Miracle-dz/UniFAR-FTUs huggingface dataset:
A Thalamocortical Neural Mass Model of the EEG during NREM Sleep and Its Response to Auditory Stimulation

Few models exist that accurately reproduce the complex rhythms of the thalamocortical system that are apparent in measured scalp EEG and at the same time, are suitable for large-scale simulations of brain activity. Here, we present a neural mass model of the thalamocortical system during natural non-REM sleep, which is able to generate fast sleep spindles (12–15 Hz), slow oscillations (<1 Hz) and K-complexes, as well as their distinct temporal relations, and response to auditory stimuli. We show that with the inclusion of detailed calcium currents, the thalamic neural mass model is able to generate different firing modes, and validate the model with EEG-data from a recent sleep study in humans, where closed-loop auditory stimulation was applied. The model output relates directly to the EEG, which makes it a useful basis to develop new stimulation protocols.
Self-injurious behaviour in individuals with autism spectrum disorder and intellectual disability.

BACKGROUND Autism spectrum disorder (ASD) has been identified as a risk marker for self-injurious behaviour. In this study we aimed to describe the prevalence, topography and correlates of self-injury in individuals with ASD in contrast to individuals with Fragile X and Down syndromes and examine person characteristics associated with self-injury across and within these groups. METHOD Carers of individuals with ASD (n = 149; mean age = 9.98, SD = 4.86), Fragile X syndrome (n = 123; mean age = 15.32, SD = 8.74) and Down syndrome (n = 49; mean age = 15.84, SD = 12.59) completed questionnaires relating to the presence and topography of self-injury. Information was also gathered regarding demographic characteristics, affect, autistic behaviour, hyperactivity, impulsivity and repetitive behaviour. RESULTS Self-injurious behaviour was displayed by 50% of the ASD sample: a significantly higher prevalence than in the Down syndrome group (18.4%) but broadly similar to the prevalence in Fragile X syndrome (54.5%). Self-injury was associated with significantly higher levels of autistic behaviour within the Down and Fragile X syndrome groups. Within the ASD group, the presence of self-injury was associated with significantly higher levels of impulsivity and hyperactivity, negative affect and significantly lower levels of ability and speech. CONCLUSIONS Self-injurious behaviour is prevalent in individuals with ASD and the presence of ASD phenomenology increases the risk of self-injury in individuals with known genetic disorders but without a diagnosis of idiopathic autism. Person characteristics associated with self-injury in ASD indicate a role for impaired behavioural inhibition, low levels of ability and negative affect in the development of self-injurious behaviour.
A Novel Detection Method for Underwater Moving Targets by Measuring Their ELF Emissions with Inductive Sensors

In this article, we propose a novel detection method for underwater moving targets by detecting their extremely low frequency (ELF) emissions with inductive sensors. The ELF field source of the targets is modeled by a horizontal electric dipole at distances more than several times of the targets’ length. The formulas for the fields produced in air are derived with a three-layer model (air, seawater and seafloor) and are evaluated with a complementary numerical integration technique. A proof of concept measurement is presented. The ELF emissions from a surface ship were detected by inductive electronic and magnetic sensors as the ship was leaving a harbor. ELF signals are of substantial strength and have typical characteristic of harmonic line spectrum, and the fundamental frequency has a direct relationship with the ship’s speed. Due to the high sensitivity and low noise level of our sensors, it is capable of resolving weak ELF signals at long distance. In our experiment, a detection distance of 1300 m from the surface ship above the sea surface was realized, which shows that this method would be an appealing complement to the usual acoustic detection and magnetic anomaly detection capability.
Bounds for Interacting Bose Gases ∗

We study interacting Bose gases and prove lower bounds for the kinetic plus interaction energy of a many-body wave function in terms of its particle density. These general estimates are then applied to various types of interactions, including hard sphere (in 3D) and hard disk (in 2D) as well as a general class of homogeneous potentials.
Adaptive closed-loop speed control of BLDC motors with applications to multi-rotor aerial vehicles

This paper introduces the adaptive bias and adaptive gain (ABAG) algorithm for closed-loop electronic speed control (ESC) of the brushless direct current (BLDC) motors typically used to spin the propellers in multi-rotor aerial robots. The ABAG algorithm is adaptive and robust in the sense that it does not require the knowledge of any mechanical/electrical parameter of the motor/propeller group and that neither a pre-calibration nor the knowledge of the feedforward/nominal input is needed. The ABAG algorithm is amenable to an extremely low complexity implementation. We experimentally prove that it can run in 27.5 μ» on a 8 MHz microcontroller with no floating point unit and limited arithmetic capabilities allowing only 8-bit additions, subtractions and multiplications. Besides the controller implementation we present a self-contained open source software architecture that handles the entire speed control process, including clock synchronization, and over-current and blockage safeties. The excellent performance and robustness of ABAG are shown by experimental tests and aerial physical interaction experiments.
IMPROVED STATE ESTIMATION IN AN MPC ALGORITHM BASED ON FUZZY DECISION

Abstract Due to the difficulties arising in state estimation in Model Predictive Control (MPC) algorithms, Kalman filtering and dynamic matrix control (DMC) estimation approaches were combined in the current work. Then a weighting average of both estimated states was passed to the algorithm. To determine the weighting coefficient of the mentioned average, a fuzzy supervisor was designed to control the combined estimation. An industrial process ‘heavy oil fractionator' was used for simulation. The results demonstrated the improved performance of the approach particularly in better disturbance rejection capability.
Corrected Four-Sphere Head Model for EEG Signals

The EEG signal is generated by electrical brain cell activity, often described in terms of current dipoles. By applying EEG forward models we can compute the contribution from such dipoles to the electrical potential recorded by EEG electrodes. Forward models are key both for generating understanding and intuition about the neural origin of EEG signals as well as inverse modeling, i.e., the estimation of the underlying dipole sources from recorded EEG signals. Different models of varying complexity and biological detail are used in the field. One such analytical model is the four-sphere model which assumes a four-layered spherical head where the layers represent brain tissue, cerebrospinal fluid (CSF), skull, and scalp, respectively. While conceptually clear, the mathematical expression for the electric potentials in the four-sphere model is cumbersome, and we observed that the formulas presented in the literature contain errors. Here, we derive and present the correct analytical formulas with a detailed derivation. A useful application of the analytical four-sphere model is that it can serve as ground truth to test the accuracy of numerical schemes such as the Finite Element Method (FEM). We performed FEM simulations of the four-sphere head model and showed that they were consistent with the corrected analytical formulas. For future reference we provide scripts for computing EEG potentials with the four-sphere model, both by means of the correct analytical formulas and numerical FEM simulations.
A New Method to Segment the Multiple Sclerosis Lesions on Brain Magnetic Resonance Images

Automatic segmentation of multiple sclerosis (MS) lesions in brain magnetic resonance imaging (MRI) has been widely investigated in the recent years with the goal of helping MS diagnosis and patient follow-up. In this research work, Gaussian mixture model (GMM) has been used to segment the MS lesions in MRIs, including T1-weighted (T1-w), T2-w, and T2-fluid attenuation inversion recovery. Usually, GMM is optimized by using expectation-maximization (EM) algorithm. The drawbacks of this optimization method are, it does not converge to optimal maximum or minimum and furthermore, there are some voxels, which do not fit the GMM model and have to be rejected. So, GMM is time-consuming and not too much efficient. To overcome these limitations, in this research study, at the first step, GMM was applied to segment only T1-w images by using 100 various starting points when the maximum number of iterations was considered to be 50. Then segmentation results were used to calculate the parameters of the other two images. Furthermore, FAST-trimmed likelihood estimator algorithm was applied to determine which voxels should be rejected. The output result of the segmentation was classified in three classes; White and Gray matters, cerebrospinal fluid, and some rejected voxels which prone to be MS. In the next phase, MS lesions were detected by using some heuristic rules. This new method was applied on the brain MRIs of 25 patients from two hospitals. The automatic segmentation outputs were scored by two specialists and the results show that our method has the capability to segment the MS lesions with dice similarity coefficient score of 0.82. The results showed a better performance for the proposed approach, in comparison to those of previous works with less time-consuming.
Synthesis, characterization, and enhanced antibacterial activity of chitosan‐based biodegradable conducting graft copolymers

In this study, synthesis, characterization, and antibacterial activity of chitosan-based biodegradable conducting graft copolymers namely polyaniline-g-chitosan, polypyrrole-g-chitosan, and polythiophene-g-chitosan with chemical oxidation method using (NH4)2S2O8 and FeCl3 as initiators were investigated. Characterizations of the materials were carried out by means of Fourier transform infrared spectroscopy, proton nuclear magnetic resonance, UV–vis, thermogravimetric analysis, scanning electron microscope, transmission electron microscope, and temperature-dependent electrical conductivity measurements. The grafting yield, grafting efficiency, particle sizes, dielectric constants, and densities of the conducting graft copolymers were determined. Grafting process improved the conductivities and thermal stabilities of the copolymers. The conducting polymer-g-chitosan copolymers were also tested against Klebsiella pneumoniae, Escherichia coli, Bacillus megaterium, Enterococcus faecalis, Staphylococcus aureus microorganisms and relatively higher or equipotent antibacterial activities were determined against the microorganisms compared with Penicillin, Amikacin, Erythromycin, Rifampicin, and Trimethoprim antibiotics. POLYM. COMPOS. 36:497–509, 2015. © 2014 Society of Plastics Engineers
Yield enhancement of matrix precursor in short carbon fiber reinforced randomly oriented carbon/carbon composite

Isroaniso matrix precursor synthesized from commercially available petroleum pitch was stabilized in air. The influence of oxygen mass gain during stabilization on the yield of matrix precursor was studied. Additionally, the influence of pressure on the yield of the stabilized matrix precursor in a real system was studied. The fourier transform infrared spectrometry (FTIR), thermogravimetric analysis (TGA), yield, yield rate, and yield impact were used to check the effect of stabilization and pressure on the yield of the matrix precursor and the end properties of the composite thereafter. The results showed that the yield increased with stabilization duration up to 20 h whereas it decreased for stabilization duration beyond 20 h. Further results showed that the stabilized matrix precursor for a duration of 5 h could withstand almost two-fold greater hot-pressing pressure without resulting in exudation as compared to that of a 1 h stabilized matrix precursor. The enhanced hot-pressing pressure significantly improved the yield of the matrix precursor. As a consequence, the densification and mechanical properties were increased significantly. Further, the matrix precursor stabilized for a duration of 20 h or more failed to provide proper and uniform binding of the reinforcement.
Scaling clearance in paediatric pharmacokinetics: All models are wrong, which are useful?

LINKED ARTICLES This article is commented on in the editorial by Holford NHG and Anderson BJ. Why standards are useful for predicting doses. Br J Clin Pharmacol 2017; 83: 685–7. doi: 10.1111/bcp.13230 AIM When different models for weight and age are used in paediatric pharmacokinetic studies it is difficult to compare parameters between studies or perform model‐based meta‐analyses. This study aimed to compare published models with the proposed standard model (allometric weight0.75 and sigmoidal maturation function). METHODS A systematic literature search was undertaken to identify published clearance (CL) reports for gentamicin and midazolam and all published models for scaling clearance in children. Each model was fitted to the CL values for gentamicin and midazolam, and the results compared with the standard model (allometric weight exponent of 0.75, along with a sigmoidal maturation function estimating the time in weeks of postmenstrual age to reach half the mature value and a shape parameter). For comparison, we also looked at allometric size models with no age effect, the influence of estimating the allometric exponent in the standard model and, for gentamicin, using a fixed allometric exponent of 0.632 as per a study on glomerular filtration rate maturation. Akaike information criteria (AIC) and visual predictive checks were used for evaluation. RESULTS No model gave an improved AIC in all age groups, but one model for gentamicin and three models for midazolam gave slightly improved global AIC fits albeit using more parameters: AIC drop (number of parameters), –4.1 (5), –9.2 (4), –10.8 (5) and –10.1 (5), respectively. The 95% confidence interval of estimated CL for all top performing models overlapped. CONCLUSION No evidence to reject the standard model was found; given the benefits of standardised parameterisation, its use should therefore be recommended.
Rothamsted Repository Download

Le ́ vy walks are a mathematical construction useful for describing random patterns of movement with bizarre fractal properties that seem to have no place in biology. Nonetheless, movement patterns resembling Le ́ vy walks have been observed at scales ranging from the microscopic to the ecological. They have been seen in the molecular machinery operating within cells during intracellular trafficking, in the movement patterns of T cells within the brain, in DNA, in some molluscs, insects, fish, birds and mammals, in the airborne flights of spores and seeds, and in the collective movements of some animal groups. Le ́ vy walks are also evident in trace fossils (ichnofossils) – the preserved form of tracks made by organisms that occupied ancient sea beds about 252-66 million years ago. And they are utilised by algae that originated around two billion years ago, and still exist today. In September of 2017, leading researchers from across the life sciences, along with mathematicians and physicists, got together at a Company of Biologists ’ Workshop to discuss the origins and biological significance of these movement patterns. In this Review the essence of the technical and sometimes heated discussions is distilled and made accessible for all. In just a few pages, the reader is taken from a gentle introduction to the frontiers of a very active field of scientific enquiry. What emerges is a fascinating story of a truly inter-disciplinary scientific endeavour that is seeking to better understand movement patterns occurring across all biological scales.
The plastic limit of clays

The plastic limit of soils was first described by Atterberg in 1911. The thread-rolling test was standardised at the US Public Roads Bureau in the 1920s and 1930s, and has subsequently become one of the standard tests of soil mechanics. This paper reviews the original definitions of plastic limit as proposed by Atterberg, and proposes that the brittle failure observed in the plastic limit test is caused by either air entry or cavitation in the clay. Critical state soil mechanics is used to show that the observed range of undrained shear strengths of soils at plastic limit is consistent with this hypothesis. The fallacy that strength at plastic limit is a constant is highlighted, and the implications for geotechnical practice are discussed.
The Potential for Proactive Housing Inspections to Inform Public Health Interventions

Municipal housing inspection data can inform planning, targeting, and evaluating interventions aimed at reducing housing hazards (lead paint, mold, pests, etc) that may affect residents' health. However, the potential of these data to inform public health initiatives is underexplored. We determined whether home health hazards identified by city inspectors during proactive inspections of single-family private rental housing are predicted by housing age, assessed value, or location in one of 26 geographic “inspector areas” in Rochester, New York. A comparison of linear mixed models, using housing inspector area as a random effect and assessment and construction year as fixed effects, shows that while a large proportion of variation (64%) in violations is due to housing stock, inspectors provide significant additional information about the presence of potential health hazards, particularly in the highest-risk housing stock. This suggests that inspector-generated housing hazard data may be valuable in designing public health interventions.
An essential regulatory function of the DnaK chaperone dictates the decision between proliferation and maintenance in Caulobacter crescentus

Hsp70 chaperones are well known for their important functions in maintaining protein homeostasis during thermal stress conditions. In many bacteria the Hsp70 homolog DnaK is also required for growth in the absence of stress. The molecular reasons underlying Hsp70 essentiality remain in most cases unclear. Here, we demonstrate that DnaK is essential in the α-proteobacterium Caulobacter crescentus due to its regulatory function in gene expression. Using a suppressor screen we identified mutations that allow growth in the absence of DnaK. All mutations reduced the activity of the heat shock sigma factor σ32, demonstrating that the DnaK-dependent inactivation of σ32 is a growth requirement. While most mutations occurred in the rpoH gene encoding σ32, we also identified mutations affecting σ32 activity or stability in trans, providing important new insight into the regulatory mechanisms controlling σ32 activity. Most notably, we describe a mutation in the ATP dependent protease HslUV that induces rapid degradation of σ32, and a mutation leading to increased levels of the house keeping σ70 that outcompete σ32 for binding to the RNA polymerase. We demonstrate that σ32 inhibits growth and that its unrestrained activity leads to an extensive reprogramming of global gene expression, resulting in upregulation of repair and maintenance functions and downregulation of the growth-promoting functions of protein translation, DNA replication and certain metabolic processes. While this re-allocation from proliferative to maintenance functions could provide an advantage during heat stress, it leads to growth defects under favorable conditions. We conclude that Caulobacter has co-opted the DnaK chaperone system as an essential regulator of gene expression under conditions when its folding activity is dispensable.
Sociability between invasive guppies and native topminnows

The role of interspecific social interactions during species invasions may be more decisive than previously thought. Research has revealed that invasive fish improve their foraging success by shoaling with native Mexican species, and potentially increase the chances of invasion success. However, do native individuals tend to associate with invaders as well? We tested the hypothesis that the twoline skiffia (Neotoca bilineata) and the Lerma livebearer (Poeciliopsis infans), both native endemic Mexican topminnows, will associate with guppies, a notorious invasive species present in Mexico. Our investigation shows that guppies, twoline skiffias and Lerma livebearers have a mutual tendency to associate with each other. Although there is a marked tendency to shoal with heterospecifics in this system, shoaling partners do not necessarily benefit equally from the association. Further research on invasive-native social interactions is needed to promote our understanding of potential facilitation by natives.
Association of traditional cardiovascular risk factors with carotid atherosclerosis among adults at a teaching hospital in south-western Nigeria

Summary Background Traditional cardiovascular risk factors (CVRFs), which include age, gender, hypertension, diabetes mellitus, dyslipidaemia, smoking, alcohol consumption, chronic kidney disease and obesity, have been shown to be associated with atherosclerosis. We aimed to evaluate the impact of traditional CVRFs on carotid atherosclerosis (CA) in a sample of Nigerian adults. Methods We examined 162 subjects with traditional CVRFs in a cross-sectional study. Demographic and clinical data, including history of hypertension, diabetes mellitus, smoking, alcohol intake and chronic kidney disease, as well as systolic and diastolic blood pressure, weight and height were collected. Serum creatinine, fasting blood glucose and lipid profiles were also determined. Carotid intima–media thickness (CIMT) and presence of carotid plaque (CP) were evaluated by high-frequency B-mode ultrasound. Chi-squared and regression analyses were carried out to determine associations between variables of CIMT and CVRF. Results Increased CIMT was associated with all CVRFs (p < 0.05) except gender (p > 0.05), while CP was associated with older age, obesity, hypertension and dyslipidaemia (p < 0.05). We found prevalence of increased CIMT was 53.7%, while that of CP was 16.1%. The prevalence of CA (increased CIMT and CP) also increased with increasing number of CVRFs in the subjects. Age ≥ 50 years, hypertension, dyslipidaemia, obesity and alcohol intake explained 78.7% of variance in CIMT, while age ≥ 50 years and hypertension explained 38.0% of variance in CP. Conclusions CA was associated with presence and increasing number of traditional CVRFs. A significant percentage of variance in CA was, however, unexplained by traditional CVRFs.