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235 lines
11 KiB
235 lines
11 KiB
2 years ago
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# -*- encoding: utf-8 -*-
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from ._db import add_table_data
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#: Mouse synaptic convregence table
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mouse_convergence = u"""
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Convergence defines the average number of presynaptic cells of a particular
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type (rows) that synapse onto a single postsynaptic cell of a particular
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type (columns).
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This connectivity matrix is currently incomplete.
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Note: Bushy and pyramidal cells are known to have no (or very few)
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collaterals within the CN, and so they are not listed as presynaptic cells in
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this table. Octopus cells have collaterals (including in granule cell domains),
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and should be added to this table when more data are available (Golding et al.,
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J. Neurosci. 15: 3138, 1995)
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----------------------------------------------------------------------------------------------
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bushy tstellate dstellate octopus pyramidal tuberculoventral
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sgc 3.3±0.6 [2] 6.5±1.0 [2] 35±0 [3] 60±0 [2] 48±0 [5] 24±0 [5]
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dstellate 7 [1] 20 [1] 3 [1] 0 [4] 15 [5] 15 [5]
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tstellate 0 [6] 0 [6] 0 [6] 0 [6] 0 [6] 0 [6]
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tuberculoventral 6 6 0 0 [4] 21 [5] 0 [7]
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pyramidal 0 0 0 0 0 0
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----------------------------------------------------------------------------------------------
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[1] Guesses based on Campagnola & Manis 2014
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[2] Cao, X. & Oertel, D. (2010). Auditory nerve fibers excite targets through
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synapses that vary in convergence, strength, and short-term plasticity.
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Journal of Neurophysiology, 104(5), 2308–20.
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Xie and Manis (unpublished): max EPSC = 3.4 ± 1.5 nA with ~0.3 nA steps
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(Cao and Oertel, 2010) = ~11 AN inputs. However neither we nor Cao and Oertel
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see that many clear steps in the responses, so use lower bound.
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[3] Lower bound based on estimates from unpublished data Xie and Manis (2017)
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Assumptions: No discernable step sizes when increasing shock intensity
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at ANFs in radiate multipolars (dstellate)
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Measured: 0.034 ± 15 nA sEPSC @ -70 mV
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Measured: Maximal current from AN stim = 1.2 ± 0.7 nA @ -70 mV
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Assuming that each AN provides 1 input, then N = ~35
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[4] Octopus cells are devoid of inhibitory input (Golding et al., J. Neurosci., 1995)
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[5] Convergence from Hancock and Voigt, Ann. Biomed. Eng. 27, 1999 and Zheng and Voigt,
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Ann. Biomed. Eng., 34, 2006. Numbers are based on models for cat and gerbil,
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respectively. Adjusted to 1/2 to avoid overexciting TV cells in network model.
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[6] tstellate cells have collaterals within the CN. It has been proposed that they
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provide auditory-driven input to the DCN (Oertel and Young, ), and also synapse
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within the VCN (Oertel, SFN abstract). These parameters may need to be adjusted
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once the convergence and strength is known.
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[7] In the models of Hancock and Voigt (1999) and Zheng and Voigt (2006), the TV cells
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have no connections with each other. However, Kuo et al. (J. Neurophysiol., 2015)
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did see connections between pairs of TV cells in the mouse.
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"""
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add_table_data(
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"convergence",
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row_key="pre_type",
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col_key="post_type",
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species="mouse",
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data=mouse_convergence,
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)
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mouse_convergence_range = u"""
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The convergence range table describes, for each type of connection from
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presynaptic (rows) to postsynaptic (columns), the variance in frequency of
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presynaptic cells relative to the postsynaptic cell.
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All values are expressed as the sigma for a lognormal distribution scaled to
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the CF of the postsynaptic cell.
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----------------------------------------------------------------------------------------------
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bushy tstellate dstellate octopus pyramidal tuberculoventral
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sgc 0.05 [1] 0.1 [1] 0.4 [1] 0.5 [5] 0.1 [1] 0.1 [1]
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dstellate 0.208 [2] 0.347 [2] 0.5 [1] 0 0.2 [1] 0.2 [1]
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tstellate 0.1 [4] 0.1 [4] 0 0 0 0
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tuberculoventral 0.069 [3] 0.111 [3] 0 0 0.15 [1] 0
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pyramidal 0 0 0 0 0 0
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----------------------------------------------------------------------------------------------
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[1] Guess based on axonal / dendritic morphology.
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[2] Calculated from Campagnola & Manis 2014 fig. 7C
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Distribution widths are given in stdev(octaves), so we multiply by ln(2) to
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get the sigma for a lognormal distribution.
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DS->Bushy: ln(2) * 0.3 = 0.208
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DS->TStellate: ln(2) * 0.5 = 0.347
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[3] Calculated from Campagnola & Manis 2014 fig. 9C
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Distribution widths are given in stdev(octaves), so we multiply by ln(2) to
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get the sigma for a lognormal distribution.
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TV->Bushy: ln(2) * 0.10 = 0.069
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TV->TStellate: ln(2) * 0.16 = 0.111
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[4] Guess based on very limited information in Campagnola & Manis 2014 fig. 12
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[5] Octopus cells get a wide range of ANF input (but weak on a per input basis)
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For example, see McGinley et al., 2012 or Spencer et al., 2012.
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"""
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add_table_data(
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"convergence_range",
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row_key="pre_type",
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col_key="post_type",
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species="mouse",
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data=mouse_convergence_range,
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)
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# --------------------------------------------------------------------------------------------
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guineapig_convergence = u"""
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Convergence defines the average number of presynaptic cells of a particular
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type (rows) that synapse onto a single postsynaptic cell of a particular
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|
|
type (columns).
|
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|
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This connectivity matrix is currently incomplete.
|
||
|
|
Note: Bushy and pyramidal cells are known to have no (or very few)
|
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|
|
collaterals within the CN, and so they are not listed as presynaptic cells in
|
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|
|
this table. Octopus cells have collaterals (including in granule cell domains),
|
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|
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and should be added to this table when more data are available (Golding et al.,
|
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J. Neurosci. 15: 3138, 1995)
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|
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This table is just a guess... using mouse data...
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----------------------------------------------------------------------------------------------
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bushy tstellate dstellate octopus pyramidal tuberculoventral mso
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sgc 3.3±0.6 [2] 6.5±1.0 [2] 35±0 [3] 60±0 [2] 48±0 [5] 24±0 [5] 0
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bushy 0 0 0 0 0 0 12 [8]
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dstellate 7 [1] 20 [1] 3 [1] 0 [4] 15 [5] 15 [5] 0
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tstellate 0 [6] 0 [6] 0 [6] 0 [6] 0 [6] 0 [6] 0
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tuberculoventral 6 6 0 0 [4] 21 [5] 0 [7] 0
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pyramidal 0 0 0 0 0 0 0
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----------------------------------------------------------------------------------------------
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[1] Guesses based on Campagnola & Manis 2014 (using mouse data on guinea pig cells)
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[2] Cao, X. & Oertel, D. (2010). Auditory nerve fibers excite targets through
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synapses that vary in convergence, strength, and short-term plasticity.
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|
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Journal of Neurophysiology, 104(5), 2308–20.
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|
|
Xie and Manis (unpublished): max EPSC = 3.4 ± 1.5 nA with ~0.3 nA steps
|
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|
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(Cao and Oertel, 2010) = ~11 AN inputs. However neither we nor Cao and Oertel
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|
|
see that many clear steps in the responses, so use lower bound.
|
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|
|
|
||
|
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[3] Lower bound based on estimates from unpublished data Xie and Manis (2017)
|
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|
|
Assumptions: No discernable step sizes when increasing shock intensity
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|
|
at ANFs in radiate multipolars (dstellate)
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Measured: 0.034 ± 15 nA sEPSC @ -70 mV
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|
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Measured: Maximal current from AN stim = 1.2 ± 0.7 nA @ -70 mV
|
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|
|
Assuming that each AN provides 1 input, then N = ~35
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|
|
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[4] Octopus cells are devoid of inhibitory input (Golding et al., J. Neurosci., 1995)
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[5] Convergence from Hancock and Voigt, Ann. Biomed. Eng. 27, 1999 and Zheng and Voigt,
|
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Ann. Biomed. Eng., 34, 2006. Numbers are based on models for cat and gerbil,
|
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respectively. Adjusted to 1/2 to avoid overexciting TV cells in network model.
|
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|
|
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[6] tstellate cells have collaterals within the CN. It has been proposed that they
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provide auditory-driven input to the DCN (Oertel and Young, ), and also synapse
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within the VCN (Oertel, SFN abstract). These parameters may need to be adjusted
|
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once the convergence and strength is known.
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[7] In the models of Hancock and Voigt (1999) and Zheng and Voigt (2006), the TV cells
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have no connections with each other. However, Kuo et al. (J. Neurophysiol., 2015)
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did see connections between pairs of TV cells in the mouse.
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[8] Bushy convergence to MSO is a guess
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"""
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add_table_data(
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"convergence",
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row_key="pre_type",
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col_key="post_type",
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species="guineapig",
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data=guineapig_convergence,
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)
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guineapig_convergence_range = u"""
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The convergence range table describes, for each type of connection from
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|
presynaptic (rows) to postsynaptic (columns), the variance in frequency of
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presynaptic cells relative to the postsynaptic cell.
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|
|
|
||
|
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All values are expressed as the sigma for a lognormal distribution scaled to
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the CF of the postsynaptic cell.
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*** This table is just a guess - using data from mouse... ****
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-------------------------------------------------------------------------------------------------------
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bushy tstellate dstellate octopus pyramidal tuberculoventral mso
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sgc 0.05 [1] 0.1 [1] 0.4 [1] 0.5 [5] 0.1 [1] 0.1 [1] 0
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bushy 0 0 0 0 0 0 0.05 [6]
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dstellate 0.208 [2] 0.347 [2] 0.5 [1] 0 0.2 [1] 0.2 [1] 0
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tstellate 0.1 [4] 0.1 [4] 0 0 0 0 0
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tuberculoventral 0.069 [3] 0.111 [3] 0 0 0.15 [1] 0 0
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pyramidal 0 0 0 0 0 0 0
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--------------------------------------------------------------------------------------------------------
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[1] Guess based on axonal / dendritic morphology.
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[2] Calculated from Campagnola & Manis 2014 fig. 7C (Using mouse data on guinea pig cells)
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Distribution widths are given in stdev(octaves), so we multiply by ln(2) to
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|
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get the sigma for a lognormal distribution.
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DS->Bushy: ln(2) * 0.3 = 0.208
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DS->TStellate: ln(2) * 0.5 = 0.347
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[3] Calculated from Campagnola & Manis 2014 fig. 9C (Using mouse data on guinea pig cells)
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Distribution widths are given in stdev(octaves), so we multiply by ln(2) to
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get the sigma for a lognormal distribution.
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TV->Bushy: ln(2) * 0.10 = 0.069
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TV->TStellate: ln(2) * 0.16 = 0.111
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[4] Guess based on very limited information in Campagnola & Manis 2014 fig. 12
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[5] Octopus cells get a wide range of ANF input (but weak on a per input basis)
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For example, see McGinley et al., 2012 or Spencer et al., 2012.
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[6] MSO convergence from bushy cells is a guess.
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"""
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add_table_data(
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"convergence_range",
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row_key="pre_type",
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col_key="post_type",
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species="guineapig",
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data=guineapig_convergence_range,
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)
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