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c302_D_Social.net.nml
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<neuroml xmlns="http://www.neuroml.org/schema/neuroml2" xmlns:xs="http://www.w3.org/2001/XMLSchema" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.neuroml.org/schema/neuroml2 https://raw.github.com/NeuroML/NeuroML2/development/Schemas/NeuroML2/NeuroML_v2.3.1.xsd" id="c302_D_Social">
<notes>
Parameters and setting used to generate this network:
Data reader: SpreadsheetDataReader
c302 version: 0.9.1
owmeta version: - not installed -
owmeta_core version: - not installed -
Cells: ['RMGR', 'ASHR', 'ASKR', 'AWBR', 'IL2R', 'RMHR', 'URXR']
Cell stimulated: []
Connection: []
Connection numbers overridden: None
Connection numbers scaled: None
Connection polarities override: None
Muscles: []
Known BioParameters:
BioParameter: ca_boyle_erev = 40 mV (SRC: BlindGuess, certainty 0.1)
BioParameter: ca_conc_decay_time = 11.5943 ms (SRC: BlindGuess, certainty 0.1)
BioParameter: ca_conc_rho = 0.000238919 mol_per_m_per_A_per_s (SRC: BlindGuess, certainty 0.1)
BioParameter: cell_diameter = 5 (SRC: BlindGuess, certainty 0.1)
BioParameter: chem_exc_syn_decay = 5 ms (SRC: BlindGuess, certainty 0.1)
BioParameter: chem_exc_syn_erev = 0 mV (SRC: BlindGuess, certainty 0.1)
BioParameter: chem_exc_syn_rise = 1 ms (SRC: BlindGuess, certainty 0.1)
BioParameter: chem_inh_syn_decay = 40 ms (SRC: BlindGuess, certainty 0.1)
BioParameter: chem_inh_syn_erev = -60 mV (SRC: BlindGuess, certainty 0.1)
BioParameter: chem_inh_syn_rise = 2 ms (SRC: BlindGuess, certainty 0.1)
BioParameter: initial_memb_pot = -45 mV (SRC: BlindGuess, certainty 0.1)
BioParameter: k_fast_erev = -60 mV (SRC: BlindGuess, certainty 0.1)
BioParameter: k_slow_erev = -60 mV (SRC: BlindGuess, certainty 0.1)
BioParameter: leak_erev = -50 mV (SRC: BlindGuess, certainty 0.1)
BioParameter: muscle_ca_boyle_cond_density = 2 mS_per_cm2 (SRC: BlindGuess, certainty 0.1)
BioParameter: muscle_k_fast_cond_density = 0.2 mS_per_cm2 (SRC: BlindGuess, certainty 0.1)
BioParameter: muscle_k_slow_cond_density = 4 mS_per_cm2 (SRC: BlindGuess, certainty 0.1)
BioParameter: muscle_leak_cond_density = 0.005 mS_per_cm2 (SRC: BlindGuess, certainty 0.1)
BioParameter: muscle_length = 20 (SRC: BlindGuess, certainty 0.1)
BioParameter: muscle_spike_thresh = -26 mV (SRC: BlindGuess, certainty 0.1)
BioParameter: neuron_ca_boyle_cond_density = 2 mS_per_cm2 (SRC: BlindGuess, certainty 0.1)
BioParameter: neuron_k_fast_cond_density = 0.2 mS_per_cm2 (SRC: BlindGuess, certainty 0.1)
BioParameter: neuron_k_slow_cond_density = 2 mS_per_cm2 (SRC: BlindGuess, certainty 0.1)
BioParameter: neuron_leak_cond_density = 0.02 mS_per_cm2 (SRC: BlindGuess, certainty 0.1)
BioParameter: neuron_spike_thresh = -26 mV (SRC: BlindGuess, certainty 0.1)
BioParameter: neuron_to_muscle_chem_exc_syn_gbase = .01 nS (SRC: BlindGuess, certainty 0.1)
BioParameter: neuron_to_muscle_chem_inh_syn_gbase = 3 nS (SRC: BlindGuess, certainty 0.1)
BioParameter: neuron_to_muscle_elec_syn_gbase = 0.0005 nS (SRC: BlindGuess, certainty 0.1)
BioParameter: neuron_to_neuron_chem_exc_syn_gbase = .01 nS (SRC: BlindGuess, certainty 0.1)
BioParameter: neuron_to_neuron_chem_inh_syn_gbase = 3 nS (SRC: BlindGuess, certainty 0.1)
BioParameter: neuron_to_neuron_elec_syn_gbase = 0.0005 nS (SRC: BlindGuess, certainty 0.1)
BioParameter: resistivity = 12 kohm_cm (SRC: BlindGuess, certainty 0.1)
BioParameter: specific_capacitance = 1 uF_per_cm2 (SRC: BlindGuess, certainty 0.1)
BioParameter: unphysiological_offset_current = 0 pA (SRC: KnownError, certainty 0)
BioParameter: unphysiological_offset_current_del = 0 ms (SRC: KnownError, certainty 0)
BioParameter: unphysiological_offset_current_dur = 2000 ms (SRC: KnownError, certainty 0)
</notes>
<include href="cell_C.xml"/>
<include href="cells/ASHR_D.cell.nml"/>
<include href="cells/ASKR_D.cell.nml"/>
<include href="cells/AWBR_D.cell.nml"/>
<include href="cells/IL2R_D.cell.nml"/>
<include href="cells/RMGR_D.cell.nml"/>
<include href="cells/RMHR_D.cell.nml"/>
<include href="cells/URXR_D.cell.nml"/>
<fixedFactorConcentrationModel id="CaPool" ion="ca" restingConc="0 mM" decayConstant="11.5943 ms" rho="0.000238919 mol_per_m_per_A_per_s"/>
<expTwoSynapse id="neuron_to_neuron_exc_syn" gbase=".01 nS" erev="0 mV" tauDecay="5 ms" tauRise="1 ms"/>
<gapJunction id="neuron_to_neuron_elec_syn" conductance="0.0005 nS"/>
<cell id="GenericMuscleCell">
<morphology id="morphology_GenericMuscleCell">
<segment id="0" name="soma">
<proximal x="0.0" y="0.0" z="0.0" diameter="5.0"/>
<distal x="0.0" y="20.0" z="0.0" diameter="5.0"/>
</segment>
</morphology>
<biophysicalProperties id="biophys_GenericMuscleCell">
<membraneProperties>
<channelDensity id="Leak_all" ionChannel="Leak" condDensity="0.005 mS_per_cm2" erev="-50 mV" ion="non_specific"/>
<channelDensity id="k_slow_all" ionChannel="k_slow" condDensity="4 mS_per_cm2" erev="-60 mV" ion="k"/>
<channelDensity id="k_fast_all" ionChannel="k_fast" condDensity="0.2 mS_per_cm2" erev="-60 mV" ion="k"/>
<channelDensity id="ca_boyle_all" ionChannel="ca_boyle" condDensity="2 mS_per_cm2" erev="40 mV" ion="ca"/>
<spikeThresh value="-26 mV"/>
<specificCapacitance value="1 uF_per_cm2"/>
<initMembPotential value="-45 mV"/>
</membraneProperties>
<intracellularProperties>
<species id="ca" concentrationModel="CaPool" ion="ca" initialConcentration="0 mM" initialExtConcentration="2E-6 mol_per_cm3"/>
<resistivity value="12 kohm_cm"/>
</intracellularProperties>
</biophysicalProperties>
</cell>
<pulseGenerator id="offset_current" delay="0 ms" duration="2000 ms" amplitude="0 pA"/>
<pulseGenerator id="stim_RMGR_1" delay="100ms" duration="200ms" amplitude="5pA"/>
<pulseGenerator id="stim_ASHR_1" delay="400ms" duration="200ms" amplitude="5pA"/>
<pulseGenerator id="stim_ASKR_1" delay="700ms" duration="200ms" amplitude="5pA"/>
<pulseGenerator id="stim_AWBR_1" delay="1000ms" duration="200ms" amplitude="5pA"/>
<pulseGenerator id="stim_IL2R_1" delay="1300ms" duration="200ms" amplitude="5pA"/>
<pulseGenerator id="stim_RMHR_1" delay="1600ms" duration="200ms" amplitude="5pA"/>
<pulseGenerator id="stim_URXR_1" delay="1900ms" duration="200ms" amplitude="5pA"/>
<network id="c302_D_Social">
<property tag="recommended_duration_ms" value="2500"/>
<property tag="recommended_dt_ms" value="0.05"/>
<population id="ASHR" component="ASHR" size="1" type="populationList">
<property tag="color" value="1 .2 1"/>
<property tag="type" value="sensory"/>
<property tag="receptor" value="DCAR-1; DOP-4; NPR-1; NPR-2; NTR-1; NTR-2; OCR-2; OCTR-1; OSM-9; SER-3; SER-5; SRA-6; SRB-6; TMC-1; TRPA-1; TYRA-2; UNC-8"/>
<property tag="neurotransmitter" value="Glutamate"/>
<instance id="0">
<location x="0.0" y="0.0" z="0.0"/>
</instance>
</population>
<population id="ASKR" component="ASKR" size="1" type="populationList">
<property tag="color" value="1 .2 1"/>
<property tag="type" value="sensory"/>
<property tag="receptor" value="DAF-11; DOP-3; NPR-5; OSM-9; SRA-7; SRA-9; SRG-2; SRG-8; TYRA-3"/>
<property tag="neurotransmitter" value="Glutamate"/>
<property tag="OpenWormBackerAssignedName" value="Z.B."/>
<instance id="0">
<location x="0.0" y="0.0" z="0.0"/>
</instance>
</population>
<population id="AWBR" component="AWBR" size="1" type="populationList">
<property tag="color" value="1 .2 1"/>
<property tag="type" value="sensory"/>
<property tag="receptor" value="AEX-2; DAF-11; NPR-5; SER-5; SER-6; STR-1"/>
<property tag="neurotransmitter" value=""/>
<instance id="0">
<location x="0.0" y="0.0" z="0.0"/>
</instance>
</population>
<population id="IL2R" component="IL2R" size="1" type="populationList">
<property tag="color" value="1 .2 1"/>
<property tag="type" value="sensory"/>
<property tag="receptor" value="DES-2; LGC-53; NPR-1; NPR-5"/>
<property tag="neurotransmitter" value="Acetylcholine"/>
<instance id="0">
<location x="0.0" y="0.0" z="0.0"/>
</instance>
</population>
<population id="RMGR" component="RMGR" size="1" type="populationList">
<property tag="color" value="1 0 .4"/>
<property tag="type" value="interneuron"/>
<property tag="receptor" value="NPR-1"/>
<property tag="neurotransmitter" value=""/>
<property tag="OpenWormBackerAssignedName" value="Bryan Nagle"/>
<instance id="0">
<location x="0.0" y="0.0" z="0.0"/>
</instance>
</population>
<population id="RMHR" component="RMHR" size="1" type="populationList">
<property tag="color" value=".5 .4 1"/>
<property tag="type" value="motor"/>
<property tag="receptor" value="SER-1"/>
<property tag="neurotransmitter" value=""/>
<property tag="OpenWormBackerAssignedName" value="Martino"/>
<instance id="0">
<location x="0.0" y="0.0" z="0.0"/>
</instance>
</population>
<population id="URXR" component="URXR" size="1" type="populationList">
<property tag="color" value="1 0 .4"/>
<property tag="type" value="interneuron; sensory"/>
<property tag="receptor" value="GCY-1; GCY-25; GCY-32; GCY-34; GCY-35; GCY-36; GCY-37; NPR-1; PDFR-1; SRA-10"/>
<property tag="neurotransmitter" value=""/>
<instance id="0">
<location x="0.0" y="0.0" z="0.0"/>
</instance>
</population>
<projection id="NC_ASHR_RMGR_Glutamate" presynapticPopulation="ASHR" postsynapticPopulation="RMGR" synapse="neuron_to_neuron_exc_syn">
<connectionWD id="0" preCellId="../ASHR/0/ASHR" postCellId="../RMGR/0/RMGR" weight="2.0" delay="0ms"/>
</projection>
<projection id="NC_AWBR_ASHR_Glutamate" presynapticPopulation="AWBR" postsynapticPopulation="ASHR" synapse="neuron_to_neuron_exc_syn">
<connectionWD id="0" preCellId="../AWBR/0/AWBR" postCellId="../ASHR/0/ASHR" weight="2.0" delay="0ms"/>
</projection>
<projection id="NC_RMGR_ASHR_FMRFamide" presynapticPopulation="RMGR" postsynapticPopulation="ASHR" synapse="neuron_to_neuron_exc_syn">
<connectionWD id="0" preCellId="../RMGR/0/RMGR" postCellId="../ASHR/0/ASHR" weight="1.0" delay="0ms"/>
</projection>
<projection id="NC_RMGR_URXR_FMRFamide" presynapticPopulation="RMGR" postsynapticPopulation="URXR" synapse="neuron_to_neuron_exc_syn">
<connectionWD id="0" preCellId="../RMGR/0/RMGR" postCellId="../URXR/0/URXR" weight="1.0" delay="0ms"/>
</projection>
<projection id="NC_URXR_RMGR_Glutamate" presynapticPopulation="URXR" postsynapticPopulation="RMGR" synapse="neuron_to_neuron_exc_syn">
<connectionWD id="0" preCellId="../URXR/0/URXR" postCellId="../RMGR/0/RMGR" weight="1.0" delay="0ms"/>
</projection>
<electricalProjection id="NC_ASHR_ASKR_Generic_GJ" presynapticPopulation="ASHR" postsynapticPopulation="ASKR">
<electricalConnectionInstanceW id="0" preCell="../ASHR/0/ASHR" postCell="../ASKR/0/ASKR" synapse="neuron_to_neuron_elec_syn" weight="1.0"/>
</electricalProjection>
<electricalProjection id="NC_ASHR_RMGR_Generic_GJ" presynapticPopulation="ASHR" postsynapticPopulation="RMGR">
<electricalConnectionInstanceW id="0" preCell="../ASHR/0/ASHR" postCell="../RMGR/0/RMGR" synapse="neuron_to_neuron_elec_syn" weight="1.0"/>
</electricalProjection>
<electricalProjection id="NC_ASKR_ASHR_Generic_GJ" presynapticPopulation="ASKR" postsynapticPopulation="ASHR">
<electricalConnectionInstanceW id="0" preCell="../ASKR/0/ASKR" postCell="../ASHR/0/ASHR" synapse="neuron_to_neuron_elec_syn" weight="1.0"/>
</electricalProjection>
<electricalProjection id="NC_ASKR_RMGR_Generic_GJ" presynapticPopulation="ASKR" postsynapticPopulation="RMGR">
<electricalConnectionInstanceW id="0" preCell="../ASKR/0/ASKR" postCell="../RMGR/0/RMGR" synapse="neuron_to_neuron_elec_syn" weight="1.0"/>
</electricalProjection>
<electricalProjection id="NC_AWBR_RMGR_Generic_GJ" presynapticPopulation="AWBR" postsynapticPopulation="RMGR">
<electricalConnectionInstanceW id="0" preCell="../AWBR/0/AWBR" postCell="../RMGR/0/RMGR" synapse="neuron_to_neuron_elec_syn" weight="1.0"/>
</electricalProjection>
<electricalProjection id="NC_IL2R_RMGR_Generic_GJ" presynapticPopulation="IL2R" postsynapticPopulation="RMGR">
<electricalConnectionInstanceW id="0" preCell="../IL2R/0/IL2R" postCell="../RMGR/0/RMGR" synapse="neuron_to_neuron_elec_syn" weight="1.0"/>
</electricalProjection>
<electricalProjection id="NC_IL2R_URXR_Generic_GJ" presynapticPopulation="IL2R" postsynapticPopulation="URXR">
<electricalConnectionInstanceW id="0" preCell="../IL2R/0/IL2R" postCell="../URXR/0/URXR" synapse="neuron_to_neuron_elec_syn" weight="1.0"/>
</electricalProjection>
<electricalProjection id="NC_RMGR_ASHR_Generic_GJ" presynapticPopulation="RMGR" postsynapticPopulation="ASHR">
<electricalConnectionInstanceW id="0" preCell="../RMGR/0/RMGR" postCell="../ASHR/0/ASHR" synapse="neuron_to_neuron_elec_syn" weight="1.0"/>
</electricalProjection>
<electricalProjection id="NC_RMGR_ASKR_Generic_GJ" presynapticPopulation="RMGR" postsynapticPopulation="ASKR">
<electricalConnectionInstanceW id="0" preCell="../RMGR/0/RMGR" postCell="../ASKR/0/ASKR" synapse="neuron_to_neuron_elec_syn" weight="1.0"/>
</electricalProjection>
<electricalProjection id="NC_RMGR_AWBR_Generic_GJ" presynapticPopulation="RMGR" postsynapticPopulation="AWBR">
<electricalConnectionInstanceW id="0" preCell="../RMGR/0/RMGR" postCell="../AWBR/0/AWBR" synapse="neuron_to_neuron_elec_syn" weight="1.0"/>
</electricalProjection>
<electricalProjection id="NC_RMGR_IL2R_Generic_GJ" presynapticPopulation="RMGR" postsynapticPopulation="IL2R">
<electricalConnectionInstanceW id="0" preCell="../RMGR/0/RMGR" postCell="../IL2R/0/IL2R" synapse="neuron_to_neuron_elec_syn" weight="1.0"/>
</electricalProjection>
<electricalProjection id="NC_RMGR_RMHR_Generic_GJ" presynapticPopulation="RMGR" postsynapticPopulation="RMHR">
<electricalConnectionInstanceW id="0" preCell="../RMGR/0/RMGR" postCell="../RMHR/0/RMHR" synapse="neuron_to_neuron_elec_syn" weight="1.0"/>
</electricalProjection>
<electricalProjection id="NC_RMGR_URXR_Generic_GJ" presynapticPopulation="RMGR" postsynapticPopulation="URXR">
<electricalConnectionInstanceW id="0" preCell="../RMGR/0/RMGR" postCell="../URXR/0/URXR" synapse="neuron_to_neuron_elec_syn" weight="1.0"/>
</electricalProjection>
<electricalProjection id="NC_RMHR_RMGR_Generic_GJ" presynapticPopulation="RMHR" postsynapticPopulation="RMGR">
<electricalConnectionInstanceW id="0" preCell="../RMHR/0/RMHR" postCell="../RMGR/0/RMGR" synapse="neuron_to_neuron_elec_syn" weight="1.0"/>
</electricalProjection>
<electricalProjection id="NC_URXR_IL2R_Generic_GJ" presynapticPopulation="URXR" postsynapticPopulation="IL2R">
<electricalConnectionInstanceW id="0" preCell="../URXR/0/URXR" postCell="../IL2R/0/IL2R" synapse="neuron_to_neuron_elec_syn" weight="1.0"/>
</electricalProjection>
<electricalProjection id="NC_URXR_RMGR_Generic_GJ" presynapticPopulation="URXR" postsynapticPopulation="RMGR">
<electricalConnectionInstanceW id="0" preCell="../URXR/0/URXR" postCell="../RMGR/0/RMGR" synapse="neuron_to_neuron_elec_syn" weight="1.0"/>
</electricalProjection>
<inputList id="Input_RMGR_stim_RMGR_1" population="RMGR" component="stim_RMGR_1">
<input id="0" target="../RMGR/0/RMGR" destination="synapses"/>
</inputList>
<inputList id="Input_ASHR_stim_ASHR_1" population="ASHR" component="stim_ASHR_1">
<input id="0" target="../ASHR/0/ASHR" destination="synapses"/>
</inputList>
<inputList id="Input_ASKR_stim_ASKR_1" population="ASKR" component="stim_ASKR_1">
<input id="0" target="../ASKR/0/ASKR" destination="synapses"/>
</inputList>
<inputList id="Input_AWBR_stim_AWBR_1" population="AWBR" component="stim_AWBR_1">
<input id="0" target="../AWBR/0/AWBR" destination="synapses"/>
</inputList>
<inputList id="Input_IL2R_stim_IL2R_1" population="IL2R" component="stim_IL2R_1">
<input id="0" target="../IL2R/0/IL2R" destination="synapses"/>
</inputList>
<inputList id="Input_RMHR_stim_RMHR_1" population="RMHR" component="stim_RMHR_1">
<input id="0" target="../RMHR/0/RMHR" destination="synapses"/>
</inputList>
<inputList id="Input_URXR_stim_URXR_1" population="URXR" component="stim_URXR_1">
<input id="0" target="../URXR/0/URXR" destination="synapses"/>
</inputList>
</network>
</neuroml>