Mean-field analysis of synaptic alterations underlying deficient cortical gamma oscillations in schizophrenia.

Deficient gamma oscillations in the prefrontal cortex (PFC) of individuals with schizophrenia (SZ) are proposed to arise from alterations in the excitatory drive to fast-spiking interneurons (E I) and in the inhibitory drive from these interneurons to excitatory neurons (I E). Consistent with this idea, prior postmortem studies showed lower levels of molecular and structural markers for the strength of E I and I E synapses and also greater variability in E I synaptic strength in PFC of SZ. Moreover, simulating these alterations in a network of quadratic integrate-and-fire (QIF) neurons revealed a synergistic effect of their interactions on reducing gamma power.

Analyzing top-down visual attention in the context of gamma oscillations: a layer- dependent network-of- networks approach.

Top-down visual attention is a fundamental cognitive process that allows individuals to selectively attend to salient visual stimuli in the environment. Recent empirical findings have revealed that gamma oscillations participate in the modulation of visual attention. However, computational studies face challenges when analyzing the attentional process in the context of gamma oscillation due to the unstable nature of gamma oscillations and the complexity induced by the layered fashion in the visual cortex.

A Theoretical Comparison of Alternative Male Mating Strategies in Cephalopods and Fishes.

We used computer simulations of growth, mating and death of cephalopods and fishes to explore the effect of different life-history strategies on the relative prevalence of alternative male mating strategies. Specifically, we investigated the consequences of single or multiple matings per lifetime, mating strategy switching, cannibalism, resource stochasticity, and altruism towards relatives. We found that a combination of single (semelparous) matings, cannibalism and an absence of mating strategy changes in one lifetime led to a more strictly partitioned parameter space, with a reduced region where the two mating strategies co-exist in similar numbers.

Inhibitory control of locomotor statistics in walking .

In order to forage for food, many animals regulate not only specific limb movements but the statistics of locomotor behavior over time, switching between long-range dispersal and localized search depending on resource availability. How pre-motor circuits regulate such locomotor statistics is not clear. Here we analyze and model locomotor statistics in walking , and their modulation by attractive food odor.

Mean-field analysis of synaptic alterations underlying deficient cortical gamma oscillations in schizophrenia.

Deficient gamma oscillations in the prefrontal cortex (PFC) of individuals with schizophrenia (SZ) are proposed to arise from alterations in the excitatory drive to fast-spiking interneurons and in the inhibitory drive from these interneurons to excitatory neurons . Consistent with this idea, prior postmortem studies showed lower levels of molecular and structural markers for the strength of and synapses and also greater variability in synaptic strength in PFC of SZ. Moreover, simulating these alterations in a network of quadratic integrate-and-fire (QIF) neurons revealed a synergistic effect of their interactions on reducing gamma power.

Altered Rbfox1-Vamp1 pathway and prefrontal cortical dysfunction in schizophrenia.

Deficient gamma oscillations in prefrontal cortex (PFC) of individuals with schizophrenia appear to involve impaired inhibitory drive from parvalbumin-expressing interneurons (PVIs). Inhibitory drive from PVIs is regulated, in part, by RNA binding fox-1 homolog 1 (Rbfox1). Rbfox1 is spliced into nuclear or cytoplasmic isoforms, which regulate alternative splicing or stability of their target transcripts, respectively.

An oscillatory mechanism for multi-level storage in short-term memory.

Oscillatory activity is commonly observed during the maintenance of information in short-term memory, but its role remains unclear. Non-oscillatory models of short-term memory storage are able to encode stimulus identity through their spatial patterns of activity, but are typically limited to either an all-or-none representation of stimulus amplitude or exhibit a biologically implausible exact-tuning condition. Here we demonstrate a simple mechanism by which oscillatory input enables a circuit to generate persistent or sequential activity that encodes information not only in the spatial pattern of activity, but also in the amplitude of activity.

Altered Rbfox1-Vamp1 pathway and prefrontal cortical dysfunction in schizophrenia.

Deficient gamma oscillations in prefrontal cortex (PFC) of individuals with schizophrenia appear to involve impaired inhibitory drive from parvalbumin-expressing interneurons (PVIs). Inhibitory drive from PVIs is regulated, in part, by RNA binding fox-1 homolog 1 (Rbfox1). Rbfox1 is spliced into nuclear or cytoplasmic isoforms, which regulate alternative splicing or stability of their target transcripts, respectively.

Cross-scale excitability in networks of quadratic integrate-and-fire neurons.

From the action potentials of neurons and cardiac cells to the amplification of calcium signals in oocytes, excitability is a hallmark of many biological signalling processes. In recent years, excitability in single cells has been related to multiple-timescale dynamics through canards, special solutions which determine the effective thresholds of the all-or-none responses. However, the emergence of excitability in large populations remains an open problem.

BioSimulators: a central registry of simulation engines and services for recommending specific tools.

Computational models have great potential to accelerate bioscience, bioengineering, and medicine. However, it remains challenging to reproduce and reuse simulations, in part, because the numerous formats and methods for simulating various subsystems and scales remain siloed by different software tools. For example, each tool must be executed through a distinct interface.

A multiscale multicellular spatiotemporal model of local influenza infection and immune response.

Respiratory viral infections pose a serious public health concern, from mild seasonal influenza to pandemics like those of SARS-CoV-2. Spatiotemporal dynamics of viral infection impact nearly all aspects of the progression of a viral infection, like the dependence of viral replication rates on the type of cell and pathogen, the strength of the immune response and localization of infection. Mathematical modeling is often used to describe respiratory viral infections and the immune response to them using ordinary differential equation (ODE) models.

Compartmental Model Suggests Importance of Innate Immune Response to COVID-19 Infection in Rhesus Macaques.

The pandemic outbreak of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has quickly spread worldwide, creating a serious health crisis. The virus is primarily associated with flu-like symptoms but can also lead to severe pathologies and death. We here present an ordinary differential equation model of the intrahost immune response to SARS-CoV-2 infection, fitted to experimental data gleaned from rhesus macaques.

A computational model of the shrimp-goby escape and communication system.

Fish escape from approaching threats via a stereotyped escape behavior. This behavior, and the underlying neural circuit organized around the Mauthner cell command neurons, have both been extensively investigated experimentally, mainly in two laboratory model organisms, the goldfish and the zebrafish. However, fish biodiversity is enormous, a number of variants of the basal escape behavior exist.

Kcns3 deficiency disrupts Parvalbumin neuron physiology in mouse prefrontal cortex: Implications for the pathophysiology of schizophrenia.

The unique fast spiking (FS) phenotype of cortical parvalbumin-positive (PV) neurons depends on the expression of multiple subtypes of voltage-gated potassium channels (Kv). PV neurons selectively express Kcns3, the gene encoding Kv9.3 subunits, suggesting that Kcns3 expression is critical for the FS phenotype.

Olfactory navigation in the real world: Simple local search strategies for turbulent environments.

Olfaction informs animal navigation for foraging, social interaction, and threat evasion. However, turbulent flow on the spatial scales of most animal navigation leads to intermittent odor information and presents a challenge to simple gradient-ascent navigation. Here we present two strategies for iterative gradient estimation and navigation via olfactory cues in 2D space: tropotaxis, spatial concentration comparison (i.

Direction-selective motion discrimination by traveling waves in visual cortex.

The majority of neurons in primary visual cortex respond selectively to bars of light that have a specific orientation and move in a specific direction. The spatial and temporal responses of such neurons are non-separable. How neurons accomplish that computational feat without resort to explicit time delays is unknown.

Olfactory Navigation and the Receptor Nonlinearity.

The demands on a sensory system depend not only on the statistics of its inputs but also on the task. In olfactory navigation, for example, the task is to find the plume source; allocation of sensory resources may therefore be driven by aspects of the plume that are informative about source location, rather than concentration per se. Here we explore the implications of this idea for encoding odor concentration.

Emergent mechanics of actomyosin drive punctuated contractions and shape network morphology in the cell cortex.

Filamentous actin (F-actin) and non-muscle myosin II motors drive cell motility and cell shape changes that guide large scale tissue movements during embryonic morphogenesis. To gain a better understanding of the role of actomyosin in vivo, we have developed a two-dimensional (2D) computational model to study emergent phenomena of dynamic unbranched actomyosin arrays in the cell cortex. These phenomena include actomyosin punctuated contractions, or "actin asters" that form within quiescent F-actin networks.

A multiple timescales approach to bridging spiking- and population-level dynamics.

A rigorous bridge between spiking-level and macroscopic quantities is an on-going and well-developed story for asynchronously firing neurons, but focus has shifted to include neural populations exhibiting varying synchronous dynamics. Recent literature has used the Ott-Antonsen ansatz (2008) to great effect, allowing a rigorous derivation of an order parameter for large oscillator populations. The ansatz has been successfully applied using several models including networks of Kuramoto oscillators, theta models, and integrate-and-fire neurons, along with many types of network topologies.

Information-theoretic analysis of realistic odor plumes: What cues are useful for determining location?

Many species rely on olfaction to navigate towards food sources or mates. Olfactory navigation is a challenging task since odor environments are typically turbulent. While time-averaged odor concentration varies smoothly with the distance to the source, instaneous concentrations are intermittent and obtaining stable averages takes longer than the typical intervals between animals' navigation decisions.

Relationship between the mechanisms of gamma rhythm generation and the magnitude of the macroscopic phase response function in a population of excitatory and inhibitory modified quadratic integrate-and-fire neurons.

Gamma oscillations are thought to play an important role in brain function. Interneuron gamma (ING) and pyramidal interneuron gamma (PING) mechanisms have been proposed as generation mechanisms for these oscillations. However, the relation between the generation mechanisms and the dynamical properties of the gamma oscillation are still unclear.

Macroscopic phase-resetting curves for spiking neural networks.

The study of brain rhythms is an open-ended, and challenging, subject of interest in neuroscience. One of the best tools for the understanding of oscillations at the single neuron level is the phase-resetting curve (PRC). Synchronization in networks of neurons, effects of noise on the rhythms, effects of transient stimuli on the ongoing rhythmic activity, and many other features can be understood by the PRC.

Discrete Dynamical Modeling of Influenza Virus Infection Suggests Age-Dependent Differences in Immunity.

Immunosenescence, an age-related decline in immune function, is a major contributor to morbidity and mortality in the elderly. Older hosts exhibit a delayed onset of immunity and prolonged inflammation after an infection, leading to excess damage and a greater likelihood of death. Our study applies a rule-based model to infer which components of the immune response are most changed in an aged host.

Emergent Dynamical Properties of the BCM Learning Rule.

The Bienenstock-Cooper-Munro (BCM) learning rule provides a simple setup for synaptic modification that combines a Hebbian product rule with a homeostatic mechanism that keeps the weights bounded. The homeostatic part of the learning rule depends on the time average of the post-synaptic activity and provides a sliding threshold that distinguishes between increasing or decreasing weights. There are, thus, two essential time scales in the BCM rule: a homeostatic time scale, and a synaptic modification time scale.

Neurons as oscillators.

Regularly spiking neurons can be described as oscillators. In this article we review some of the insights gained from this conceptualization and their relevance for systems neuroscience. First, we explain how a regularly spiking neuron can be viewed as an oscillator and how the phase-response curve (PRC) describes the response of the neuron's spike times to small perturbations.