Papers › Plastic Arbor: a modern simulation framework for synaptic plasticity x2013 from single...
Plastic Arbor: a modern simulation framework for synaptic plasticity x2013 from single synapses to networks of morphological neurons
Jannik Luboeinski, Sebastian Schmitt, Shirin Shafiee, Thorsten Hater, Fabian Bösch, Christian Tetzlaff
Arbor is a software library designed for efficient simulation of large-scale networks of biological neurons with detailed morphological structures. It combines customizable neuronal and synaptic mechanisms with high-performance computing, supporting multi-core CPU and GPU systems. In humans and other animals, synaptic plasticity processes play a vital role in cognitive functions, including learning and memory. Recent studies have shown that intracellular molecular processes in dendrites significantly influence single-neuron dynamics. However, for understanding how the complex interplay between dendrites and synaptic processes influences network dynamics, computational modeling is required. To enable the modeling of large-scale networks of morphologically detailed neurons with diverse plasticity processes, we have extended the Arbor library to the Plastic Arbor framework, supporting simulations of a large variety of spike-driven plasticity paradigms. To showcase the features of the new framework, we present examples of computational models, beginning with single-synapse dynamics, progressing to multi-synapse rules, and finally scaling up to large recurrent networks. While cross-validating our implementations by comparison with other simulators, we show that Arbor allows simulating plastic networks of multi-compartment neurons at nearly no additional cost in runtime compared to point-neuron simulations. Using the new framework, we have already been able to investigate the impact of dendritic structures on network dynamics across a timescale of several hours, showing a relation between the length of dendritic trees and the ability of the network to efficiently store information. By our extension of Arbor, we aim to provide a valuable tool that will support future studies on the impact of synaptic plasticity, especially, in conjunction with neuronal morphology, in large networks.
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