An HIV feedback resistor: auto-regulatory circuit deactivator and noise buffer.

Animal viruses (e.g., lentiviruses and herpesviruses) use transcriptional positive feedback (i.e., transactivation) to regulate their gene expression. But positive-feedback circuits are inherently unstable when turned off, which presents a particular dilemma for latent viruses that lack transcriptional repressor motifs. Here we show that a dissipative feedback resistor, composed of enzymatic interconversion of the transactivator, converts transactivation circuits into excitable systems that generate transient pulses of expression, which decay to zero. We use HIV-1 as a model system and analyze single-cell expression kinetics to explore whether the HIV-1 transactivator of transcription (Tat) uses a resistor to shut off transactivation. The Tat feedback circuit was found to lack bi-stability and Tat self-cooperativity but exhibited a pulse of activity upon transactivation, all in agreement with the feedback resistor model. Guided by a mathematical model, biochemical and genetic perturbation of the suspected Tat feedback resistor altered the circuit's stability and reduced susceptibility to molecular noise, in agreement with model predictions. We propose that the feedback resistor is a necessary, but possibly not sufficient, condition for turning off noisy transactivation circuits lacking a repressor motif (e.g., HIV-1 Tat). Feedback resistors may be a paradigm for examining other auto-regulatory circuits and may inform upon how viral latency is established, maintained, and broken

Bifurcations and Chaos in Time Delayed Piecewise Linear Dynamical Systems

We reinvestigate the dynamical behavior of a first order scalar nonlinear delay differential equation with piecewise linearity and identify several interesting features in the nature of bifurcations and chaos associated with it as a function of the delay time and external forcing parameters. In particular, we point out that the fixed point solution exhibits a stability island in the two parameter space of time delay and strength of nonlinearity. Significant role played by transients in attaining steady state solutions is pointed out. Various routes to chaos and existence of hyperchaos even for low values of time delay which is evidenced by multiple positive Lyapunov exponents are brought out. The study is extended to the case of two coupled systems, one with delay and the other one without delay.Comment: 34 Pages, 14 Figure

Modified active disturbance rejection control scheme for systems with time delay

Active disturbance rejection control (ADRC) has been gaining attention in recent years and has shown its performance in multiple applications including non-linear ones, without the need of accurate models. Despite the good results of this technique, time delay can deteriorate the performance of ADRC, limiting its application. Here, the effect of time delay on the stability of a linear ADRC is analysed, using an alternative mathematical description, and a new effective design technique, based on a modified ADRC scheme, is proposed to overcome the delay effect while maintaining the disturbance rejection properties of the ADRC. An experimental example is discussed considering a system with low damped mechanical resonances, showing good results using the proposed technique.The authors are grateful to the Basque Government for partial support of this work through the Ph Degree grant of A. Elejaga, Research Groups IT1533-22 (Hezkuntza, Hizkuntza Politika Eta Kultura Saila) and the LINAC7 II KK- 2022/00026 Elkartek project (Ekonomiaren Garapen eta Lehiakortasun Saila)

Nonlinear brain dynamics as macroscopic manifestation of underlying many-body field dynamics

Neural activity patterns related to behavior occur at many scales in time and space from the atomic and molecular to the whole brain. Here we explore the feasibility of interpreting neurophysiological data in the context of many-body physics by using tools that physicists have devised to analyze comparable hierarchies in other fields of science. We focus on a mesoscopic level that offers a multi-step pathway between the microscopic functions of neurons and the macroscopic functions of brain systems revealed by hemodynamic imaging. We use electroencephalographic (EEG) records collected from high-density electrode arrays fixed on the epidural surfaces of primary sensory and limbic areas in rabbits and cats trained to discriminate conditioned stimuli (CS) in the various modalities. High temporal resolution of EEG signals with the Hilbert transform gives evidence for diverse intermittent spatial patterns of amplitude (AM) and phase modulations (PM) of carrier waves that repeatedly re-synchronize in the beta and gamma ranges at near zero time lags over long distances. The dominant mechanism for neural interactions by axodendritic synaptic transmission should impose distance-dependent delays on the EEG oscillations owing to finite propagation velocities. It does not. EEGs instead show evidence for anomalous dispersion: the existence in neural populations of a low velocity range of information and energy transfers, and a high velocity range of the spread of phase transitions. This distinction labels the phenomenon but does not explain it. In this report we explore the analysis of these phenomena using concepts of energy dissipation, the maintenance by cortex of multiple ground states corresponding to AM patterns, and the exclusive selection by spontaneous breakdown of symmetry (SBS) of single states in sequences.Comment: 31 page

Solution structure of a repeated unit of the ABA-1 nematode polyprotein allergen of ascaris reveals a novel fold and two discrete lipid-binding sites

Parasitic nematode worms cause serious health problems in humans and other animals. They can induce allergic-type immune responses, which can be harmful but may at the same time protect against the infections. Allergens are proteins that trigger allergic reactions and these parasites produce a type that is confined to nematodes, the nematode polyprotein allergens (NPAs). These are synthesized as large precursor proteins comprising repeating units of similar amino acid sequence that are subsequently cleaved into multiple copies of the allergen protein. NPAs bind small lipids such as fatty acids and retinol (Vitamin A) and probably transport these sensitive and insoluble compounds between the tissues of the worms. Nematodes cannot synthesize these lipids, so NPAs may also be crucial for extracting nutrients from their hosts. They may also be involved in altering immune responses by controlling the lipids by which the immune and inflammatory cells communicate. We describe the molecular structure of one unit of an NPA, the well-known ABA-1 allergen of Ascaris and find its structure to be of a type not previously found for lipid-binding proteins, and we describe the unusual sites where lipids bind within this structur

Optimisation of Mobile Communication Networks - OMCO NET

The mini conference “Optimisation of Mobile Communication Networks” focuses on advanced methods for search and optimisation applied to wireless communication networks. It is sponsored by Research & Enterprise Fund Southampton Solent University. The conference strives to widen knowledge on advanced search methods capable of optimisation of wireless communications networks. The aim is to provide a forum for exchange of recent knowledge, new ideas and trends in this progressive and challenging area. The conference will popularise new successful approaches on resolving hard tasks such as minimisation of transmit power, cooperative and optimal routing

A High Performance Fuzzy Logic Architecture for UAV Decision Making

The majority of Unmanned Aerial Vehicles (UAVs) in operation today are not truly autonomous, but are instead reliant on a remote human pilot. A high degree of autonomy can provide many advantages in terms of cost, operational resources and safety. However, one of the challenges involved in achieving autonomy is that of replicating the reasoning and decision making capabilities of a human pilot. One candidate method for providing this decision making capability is fuzzy logic. In this role, the fuzzy system must satisfy real-time constraints, process large quantities of data and relate to large knowledge bases. Consequently, there is a need for a generic, high performance fuzzy computation platform for UAV applications. Based on Lees’ [1] original work, a high performance fuzzy processing architecture, implemented in Field Programmable Gate Arrays (FPGAs), has been developed and is shown to outclass the performance of existing fuzzy processors

The cognitive neuroscience of visual working memory

Visual working memory allows us to temporarily maintain and manipulate visual information in order to solve a task. The study of the brain mechanisms underlying this function began more than half a century ago, with Scoville and Milner’s (1957) seminal discoveries with amnesic patients. This timely collection of papers brings together diverse perspectives on the cognitive neuroscience of visual working memory from multiple fields that have traditionally been fairly disjointed: human neuroimaging, electrophysiological, behavioural and animal lesion studies, investigating both the developing and the adult brain

04231 Abstracts Collection -- Scheduling in Computer and Manufacturing Systems

During 31.05.-04.06.04, the Dagstuhl Seminar 04231 "Scheduling in Computer and Manufacturing Systems" was held in the International Conference and Research Center (IBFI), Schloss Dagstuhl. During the seminar, several participants presented their current research, and ongoing work and open problems were discussed. Abstracts of the presentations given during the seminar as well as abstracts of seminar results and ideas are put together in this paper. The first section describes the seminar topics and goals in general. Links to extended abstracts or full papers are provided, if available