Large-scale extraction of brain connectivity from the neuroscientific literature.

Motivation: In neuroscience, as in many other scientific domains, the primary form of knowledge dissemination is through published articles. One challenge for modern neuroinformatics is finding methods to make the knowledge from the tremendous backlog of publications accessible for search, analysis and the integration of such data into computational models. A key example of this is metascale brain connectivity, where results are not reported in a normalized repository.

Improved similarity measures for small sets of spike trains.

Multiple measures have been developed to quantify the similarity between two spike trains. These measures have been used for the quantification of the mismatch between neuron models and experiments as well as for the classification of neuronal responses in neuroprosthetic devices and electrophysiological experiments. Frequently only a few spike trains are available in each class.

Connectivity reflects coding: a model of voltage-based STDP with homeostasis.

Electrophysiological connectivity patterns in cortex often have a few strong connections, which are sometimes bidirectional, among a lot of weak connections. To explain these connectivity patterns, we created a model of spike timing-dependent plasticity (STDP) in which synaptic changes depend on presynaptic spike arrival and the postsynaptic membrane potential, filtered with two different time constants. Our model describes several nonlinear effects that are observed in STDP experiments, as well as the voltage dependence of plasticity.

Tag-trigger-consolidation: a model of early and late long-term-potentiation and depression.

Changes in synaptic efficacies need to be long-lasting in order to serve as a substrate for memory. Experimentally, synaptic plasticity exhibits phases covering the induction of long-term potentiation and depression (LTP/LTD) during the early phase of synaptic plasticity, the setting of synaptic tags, a trigger process for protein synthesis, and a slow transition leading to synaptic consolidation during the late phase of synaptic plasticity. We present a mathematical model that describes these different phases of synaptic plasticity.

Firing patterns in the adaptive exponential integrate-and-fire model.

For simulations of large spiking neuron networks, an accurate, simple and versatile single-neuron modeling framework is required. Here we explore the versatility of a simple two-equation model: the adaptive exponential integrate-and-fire neuron. We show that this model generates multiple firing patterns depending on the choice of parameter values, and present a phase diagram describing the transition from one firing type to another.

Signal buffering in random networks of spiking neurons: microscopic versus macroscopic phenomena.

In randomly connected networks of pulse-coupled elements a time-dependent input signal can be buffered over a short time. We studied the signal buffering properties in simulated networks as a function of the networks' state, characterized by both the Lyapunov exponent of the microscopic dynamics and the macroscopic activity derived from mean-field theory. If all network elements receive the same signal, signal buffering over delays comparable to the intrinsic time constant of the network elements can be explained by macroscopic properties and works best at the phase transition to chaos.

Noise-enhanced computation in a model of a cortical column.

Varied sensory systems use noise in order to enhance detection of weak signals. It has been conjectured in the literature that this effect, known as stochastic resonance, may take place in central cognitive processes such as memory retrieval of arithmetical multiplication. We show, in a simplified model of cortical tissue, that complex arithmetical calculations can be carried out and are enhanced in the presence of a stochastic background.