To induce neuronal assemblies, a subset of Np excitatory neurons in the network are perturbed (the perturbed ensemble). The perturbation pattern consists of ns alternating pulses (ON/OFF); each pulse stays ON (sON=s0+δs) for TON and turns off (sOFF=s0) for TOFF. s0 describes the input to the neurons before perturbations, and δs denotes the strength of perturbation (e.g. corresponding to laser intensity in optogenetic stimulations (16)). The total duration of perturbation is therefore TON+TOFF, with the duty cycle of TON/(TON+TOFF) Assuming Tp=TON=TOFF, the stimulation frequency is fp=1/Tp.
Following perturbations, synaptic plasticity is assumed to change the initial weight matrix as a result of network activity. The change in the weight wij is given as a function of the activity of pre- and post-synaptic neurons:
where rj and ri describe the firing rate of pre- and postsynaptic neurons, respectively, η is the learning rate, and <. > denotes the temporal average which is evaluated during perturbations. r0 denotes the average firing rate of individual neurons in their baseline state, obtained from network simulations before perturbations. We refer to this rule as covariance-based Hebbian learning, where covariance of the activity of pre- and postsynaptic neurons drives the plasticity. Two other versions of the rule are also tested, where response changes in only pre- or postsynaptic sources are considered, while the other term (post or pre, respectively) is still contributing to plasticity in absolute terms:
pre:
post:
At each weight update, the weights of synapses are updated according to:
After each update, we calculate the largest eigenvalue of the updated weight matrix (spectral radius; λ0). Weight update continues until the spectral radius is smaller than a threshold (λ0 < λth=0.8); after that, the update stops and the last value of the weight matrix before passing the threshold is taken. The learning rate (η) is chosen such that the growth is not too fast or too slow. Learning rates are specified for different synapse types in Table 1 for different stimulations and figures; when the learning rate is zero or not specified for a synapse type, it means that the respective connections are static.
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How to cite:
Readers should cite both the Bio-protocol preprint and the original research article where this protocol was used:
Sadeh, S and Clopath, C(2022). Network plasticity. Bio-protocol Preprint. bio-protocol.org/prep1491.
Sadeh, S. and Clopath, C.(2021). Excitatory-inhibitory balance modulates the formation and dynamics of neuronal assemblies in cortical networks. Science Advances 7(45). DOI: 10.1126/sciadv.abg8411
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