SpikingLab: modelling agents controlled by Spiking Neural Networks in Netlogo

The scientific interest attracted by Spiking Neural Networks (SNN) has lead to the development of tools for the simulation and study of neuronal dynamics ranging from phenomenological models to the more sophisticated and biologically accurate Hodgkin-and-Huxley-based and multi-compartmental models. However, despite the multiple features offered by neural modelling tools, their integration with environments for the simulation of robots and agents can be challenging and time consuming. The implementation of artificial neural circuits to control robots generally involves the following tasks: (1) understanding the simulation tools, (2) creating the neural circuit in the neural simulator, (3) linking the simulated neural circuit with the environment of the agent and (4) programming the appropriate interface in the robot or agent to use the neural controller. The accomplishment of the above-mentioned tasks can be challenging, especially for undergraduate students or novice researchers. This paper presents an alternative tool which facilitates the simulation of simple SNN circuits using the multi-agent simulation and the programming environment Netlogo (educational software that simplifies the study and experimentation of complex systems). The engine proposed and implemented in Netlogo for the simulation of a functional model of SNN is a simplification of integrate and fire (I&F) models. The characteristics of the engine (including neuronal dynamics, STDP learning and synaptic delay) are demonstrated through the implementation of an agent representing an artificial insect controlled by a simple neural circuit. The setup of the experiment and its outcomes are described in this work

Single-nucleus RNA-seq2 reveals functional crosstalk between liver zonation and ploidy.

Funder: Cancer Research UKSingle-cell RNA-seq reveals the role of pathogenic cell populations in development and progression of chronic diseases. In order to expand our knowledge on cellular heterogeneity, we have developed a single-nucleus RNA-seq2 method tailored for the comprehensive analysis of the nuclear transcriptome from frozen tissues, allowing the dissection of all cell types present in the liver, regardless of cell size or cellular fragility. We use this approach to characterize the transcriptional profile of individual hepatocytes with different levels of ploidy, and have discovered that ploidy states are associated with different metabolic potential, and gene expression in tetraploid mononucleated hepatocytes is conditioned by their position within the hepatic lobule. Our work reveals a remarkable crosstalk between gene dosage and spatial distribution of hepatocytes

Plume Characterization of a Typical South African Braai

To braai is part of the South African heritage that transcends ethnic barriers and socio-economic groups. In this paper, a comprehensive analysis of atmospheric gaseous and aerosol species within a plume originating from a typical South African braai is presented. Braai experiments were conducted at Welgegund – a comprehensively equipped regional background atmospheric air quality and climate change monitoring station. Five distinct phases were identified during the braai. Sulphur dioxide (SO2), nitrogen oxides(NOx) and carbonmonoxide (CO) increased significantly, while ozone (O3) did not increase notably. Aromatic and alkane volatile organic compounds were determined, with benzene exceeding the 2015 South African one-year ambient air quality limit. A comparison of atmospheric PM10 (particulate matter of an aerodynamic diameter ≤10 μm) concentrations with the 24-hour ambient limit indicated that PM10 is problematic during the meat grilling phase. From a climatic point of view, relatively high single scattering albedo (ωo) indicated a cooling aerosol direct effect, while periods with lowerωo coincided with peak black carbon (BC) emissions. The highest trace metal concentrations were associated with species typically present in ash. The lead (Pb) concentration was higher than the annual ambient air quality limit. Sulphate (SO4 2–), calcium (Ca2+) and magnesium (Mg2+) were the dominant water-soluble species present in the aerosols. The largest number of organic aerosol compounds was in the PM 2.5–1 fraction, which also had the highest semi-quantified concentration. The results indicated that a recreational braai does not pose significant health risks. However, the longer exposure periods that are experienced by occupational vendors, will significantly increase health risks.KEYWORDS Braai (barbeque), atmospheric gaseous species, aerosols, atmospheric organic compounds, optical properties, chemical properties

Significant primordial star formation at redshifts z ~ 3-4

Four recent observational results have challenged our understanding of high--redshift galaxies, as they require the presence of far more ultraviolet photons than should be emitted by normal stellar populations. First, there is significant ultraviolet emission from Lyman Break Galaxies (LBGs) at wavelenghts shorter than 912\AA. Second, there is strong Lyman alpha emission from extended ``blobs'' with little or no associated apparent ionizing continuum. Third, there is a population of galaxies with unusually strong Lyman-alpha emission lines. And fourth, there is a strong HeII (1640 \AA) emission line in a composite of LBGs. The proposed explanations for the first three observations are internally inconsistent, and the fourth puzzle has remained hitherto unexplained. Here we show that all four problems are resolved simultaneously if 10-30 percent of the stars in many galaxies at z ~ 3-4 are mainly primordial - unenriched by elements heavier than helium ('metals'). Most models of hierarchical galaxy formation assume efficient intra--galactic metal mixing, and therefore do not predict metal-free star formation at redshifts significantly below z ~5. Our results imply that micro-mixing of metals within galaxies is inefficient on a ~ Gyr time-scale, a conclusion that can be verified with higher resolution simulations, and future observations of the HeII emission line.Comment: Nature in press, March 23rd issue. Under Nature embargo. Reference and acknowledgement adde

Effective Theory Approach to the Spontaneous Breakdown of Lorentz Invariance

We generalize the coset construction of Callan, Coleman, Wess and Zumino to theories in which the Lorentz group is spontaneously broken down to one of its subgroups. This allows us to write down the most general low-energy effective Lagrangian in which Lorentz invariance is non-linearly realized, and to explore the consequences of broken Lorentz symmetry without having to make any assumptions about the mechanism that triggers the breaking. We carry out the construction both in flat space, in which the Lorentz group is a global spacetime symmetry, and in a generally covariant theory, in which the Lorentz group can be treated as a local internal symmetry. As an illustration of this formalism, we construct the most general effective field theory in which the rotation group remains unbroken, and show that the latter is just the Einstein-aether theory.Comment: 45 pages, no figures

Circulating microRNAs Reveal Time Course of Organ Injury in a Porcine Model of Acetaminophen-Induced Acute Liver Failure

Acute liver failure is a rare but catastrophic condition which can progress rapidly to multi-organ failure. Studies investigating the onset of individual organ injury such as the liver, kidneys and brain during the evolution of acute liver failure, are lacking. MicroRNAs are short, non-coding strands of RNA that are released into the circulation following tissue injury. In this study, we have characterised the release of both global microRNA and specific microRNA species into the plasma using a porcine model of acetaminophen-induced acute liver failure. Pigs were induced to acute liver failure with oral acetaminophen over 19h±2h and death occurred 13h±3h thereafter. Global microRNA concentrations increased 4h prior to acute liver failure in plasma (P<0.0001) but not in isolated exosomes, and were associated with increasing plasma levels of the damage-associated molecular pattern molecule, genomic DNA (P<0.0001). MiR122 increased around the time of onset of acute liver failure (P<0.0001) and was associated with increasing international normalised ratio (P<0.0001). MiR192 increased 8h after acute liver failure (P<0.0001) and was associated with increasing creatinine (P<0.0001). The increase in miR124-1 occurred concurrent with the pre-terminal increase in intracranial pressure (P<0.0001) and was associated with decreasing cerebral perfusion pressure (P<0.002)