HL23PV_886.cell.nml 1.2 MB

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  3. <notes>Cell: HL23PV exported from NEURON ModelView. Reference: Yao, H. K.; Guet-McCreight, A.; Mazza, F.; Moradi Chameh, H.; Prevot, T. D.; Griffiths, J. D.; Tripathy, S. J.; Valiante, T. A.; Sibille, E. &amp; Hay, E. Reduced inhibition in depression impairs stimulus processing in human cortical microcircuits Cell Reports, Elsevier, 2022, 38</notes>
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  20342. neuroLexId = sao864921383 form a non-overlapping set of all of the segments.
  20343. These segmentGroups correspond to the 'cables' of NeuroML v1.8.1, and map to/from NEURON sections.</notes>
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  20493. neuroLexId = sao864921383 form a non-overlapping set of all of the segments.
  20494. These segmentGroups correspond to the 'cables' of NeuroML v1.8.1, and map to/from NEURON sections.</notes>
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  20521. neuroLexId = sao864921383 form a non-overlapping set of all of the segments.
  20522. These segmentGroups correspond to the 'cables' of NeuroML v1.8.1, and map to/from NEURON sections.</notes>
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  20602. neuroLexId = sao864921383 form a non-overlapping set of all of the segments.
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  20692. neuroLexId = sao864921383 form a non-overlapping set of all of the segments.
  20693. These segmentGroups correspond to the 'cables' of NeuroML v1.8.1, and map to/from NEURON sections.</notes>
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  22183. neuroLexId = sao864921383 form a non-overlapping set of all of the segments.
  22184. These segmentGroups correspond to the 'cables' of NeuroML v1.8.1, and map to/from NEURON sections.</notes>
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  22324. neuroLexId = sao864921383 form a non-overlapping set of all of the segments.
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  22424. These segmentGroups correspond to the 'cables' of NeuroML v1.8.1, and map to/from NEURON sections.</notes>
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  22678. <member segment="3352"/>
  22679. <member segment="3353"/>
  22680. <member segment="3354"/>
  22681. <member segment="3355"/>
  22682. <member segment="3356"/>
  22683. <member segment="3357"/>
  22684. <member segment="3358"/>
  22685. <member segment="3359"/>
  22686. <member segment="3360"/>
  22687. <member segment="3361"/>
  22688. <member segment="3362"/>
  22689. <member segment="3363"/>
  22690. <member segment="3364"/>
  22691. <member segment="3365"/>
  22692. <member segment="3366"/>
  22693. <member segment="3367"/>
  22694. <member segment="3368"/>
  22695. </segmentGroup>
  22696. <segmentGroup id="dend_37" neuroLexId="sao864921383">
  22697. <notes>This group contains an unbranched set of segments, and all of the segmentGroups marked with
  22698. neuroLexId = sao864921383 form a non-overlapping set of all of the segments.
  22699. These segmentGroups correspond to the 'cables' of NeuroML v1.8.1, and map to/from NEURON sections.</notes>
  22700. <property tag="numberInternalDivisions" value="9"/>
  22701. <annotation>
  22702. <property xmlns="http://www.neuroml.org/schema/neuroml2" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xmlns:xs="http://www.w3.org/2001/XMLSchema" tag="numberInternalDivisions" value="9"/>
  22703. </annotation>
  22704. <member segment="3178"/>
  22705. <member segment="3179"/>
  22706. <member segment="3180"/>
  22707. <member segment="3181"/>
  22708. <member segment="3182"/>
  22709. <member segment="3183"/>
  22710. <member segment="3184"/>
  22711. <member segment="3185"/>
  22712. <member segment="3186"/>
  22713. <member segment="3187"/>
  22714. <member segment="3188"/>
  22715. <member segment="3189"/>
  22716. <member segment="3190"/>
  22717. <member segment="3191"/>
  22718. <member segment="3192"/>
  22719. <member segment="3193"/>
  22720. <member segment="3194"/>
  22721. <member segment="3195"/>
  22722. <member segment="3196"/>
  22723. <member segment="3197"/>
  22724. <member segment="3198"/>
  22725. <member segment="3199"/>
  22726. <member segment="3200"/>
  22727. <member segment="3201"/>
  22728. <member segment="3202"/>
  22729. <member segment="3203"/>
  22730. <member segment="3204"/>
  22731. <member segment="3205"/>
  22732. <member segment="3206"/>
  22733. <member segment="3207"/>
  22734. <member segment="3208"/>
  22735. <member segment="3209"/>
  22736. <member segment="3210"/>
  22737. <member segment="3211"/>
  22738. <member segment="3212"/>
  22739. <member segment="3213"/>
  22740. <member segment="3214"/>
  22741. <member segment="3215"/>
  22742. <member segment="3216"/>
  22743. <member segment="3217"/>
  22744. <member segment="3218"/>
  22745. <member segment="3219"/>
  22746. <member segment="3220"/>
  22747. <member segment="3221"/>
  22748. <member segment="3222"/>
  22749. <member segment="3223"/>
  22750. <member segment="3224"/>
  22751. <member segment="3225"/>
  22752. <member segment="3226"/>
  22753. <member segment="3227"/>
  22754. <member segment="3228"/>
  22755. <member segment="3229"/>
  22756. <member segment="3230"/>
  22757. <member segment="3231"/>
  22758. <member segment="3232"/>
  22759. <member segment="3233"/>
  22760. <member segment="3234"/>
  22761. <member segment="3235"/>
  22762. <member segment="3236"/>
  22763. <member segment="3237"/>
  22764. <member segment="3238"/>
  22765. <member segment="3239"/>
  22766. <member segment="3240"/>
  22767. <member segment="3241"/>
  22768. <member segment="3242"/>
  22769. <member segment="3243"/>
  22770. <member segment="3244"/>
  22771. <member segment="3245"/>
  22772. <member segment="3246"/>
  22773. <member segment="3247"/>
  22774. <member segment="3248"/>
  22775. <member segment="3249"/>
  22776. <member segment="3250"/>
  22777. <member segment="3251"/>
  22778. <member segment="3252"/>
  22779. <member segment="3253"/>
  22780. <member segment="3254"/>
  22781. <member segment="3255"/>
  22782. <member segment="3256"/>
  22783. <member segment="3257"/>
  22784. <member segment="3258"/>
  22785. <member segment="3259"/>
  22786. <member segment="3260"/>
  22787. <member segment="3261"/>
  22788. <member segment="3262"/>
  22789. <member segment="3263"/>
  22790. <member segment="3264"/>
  22791. <member segment="3265"/>
  22792. <member segment="3266"/>
  22793. <member segment="3267"/>
  22794. <member segment="3268"/>
  22795. <member segment="3269"/>
  22796. <member segment="3270"/>
  22797. <member segment="3271"/>
  22798. <member segment="3272"/>
  22799. <member segment="3273"/>
  22800. <member segment="3274"/>
  22801. <member segment="3275"/>
  22802. <member segment="3276"/>
  22803. <member segment="3277"/>
  22804. <member segment="3278"/>
  22805. <member segment="3279"/>
  22806. <member segment="3280"/>
  22807. <member segment="3281"/>
  22808. <member segment="3282"/>
  22809. <member segment="3283"/>
  22810. <member segment="3284"/>
  22811. <member segment="3285"/>
  22812. <member segment="3286"/>
  22813. <member segment="3287"/>
  22814. <member segment="3288"/>
  22815. <member segment="3289"/>
  22816. <member segment="3290"/>
  22817. <member segment="3291"/>
  22818. <member segment="3292"/>
  22819. <member segment="3293"/>
  22820. <member segment="3294"/>
  22821. <member segment="3295"/>
  22822. <member segment="3296"/>
  22823. <member segment="3297"/>
  22824. <member segment="3298"/>
  22825. <member segment="3299"/>
  22826. <member segment="3300"/>
  22827. <member segment="3301"/>
  22828. <member segment="3302"/>
  22829. <member segment="3303"/>
  22830. <member segment="3304"/>
  22831. <member segment="3305"/>
  22832. <member segment="3306"/>
  22833. <member segment="3307"/>
  22834. <member segment="3308"/>
  22835. <member segment="3309"/>
  22836. <member segment="3310"/>
  22837. <member segment="3311"/>
  22838. <member segment="3312"/>
  22839. <member segment="3313"/>
  22840. <member segment="3314"/>
  22841. <member segment="3315"/>
  22842. <member segment="3316"/>
  22843. <member segment="3317"/>
  22844. <member segment="3318"/>
  22845. <member segment="3319"/>
  22846. <member segment="3320"/>
  22847. <member segment="3321"/>
  22848. <member segment="3322"/>
  22849. <member segment="3323"/>
  22850. <member segment="3324"/>
  22851. <member segment="3325"/>
  22852. <member segment="3326"/>
  22853. </segmentGroup>
  22854. <segmentGroup id="soma_group" neuroLexId="GO:0043025">
  22855. <notes>Default soma segment group for the cell</notes>
  22856. <include segmentGroup="soma_0"/>
  22857. </segmentGroup>
  22858. <segmentGroup id="axon_group" neuroLexId="GO:0030424">
  22859. <notes>Default axon segment group for the cell</notes>
  22860. <include segmentGroup="axon_0"/>
  22861. <include segmentGroup="axon_1"/>
  22862. </segmentGroup>
  22863. <segmentGroup id="dendrite_group" neuroLexId="GO:0030425">
  22864. <notes>Default dendrite segment group for the cell</notes>
  22865. <include segmentGroup="dend_0"/>
  22866. <include segmentGroup="dend_1"/>
  22867. <include segmentGroup="dend_2"/>
  22868. <include segmentGroup="dend_3"/>
  22869. <include segmentGroup="dend_4"/>
  22870. <include segmentGroup="dend_5"/>
  22871. <include segmentGroup="dend_6"/>
  22872. <include segmentGroup="dend_7"/>
  22873. <include segmentGroup="dend_8"/>
  22874. <include segmentGroup="dend_9"/>
  22875. <include segmentGroup="dend_10"/>
  22876. <include segmentGroup="dend_11"/>
  22877. <include segmentGroup="dend_12"/>
  22878. <include segmentGroup="dend_13"/>
  22879. <include segmentGroup="dend_14"/>
  22880. <include segmentGroup="dend_15"/>
  22881. <include segmentGroup="dend_16"/>
  22882. <include segmentGroup="dend_17"/>
  22883. <include segmentGroup="dend_18"/>
  22884. <include segmentGroup="dend_19"/>
  22885. <include segmentGroup="dend_20"/>
  22886. <include segmentGroup="dend_21"/>
  22887. <include segmentGroup="dend_22"/>
  22888. <include segmentGroup="dend_23"/>
  22889. <include segmentGroup="dend_24"/>
  22890. <include segmentGroup="dend_25"/>
  22891. <include segmentGroup="dend_26"/>
  22892. <include segmentGroup="dend_27"/>
  22893. <include segmentGroup="dend_28"/>
  22894. <include segmentGroup="dend_29"/>
  22895. <include segmentGroup="dend_30"/>
  22896. <include segmentGroup="dend_31"/>
  22897. <include segmentGroup="dend_32"/>
  22898. <include segmentGroup="dend_33"/>
  22899. <include segmentGroup="dend_34"/>
  22900. <include segmentGroup="dend_35"/>
  22901. <include segmentGroup="dend_36"/>
  22902. <include segmentGroup="dend_37"/>
  22903. <include segmentGroup="dend_38"/>
  22904. <include segmentGroup="dend_39"/>
  22905. <include segmentGroup="dend_40"/>
  22906. <include segmentGroup="dend_41"/>
  22907. <include segmentGroup="dend_42"/>
  22908. <include segmentGroup="dend_43"/>
  22909. <include segmentGroup="dend_44"/>
  22910. <include segmentGroup="dend_45"/>
  22911. <include segmentGroup="dend_46"/>
  22912. <include segmentGroup="dend_47"/>
  22913. <include segmentGroup="dend_48"/>
  22914. </segmentGroup>
  22915. <segmentGroup id="all">
  22916. <include segmentGroup="axon_0"/>
  22917. <include segmentGroup="axon_1"/>
  22918. <include segmentGroup="dend_0"/>
  22919. <include segmentGroup="dend_1"/>
  22920. <include segmentGroup="dend_2"/>
  22921. <include segmentGroup="dend_3"/>
  22922. <include segmentGroup="dend_4"/>
  22923. <include segmentGroup="dend_5"/>
  22924. <include segmentGroup="dend_6"/>
  22925. <include segmentGroup="dend_7"/>
  22926. <include segmentGroup="dend_8"/>
  22927. <include segmentGroup="dend_9"/>
  22928. <include segmentGroup="dend_10"/>
  22929. <include segmentGroup="dend_11"/>
  22930. <include segmentGroup="dend_12"/>
  22931. <include segmentGroup="dend_13"/>
  22932. <include segmentGroup="dend_14"/>
  22933. <include segmentGroup="dend_15"/>
  22934. <include segmentGroup="dend_16"/>
  22935. <include segmentGroup="dend_17"/>
  22936. <include segmentGroup="dend_18"/>
  22937. <include segmentGroup="dend_19"/>
  22938. <include segmentGroup="dend_20"/>
  22939. <include segmentGroup="dend_21"/>
  22940. <include segmentGroup="dend_22"/>
  22941. <include segmentGroup="dend_23"/>
  22942. <include segmentGroup="dend_24"/>
  22943. <include segmentGroup="dend_25"/>
  22944. <include segmentGroup="dend_26"/>
  22945. <include segmentGroup="dend_27"/>
  22946. <include segmentGroup="dend_28"/>
  22947. <include segmentGroup="dend_29"/>
  22948. <include segmentGroup="dend_30"/>
  22949. <include segmentGroup="dend_31"/>
  22950. <include segmentGroup="dend_32"/>
  22951. <include segmentGroup="dend_33"/>
  22952. <include segmentGroup="dend_34"/>
  22953. <include segmentGroup="dend_35"/>
  22954. <include segmentGroup="dend_36"/>
  22955. <include segmentGroup="dend_37"/>
  22956. <include segmentGroup="dend_38"/>
  22957. <include segmentGroup="dend_39"/>
  22958. <include segmentGroup="dend_40"/>
  22959. <include segmentGroup="dend_41"/>
  22960. <include segmentGroup="dend_42"/>
  22961. <include segmentGroup="dend_43"/>
  22962. <include segmentGroup="dend_44"/>
  22963. <include segmentGroup="dend_45"/>
  22964. <include segmentGroup="dend_46"/>
  22965. <include segmentGroup="dend_47"/>
  22966. <include segmentGroup="dend_48"/>
  22967. <include segmentGroup="soma_0"/>
  22968. </segmentGroup>
  22969. </morphology>
  22970. <biophysicalProperties id="biophys">
  22971. <membraneProperties>
  22972. <channelDensity id="pas" ionChannel="pas" condDensity="0.00011830111773572024 S_per_cm2" erev="-83.92924122901199 mV" ion="non_specific"/>
  22973. <channelDensity id="Ih" ionChannel="Ih" condDensity="2.7671764064314368e-05 S_per_cm2" erev="-45 mV" ion="hcn"/>
  22974. <channelDensity id="NaTg_somatic" ionChannel="NaTg_PV" condDensity="0.49958525078702043 S_per_cm2" erev="50 mV" segmentGroup="soma_group" ion="na"/>
  22975. <channelDensity id="Nap_somatic" ionChannel="Nap" condDensity="0.008795461417521086 S_per_cm2" erev="50 mV" segmentGroup="soma_group" ion="na"/>
  22976. <channelDensity id="K_P_somatic" ionChannel="K_P" condDensity="9.606092478937705e-06 S_per_cm2" erev="-85 mV" segmentGroup="soma_group" ion="k"/>
  22977. <channelDensity id="K_T_somatic" ionChannel="K_T" condDensity="0.0011701702607527396 S_per_cm2" erev="-85 mV" segmentGroup="soma_group" ion="k"/>
  22978. <channelDensity id="Kv3_1_somatic" ionChannel="Kv3_1" condDensity="2.9921080101237565 S_per_cm2" erev="-85 mV" segmentGroup="soma_group" ion="k"/>
  22979. <channelDensity id="Im_somatic" ionChannel="Im" condDensity="0.04215865946497755 S_per_cm2" erev="-85 mV" segmentGroup="soma_group" ion="k"/>
  22980. <channelDensity id="SK_somatic" ionChannel="SK" condDensity="3.7265770903193036e-06 S_per_cm2" erev="-85 mV" segmentGroup="soma_group" ion="k"/>
  22981. <channelDensity id="NaTg_axonal" ionChannel="NaTg_PV" condDensity="0.10914576408883477 S_per_cm2" erev="50 mV" segmentGroup="axon_group" ion="na"/>
  22982. <channelDensity id="Nap_axonal" ionChannel="Nap" condDensity="0.001200899579358837 S_per_cm2" erev="50 mV" segmentGroup="axon_group" ion="na"/>
  22983. <channelDensity id="K_P_axonal" ionChannel="K_P" condDensity="0.6854776593761795 S_per_cm2" erev="-85 mV" segmentGroup="axon_group" ion="k"/>
  22984. <channelDensity id="K_T_axonal" ionChannel="K_T" condDensity="0.07603372775662909 S_per_cm2" erev="-85 mV" segmentGroup="axon_group" ion="k"/>
  22985. <channelDensity id="Kv3_1_axonal" ionChannel="Kv3_1" condDensity="2.988867483754507 S_per_cm2" erev="-85 mV" segmentGroup="axon_group" ion="k"/>
  22986. <channelDensity id="Im_axonal" ionChannel="Im" condDensity="0.029587905136596156 S_per_cm2" erev="-85 mV" segmentGroup="axon_group" ion="k"/>
  22987. <channelDensity id="SK_axonal" ionChannel="SK" condDensity="0.5121938998281017 S_per_cm2" erev="-85 mV" segmentGroup="axon_group" ion="k"/>
  22988. <channelDensityNernst id="Ca_HVA_somatic" ionChannel="Ca_HVA" condDensity="0.00017953651378188165 S_per_cm2" segmentGroup="soma_group" ion="ca"/>
  22989. <channelDensityNernst id="Ca_LVA_somatic" ionChannel="Ca_LVA" condDensity="0.09250008555398015 S_per_cm2" segmentGroup="soma_group" ion="ca"/>
  22990. <channelDensityNernst id="Ca_HVA_axonal" ionChannel="Ca_HVA" condDensity="0.002961469262723619 S_per_cm2" segmentGroup="axon_group" ion="ca"/>
  22991. <channelDensityNernst id="Ca_LVA_axonal" ionChannel="Ca_LVA" condDensity="5.9457835817342756e-05 S_per_cm2" segmentGroup="axon_group" ion="ca"/>
  22992. <specificCapacitance value="2 uF_per_cm2"/>
  22993. <initMembPotential value="-80mV"/>
  22994. </membraneProperties>
  22995. <intracellularProperties>
  22996. <species id="ca" concentrationModel="CaDynamics_E2_NML2_PV_somatic" ion="ca" initialConcentration="1e-4 mM" initialExtConcentration="2.0E-6 mol_per_cm3" segmentGroup="soma_group"/>
  22997. <species id="ca" concentrationModel="CaDynamics_E2_NML2_PV_axonal" ion="ca" initialConcentration="1e-4 mM" initialExtConcentration="2.0E-6 mol_per_cm3" segmentGroup="axon_group"/>
  22998. <resistivity value="0.1 kohm_cm"/>
  22999. </intracellularProperties>
  23000. </biophysicalProperties>
  23001. </cell>
  23002. </neuroml>