Subthreshold_LTP_CA1/figures/shape.png b/Subthreshold_LTP_CA1/figures/shape.png
new file mode 100644
index 0000000..e69de29
diff --git a/Subthreshold_LTP_CA1/figures/shape.svg b/Subthreshold_LTP_CA1/figures/shape.svg
new file mode 100644
index 0000000..5d8b57a
--- /dev/null
+++ b/Subthreshold_LTP_CA1/figures/shape.svg
@@ -0,0 +1,16756 @@
+
+
+
diff --git a/Subthreshold_LTP_CA1/figures/shape_v2.png b/Subthreshold_LTP_CA1/figures/shape_v2.png
index a6520d2..e69de29 100644
Binary files a/Subthreshold_LTP_CA1/figures/shape_v2.png and b/Subthreshold_LTP_CA1/figures/shape_v2.png differ
diff --git a/Subthreshold_LTP_CA1/figures/shape_v2.svg b/Subthreshold_LTP_CA1/figures/shape_v2.svg
index 5d8b57a..e69de29 100644
--- a/Subthreshold_LTP_CA1/figures/shape_v2.svg
+++ b/Subthreshold_LTP_CA1/figures/shape_v2.svg
@@ -1,16756 +0,0 @@
-
-
-
diff --git a/Subthreshold_LTP_CA1/figures/spine_volt_weight.png b/Subthreshold_LTP_CA1/figures/spine_volt_weight.png
index 735ccf5..e69de29 100644
Binary files a/Subthreshold_LTP_CA1/figures/spine_volt_weight.png and b/Subthreshold_LTP_CA1/figures/spine_volt_weight.png differ
diff --git a/Subthreshold_LTP_CA1/figures/spine_volt_weight.svg b/Subthreshold_LTP_CA1/figures/spine_volt_weight.svg
index 9c35fc5..8e60fae 100644
--- a/Subthreshold_LTP_CA1/figures/spine_volt_weight.svg
+++ b/Subthreshold_LTP_CA1/figures/spine_volt_weight.svg
@@ -6,11 +6,11 @@
- 2023-08-08T15:09:37.518216
+ 2024-01-19T11:08:51.541651
image/svg+xml
- Matplotlib v3.5.3, https://matplotlib.org/
+ Matplotlib v3.6.3, https://matplotlib.org/
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+" clip-path="url(#pbabee41a16)" style="fill: none; stroke: #ca9161; stroke-width: 1.5; stroke-linecap: square"/>
+" clip-path="url(#pbabee41a16)" style="fill: none; stroke: #cc78bc; stroke-width: 1.5; stroke-linecap: square"/>
+" clip-path="url(#pbabee41a16)" style="fill: none; stroke: #d55e00; stroke-width: 1.5; stroke-linecap: square"/>
+" clip-path="url(#pbabee41a16)" style="fill: none; stroke-dasharray: 1.5,2.475; stroke-dashoffset: 0; stroke: #000000; stroke-width: 1.5"/>
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diff --git a/Subthreshold_LTP_CA1/figures/spine_volt_zoom.png b/Subthreshold_LTP_CA1/figures/spine_volt_zoom.png
index 455903b..e69de29 100644
Binary files a/Subthreshold_LTP_CA1/figures/spine_volt_zoom.png and b/Subthreshold_LTP_CA1/figures/spine_volt_zoom.png differ
diff --git a/Subthreshold_LTP_CA1/figures/spine_volt_zoom.svg b/Subthreshold_LTP_CA1/figures/spine_volt_zoom.svg
index 2415657..c9aecd9 100644
--- a/Subthreshold_LTP_CA1/figures/spine_volt_zoom.svg
+++ b/Subthreshold_LTP_CA1/figures/spine_volt_zoom.svg
@@ -6,11 +6,11 @@
- 2023-08-08T14:56:23.185539
+ 2024-01-19T11:08:41.578563
image/svg+xml
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+ Matplotlib v3.6.3, https://matplotlib.org/
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