Miracle-dz/UniFAR-FTUs huggingface dataset:
Tuning nonthermal distributions to thermal ones in time-dependent Paul traps

We study the probability distribution of an atomic ion being laser-cooled in a periodically-driven Paul trap using a Floquet approach to the semiclassical photon scattering dynamics. We show that despite the microscopic nonequilibrium forces, a stationary thermal-like exponential distribution can be obtained in the Hamiltonian action, or equivalently in the number of quanta (phonons) of the motion linearized about the zero of the potential. At the presence of additional stray electric fields, the ion is pushed from the origin of the potential and set into a large-amplitude driven oscillation, and above a threshold amplitude of such "excess micromotion", the action distribution of excitations about the driven oscillation broadens and becomes distinctly nonthermal. We find that by a proper choice of the laser detuning the distribution can be made exponential again, with a mean phonon number close to that of the Doppler cooling limit. We derive a relation allowing to deduce just from the experimentally observable photon scattering rate both the required detuning for optimal cooling and the final mean phonon number. These results are important for quantum information processing and other applications, and in particular the derived approach can be applied to crystals of trapped ions in planar configurations, where the driven motion of ions is unavoidable.
Repeat Molecular Testing for Respiratory Pathogens: Diagnostic Gain or Diminishing Returns?

Abstract Background Upper respiratory tract infections are common, and the ability to accurately and rapidly diagnose the causative pathogen has important implications for patient management. Methods We evaluated the test-ordering practices for 2 commonly utilized nucleic acid amplification tests (NAATs) for the detection of respiratory pathogens: the Xpert Flu Assay for influenza A/B (Flu assay) and the Biofire FilmArray respiratory panel assay (RP assay), which detects 20 different targets. Our study examined repeat testing; that is, testing within 7 days from an initial test. Results Our study found that repeat testing is common for each of the individual assays: 3.0% of all Flu assays and 10.0% of all RP assays were repeat testing. Of repeat testing, 8/293 (2.7%) of repeat Flu assays and 75/1257 (6.0%) of RP assays resulted diagnostic gains, i.e., new detections. However, for the RP assay, these new detections were not always clinically actionable. The most frequently discrepant organisms were rhinovirus/enterovirus (28/102, 27.5%), followed by respiratory syncytial virus (12/102, 11.8%) and coronavirus OC43 (11/102, 10.8%). Furthermore, there were 3,336 instances in which a patient was tested using both a Flu assay and RP assay, of which only 44 (1.3%) had discrepant influenza results. Conclusions Our findings suggest opportunities exist to better guide ordering practices for respiratory pathogen testing, including limiting repeat testing, with the goal of optimization of clinical yield, and diagnostic stewardship.
The Dry Revolution: Evaluation of Three Different EEG Dry Electrode Types in Terms of Signal Spectral Features, Mental States Classification and Usability

One century after the first recording of human electroencephalographic (EEG) signals, EEG has become one of the most used neuroimaging techniques. The medical devices industry is now able to produce small and reliable EEG systems, enabling a wide variety of applications also with no-clinical aims, providing a powerful tool to neuroscientific research. However, these systems still suffer from a critical limitation, consisting in the use of wet electrodes, that are uncomfortable and require expertise to install and time from the user. In this context, dozens of different concepts of EEG dry electrodes have been recently developed, and there is the common opinion that they are reaching traditional wet electrodes quality standards. However, although many papers have tried to validate them in terms of signal quality and usability, a comprehensive comparison of different dry electrode types from multiple points of view is still missing. The present work proposes a comparison of three different dry electrode types, selected among the main solutions at present, against wet electrodes, taking into account several aspects, both in terms of signal quality and usability. In particular, the three types consisted in gold-coated single pin, multiple pins and solid-gel electrodes. The results confirmed the great standards achieved by dry electrode industry, since it was possible to obtain results comparable to wet electrodes in terms of signals spectra and mental states classification, but at the same time drastically reducing the time of montage and enhancing the comfort. In particular, multiple-pins and solid-gel electrodes overcome gold-coated single-pin-based ones in terms of comfort.
A comparison of interval division methods in adaptive IEEE 802.11p–based multi-channel medium access control protocols for vehicular ad hoc networks

Recently, vehicular ad hoc networks, which organize communications between vehicles and between vehicles and infrastructures, have played an important role in providing safe transportation and infotainment applications. To satisfy the various requirements of applications such as delay-bounded transmission of safety packets, a broad bandwidth of non-safety packets, known as medium access control has been developed. In addition, to cope with the frequent topology changes of vehicular ad hoc networks, adaptive IEEE 802.11p–based multi-channel medium access control protocols have been proposed, which can adapt to different traffic conditions. In this article, we focus on such protocols and classify them according to interval division methods. Here, we perform comparisons between these protocols following three main categories: the fixed safety transmission interval, safety and Wireless Access in Vehicular Environment Service Advertisement/Acknowledgment transmission interval, and safety and Wireless Access in Vehicular Environment Service Advertisement transmission interval. We performed simulations in NS-3 under the assumption of saturated throughput for Wireless Access in Vehicular Environment Service Advertisement packets and a Poisson arrival process for the safety packets. From the simulation results, it is evident that the design of a new multi-channel medium access control protocol based on IEEE 802.11p needs to balance the trade-off between transmission delay and packet delivery ratio to be efficient, reliable and adaptive. Moreover, such a medium access control protocol can provide efficient vehicle-to-vehicle and vehicle-to-infrastructure communications, which affect the stability of the vehicular cloud.
Impacts of apolipoprotein E disclosure on healthy Asian older adults: a cohort study

ABSTRACT Background: The apolipoprotein E (APOE) genotype provides information about Alzheimer’s disease risk, yet genotype disclosure is discouraged due to concerns about possible distress. This is the first study investigating the psychological and behavioral impacts that genetic susceptibility testing for Alzheimer’s disease has in an Asian population. Methods: From March 2016 to November 2017, we ran a prospective cohort study at Duke-National University of Singapore Medical School. 280 healthy Chinese elderly filled in questionnaires that measured psychological symptoms and health behaviors, 1 week before and 6 weeks after APOE genotype disclosure. Responses from ε4-positive subjects (associated with greater Alzheimer’s disease risk) were compared to responses from ε4-negative subjects. Results: ε4 presence was not significantly associated with anxiety (p = 0.09) or depression (p = 0.25). No associations were found for changes to diet (p = 0.36), dietary supplements consumption (p = 0.90), physical activity (p = 0.15), or cognitive activity (p = 0.18). Conclusion: There is no evidence to suggest that disclosure of APOE to Asian populations was associated with any short-term adverse psychological or behavioral impacts.
A review of squirrel alarm-calling behavior: What we know and what we do not know about how predator attributes affect alarm calls

– Forty years ago, vervet monkeys were shown to use three different predator-specific calls that elicit three different antipredator behaviors, jump-starting investigation into the information content of animal signals. Over the intervening years, our thinking about the nature of alarm calls has continued to mature. Based primarily on studies in primates, squirrels, and birds, our conceptualization of alarms has moved from a dichotomous view of calls as either referencing external stimuli or expressing emotional response, toward an increasingly nuanced view of emotional and external contexts interacting in sometimes nuanced ways to shape communication. Simultaneously, after vigorous debate, the fundamental role of information in alarm calls, as in other forms of communication, is largely accepted. However, many core phenomena in alarm-calling behaviors remain unresolved. Among these, the forces that give rise to generalized alarms versus specialized categorical or continuous variation in alarm call acoustic parameters are not well characterized, in part because most alarm calling systems are either not so simply categorized or are themselves not yet well-understood. To move the field forward, we must better understand the layered information content of alarms, and how that information does and does not affect the behavior of others. With the goal of encouraging additional research in these areas, I summarize what we know and what we do not know about the predator-related information in squirrels’ alarm calling systems across the five subfamilies of Sciuridae, in the context of their sociality and whether they are burrowing or arboreal.
Antarctic Penguins as Reservoirs of Diversity for Avian Avulaviruses

Approximately 99% of all viruses are still to be described, and in our changing world, any one of these unknown viruses could potentially expand their host range and cause epidemic disease in wildlife, agricultural animals, or humans. Avian avulavirus 1 causes outbreaks in wild birds and poultry and is thus well described. However, for many avulavirus species, only a single specimen has been described, and their viral ecology and epidemiology are unknown. Through the detection of avian avulaviruses in penguins from Antarctica, we have been able to expand upon our understanding of three avian avulavirus species (avian avulaviruses 17 to 19) and report a potentially novel avulavirus species. Importantly, we show that penguins appear to play a key role in the epidemiology of avian avulaviruses, and we encourage additional sampling of this avian group. ABSTRACT Wild birds harbor a huge diversity of avian avulaviruses (formerly avian paramyxoviruses). Antarctic penguin species have been screened for avian avulaviruses since the 1980s and, as such, are known hosts of these viruses. In this study, we screened three penguin species from the South Shetland Islands and the Antarctic Peninsula for avian avulaviruses. We show that Adelie penguins (Pygoscelis adeliae) are hosts for four different avian avulavirus species, the recently described avian avulaviruses 17 to 19 and avian avulavirus 10-like, never before isolated in Antarctica. A total of 24 viruses were isolated and sequenced; avian avulavirus 17 was the most common, and phylogenetic analysis demonstrated patterns of occurrence, with different genetic clusters corresponding to penguin age and location. Following infection in specific-pathogen-free (SPF) chickens, all four avian avulavirus species were shed from the oral cavity for up to 7 days postinfection. There was limited shedding from the cloaca in a proportion of infected chickens, and all but one bird seroconverted by day 21. No clinical signs were observed. Taken together, we propose that penguin species, including Antarctic penguins, may be the central reservoir for a diversity of avian avulavirus species and that these viruses have the potential to infect other avian hosts. IMPORTANCE Approximately 99% of all viruses are still to be described, and in our changing world, any one of these unknown viruses could potentially expand their host range and cause epidemic disease in wildlife, agricultural animals, or humans. Avian avulavirus 1 causes outbreaks in wild birds and poultry and is thus well described. However, for many avulavirus species, only a single specimen has been described, and their viral ecology and epidemiology are unknown. Through the detection of avian avulaviruses in penguins from Antarctica, we have been able to expand upon our understanding of three avian avulavirus species (avian avulaviruses 17 to 19) and report a potentially novel avulavirus species. Importantly, we show that penguins appear to play a key role in the epidemiology of avian avulaviruses, and we encourage additional sampling of this avian group.
Accuracy of Micro-Computed Tomography in Post-mortem Evaluation of Fetal Congenital Heart Disease. Comparison Between Post-mortem Micro-CT and Conventional Autopsy.

Aims: Early prenatal diagnosis of congenital heart disease is feasible. Conventional autopsy is the current gold standard method for post-mortem confirmation. Radiologic techniques alternative to conventional autopsy, such as post-mortem micro-computed tomography, have been proposed in case of limited diagnostic accuracy (i.e., early termination of pregnancy, samples of small dimension or of low weight). The aim of the present study was to define accuracy of micro-computed tomography for post-mortem diagnosis of congenital heart disease in gross anatomy samples. Methods and Results: Fetal heart underwent in-utero prenatal echocardiography and ex-vivo post-mortem evaluation by 9 μm resolution micro-computed tomography and conventional autopsy. For each case, 25 indices of cardiac anatomy were studied by post-mortem micro-computed tomography and conventional autopsy; these were used to compare the two post mortem techniques. Ten samples were examined (gestational age between 12 + 4 and 21 + 6 weeks of gestation). Considering comparable indices, agreement between post-mortem micro-computed tomography and conventional autopsy was of 100% and sensitivity and specificity were of 100%. In “challenging specimens,” post-mortem micro-computed tomography diagnoses more indices as compared to conventional autopsy and 84% of “not-diagnostic” indices at conventional autopsy would be diagnostic at post-mortem micro-computed tomography. Conclusion: Micro-computed tomography can be a valid diagnostic alternative to conventional autopsy for post-mortem evaluation of human fetal heart. In addition, it may prove superior to conventional autopsy particularly in cases coming from early termination of pregnancy or in samples of small dimension or of low weight.
Recent advances in conversational NLP : Towards the standardization of Chatbot building

Dialogue systems have become recently essential in our life. Their use is getting more and more fluid and easy throughout the time. This boils down to the improvements made in NLP and AI fields. In this paper, we try to provide an overview to the current state of the art of dialogue systems, their categories and the different approaches to build them. We end up with a discussion that compares all the techniques and analyzes the strengths and weaknesses of each. Finally, we present an opinion piece suggesting to orientate the research towards the standardization of dialogue systems building.
Byzantine Fault Tolerant Distributed Linear Regression

This paper considers the problem of Byzantine fault tolerance in distributed linear regression in a multi-agent system. However, the proposed algorithms are given for a more general class of distributed optimization problems, of which distributed linear regression is a special case. The system comprises of a server and multiple agents, where each agent is holding a certain number of data points and responses that satisfy a linear relationship (could be noisy). The objective of the server is to determine this relationship, given that some of the agents in the system (up to a known number) are Byzantine faulty (aka. actively adversarial). We show that the server can achieve this objective, in a deterministic manner, by robustifying the original distributed gradient descent method using norm based filters, namely 'norm filtering' and 'norm-cap filtering', incurring an additional log-linear computation cost in each iteration. The proposed algorithms improve upon the existing methods on three levels: i) no assumptions are required on the probability distribution of data points, ii) system can be partially asynchronous, and iii) the computational overhead (in order to handle Byzantine faulty agents) is log-linear in number of agents and linear in dimension of data points. The proposed algorithms differ from each other in the assumptions made for their correctness, and the gradient filter they use.
Development of Deployable Predictive Models for Minimal Clinically Important Difference Achievement Across the Commonly Used Health-Related Quality of Life Instruments in Adult Spinal Deformity Surgery.

STUDY DESIGN Retrospective analysis of prospectively-collected, multicenter adult spinal deformity (ASD) databases. OBJECTIVE To predict the likelihood of reaching minimum clinically important differences in patient-reported outcomes after ASD surgery. SUMMARY OF BACKGROUND DATA Adult spinal deformity (ASD) surgeries are costly procedures that do not always provide the desired benefit. In some series only 50% of patients achieve minimum clinically important differences (MCID) in patient-reported outcomes (PROs). Predictive modeling may be useful in shared-decision making and surgical planning processes. The goal of this study was to model the probability of achieving MCID change in PROs at 1 and 2 years after surgery. METHODS Two prospective observational ASD cohorts were queried. Patients with Scoliosis Research Society-22 (SRS-22), Oswestry Disability Index (ODI) and Short Form-36 (SF-36v2) data at preoperative baseline and at 1 year and 2 years after surgery were included. Seventy-five variables were used in the training of the models including: demographics, baseline PROs, and modifiable surgical parameters. Eight predictive algorithms were trained at four-time horizons: preoperative or postoperative baseline to 1 year and preoperative or postoperative baseline to 2 years. External validation was accomplished via an 80%/20% random split. Five-fold cross validation within the training sample was performed. Precision was measured as the mean average error (MAE) and R values. RESULTS 570 patients were included in the analysis. Models with the lowest MAE were selected; R values ranged from 20% to 45% and MAE ranged from 8% to 15% depending upon the predicted outcome. Patients with worse preoperative baseline PROs achieved the greatest mean improvements. Surgeon and site were not important components of the models, explaining little variance in the predicted 1- and 2-year PROs. CONCLUSIONS We present an accurate and consistent way of predicting the probability for achieving clinically relevant improvement after ASD surgery in the largest-to-date prospective operative multicenter cohort with 2-year follow-up. This study has significant clinical implications for shared decision making, surgical planning and postoperative counseling. LEVEL OF EVIDENCE 4.
Syntrophus aciditrophicus uses the same enzymes in a reversible manner to degrade and synthesize aromatic and alicyclic acids

Syntrophy is essential for the efficient conversion of organic carbon to methane in natural and constructed environments, but little is known about the enzymes involved in syntrophic carbon and electron flow. Syntrophus aciditrophicus strain SB syntrophically degrades benzoate and cyclohexane-1-carboxylate and catalyses the novel synthesis of benzoate and cyclohexane-1-carboxylate from crotonate. We used proteomic, biochemical and metabolomic approaches to determine what enzymes are used for fatty, aromatic and alicyclic acid degradation versus for benzoate and cyclohexane-1-carboxylate synthesis. Enzymes involved in the metabolism of cyclohex-1,5-diene carboxyl-CoA to acetyl-CoA were in high abundance in S. aciditrophicus cells grown in pure culture on crotonate and in coculture with Methanospirillum hungatei on crotonate, benzoate or cyclohexane-1-carboxylate. Incorporation of 13 C-atoms from 1-[13 C]-acetate into crotonate, benzoate and cyclohexane-1-carboxylate during growth on these different substrates showed that the pathways are reversible. A protein conduit for syntrophic reverse electron transfer from acyl-CoA intermediates to formate was detected. Ligases and membrane-bound pyrophosphatases make pyrophosphate needed for the synthesis of ATP by an acetyl-CoA synthetase. Syntrophus aciditrophicus, thus, uses a core set of enzymes that operates close to thermodynamic equilibrium to conserve energy in a novel and highly efficient manner.
Why Unhappy Customers Are Unlikely to Share Their Opinions with Brands

For brands to thrive, they must understand consumer sentiment; if consumers’ likelihood of sharing their opinion is a function of their attitude toward a brand, then brands’ perception of consumer sentiment may be systematically biased. While research in consumer-to-consumer sharing (i.e., word of mouth) suggests that those with extreme attitude are more likely to share than those with neutral attitude (a U-shaped relationship), the relationship between consumers’ attitude toward a brand and their propensity to share with a brand is unknown. In contrast to the U-shaped pattern observed in word of mouth, the authors find a hockey stick–shaped relationship between attitude and sharing with brands (“__/”). Those with positive attitude (vs. neutral attitude) are more likely to share their opinion, but those with negative attitude do not show a similar increase in sharing. The authors show that this pattern emerges because, among consumers with positive (vs. neutral) attitude toward a brand, reciprocity norms drive increased sharing, but among consumers with negative (vs. neutral) attitude, competing mechanisms drive behavior: the desire to vent increases sharing, but at the same time an aversion to criticize others directly deters sharing. The authors test these ideas using a series of studies, including a field study.
Quartz Enhanced Photoacoustic Spectroscopy Based on a Custom Quartz Tuning Fork

We have designed and fabricated a custom quartz tuning fork (QTF) with a reduced fundamental frequency; a larger gap between the prongs; and the best quality factor in air at atmospheric conditions ever reported, to our knowledge. Acoustic microresonators have been added to the QTF in order to enhance the sensor sensitivity. We demonstrate a normalized noise equivalent absorption (NNEA) of 3.7 × 10−9 W.cm−1.Hz−1/2 for CO2 detection at atmospheric pressure. The influence of the inner diameter and length of the microresonators has been studied, as well as the penetration depth between the QTF’s prongs. We investigated the acoustic isolation of our system and measured the Allan deviation of the sensor.