Miracle-dz/UniFAR-FTUs huggingface dataset:
Constitutive relation for the system-spanning dynamically jammed region in response to impact of cornstarch and water suspensions.

We experimentally characterize the impact response of concentrated suspensions consisting of cornstarch and water. We observe that the suspensions support a large normal stress-on the order of MPa-with a delay after the impactor hits the suspension surface. We show that neither the delay nor the magnitude of the stress can yet be explained by either standard rheological models of shear thickening in terms of steady-state viscosities, or impact models based on added mass or other inertial effects. The stress increase occurs when a dynamically jammed region of the suspension in front of the impactor propagates to the opposite boundary of the container, which can support large stresses when it spans between solid boundaries. We present a constitutive relation for impact rheology to relate the force on the impactor to its displacement. This can be described in terms of an effective modulus but only after the delay required for the dynamically jammed region to span between solid boundaries. Both the modulus and the delay are reported as a function of impact velocity, fluid height, and weight fraction. We report in a companion paper the structure of the dynamically jammed region when it spans between the impactor and the opposite boundary [Allen et al., Phys. Rev. E 97, 052603 (2018)10.1103/PhysRevE.97. 052603]. In a direct follow-up paper, we show that this constitutive model can be used to quantitatively predict, for example, the trajectory and penetration depth of the foot of a person walking or running on cornstarch and water [Mukhopadhyay et al., Phys. Rev. E 97, 052604 (2018)10.1103/PhysRevE.97. 052604].
Frequency, comprehension and attitudes of physicians towards abbreviations in the medical record

Aims Abbreviations are common in the medical record. Their inappropriate use may ultimately lead to patient harm, yet little is known regarding the extent of their use and their comprehension. Our aim was to assess the extent of their use, their comprehension and physicians’ attitudes towards them, using ophthalmology consults in a tertiary hospital as a model. Methods We first mapped the frequency with which English abbreviations were used in the departments’ computerised databases. We then used the most frequently used abbreviations as part of a cross-sectional survey designed to assess the attitudes of non-ophthalmologist physicians towards the abbreviations and their comprehension of them. Finally, we tested whether an online lecture would improve comprehension. Results 4375 records were screened, and 235 physicians responded to the survey. Only 42.5% knew at least 10% of the abbreviations, and no one knew them all. Ninety-two per cent of respondents admitted to searching online for the meanings of abbreviations, and 59.1% believe abbreviations should be prohibited in medical records. A short online lecture improved the number of respondents answering correctly at least 50% of the time from 1.2% to 42% (P<0.001). Conclusions Abbreviations are common in medical records and are frequently misinterpreted. Online teaching is a valuable tool for physician education. The majority of respondents believed that misinterpreting abbreviations could negatively impact patient care, and that the use of abbreviations should be prohibited in medical records. Due to low rates of comprehension and negative attitudes towards abbreviations in medical communications, we believe their use should be discouraged.
Mixed Sum-Product Networks: A Deep Architecture for Hybrid Domains

While all kinds of mixed data---from personal data, over panel and scientific data, to public and commercial data---are collected and stored, building probabilistic graphical models for these hybrid domains becomes more difficult. Users spend significant amounts of time in identifying the parametric form of the random variables (Gaussian, Poisson, Logit, etc.) involved and learning the mixed models. To make this difficult task easier, we propose the first trainable probabilistic deep architecture for hybrid domains that features tractable queries. It is based on Sum-Product Networks (SPNs) with piecewise polynomial leaf distributions together with novel nonparametric decomposition and conditioning steps using the Hirschfeld-Gebelein-Renyi Maximum Correlation Coefficient. This relieves the user from deciding a-priori the parametric form of the random variables but is still expressive enough to effectively approximate any distribution and permits efficient learning and inference.Our experiments show that the architecture, called Mixed SPNs, can indeed capture complex distributions across a wide range of hybrid domains.
Comprehensive Analysis of the Factors Contributing to the Stability and Solubility of Autonomous Human VH Domains*

We report a comprehensive analysis of sequence features that allow for the production of autonomous human heavy chain variable (VH) domains that are stable and soluble in the absence of a light chain partner. Using combinatorial phage-displayed libraries and conventional biophysical methods, we analyzed the entire former light chain interface and the third complementarity determining region (CDR3). Unlike the monomeric variable domains of camelid heavy chain antibodies (VHH domains), in which autonomous behavior depends on interactions between the hydrophobic former light chain interface and CDR3, we find that the stability of many in vitro evolved VH domains is essentially independent of the CDR3 sequence and instead derives from mutations that increase the hydrophilicity of the former light chain interface by replacing exposed hydrophobic residues with structurally compatible hydrophilic substitutions. The engineered domains can be expressed recombinantly at high yield, are predominantly monomeric at high concentrations, unfold reversibly, and are even more thermostable than typical camelid VHH domains. Many of the stabilizing mutations are rare in natural VH and VHH domains and thus could not be predicted by studying natural sequences and structures. The results demonstrate that autonomous VH domains with structural properties beyond the scope of natural frameworks can be derived by using non-natural mutations, which differ from those found in camelid VHH domains. These findings should enable the development of libraries of synthetic VH domains with CDR3 diversities unconstrained by structural demands.
2'-O-methylation of the wobble residue of elongator pre-tRNAMet in Haloferax volcanii is guided by a box C/D RNA containing unique features

The wobble residue C34 of Haloferax volcanii elongator tRNAMet is 2'-O-methylated. Neither a protein enzyme nor a guide RNA for this modification has been described. In this study, we show that this methylation is guided by a box C/D RNA targeting the intron-containing precursor of the tRNA. This guide RNA is starkly different from its homologs. This unique RNA of approximately 75 bases, named sR-tMet, is encoded in the genomes of H. volcanii and several other haloarchaea. A unique feature of sR-tMet is that the mature RNA in H. volcanii is substantially larger than its predicted size, whereas those in other haloarchaea are as predicted. While the 5'-ends of all tested haloarchaeal sR-tMets are equivalent, H. volcanii sR-tMet possesses an additional 51-base extension at its 3' end. This extension is present in the precursor but not in the mature sR-tMet of Halobacterium sp. , suggesting differential 3'-end processing of sR-tMet in these two closely related organisms. Archaeal box C/D RNAs mostly contain a K-loop at the C'/D' motif. Another unique feature of sR-tMet is that its C'/D' motif lacks either a conventional K-turn or a K-loop. Instead, it contains two tandem, sheared G•A base pairs and a pyrimidine-pyrimidine pair in the non-canonical stem; the latter may form an alternative K-turn. Gel shift assays indicate that the L7Ae protein can form a stable complex with this unusual C'/D' motif, suggesting a novel RNA structure for L7Ae interaction.
The Depression Anxiety Stress Scales (DASS): detecting anxiety disorder and depression in employees absent from work because of mental health problems

Aims: To (1) evaluate the psychometric properties and (2) examine the ability to detect cases with anxiety disorder and depression in a population of employees absent from work because of mental health problems. Methods: Internal consistency, construct validity, and criterion validity of the Depression Anxiety Stress Scales (DASS) were assessed. Furthermore, the ability to identify anxiety disorders or depression was evaluated by calculating posterior probabilities of these disorders following positive and negative test results for different cut off scores of the DASS-Depression and DASS-Anxiety subscales. Results: Internal consistency of the DASS subscales was high, with Cronbach’s alphas of 0.94, 0.88, and 0.93 for depression, anxiety, and stress respectively. Factor analysis revealed a three factor solution, which corresponded well with the three subscales of the DASS. Construct validity was further supported by moderately high correlations of the DASS with indices of convergent validity (0.65 and 0.75), and lower correlations of the DASS with indices of divergent validity (range −0.22 to 0.07). Support for criterion validity was provided by a statistically significant difference in DASS scores between two diagnostic groups. A cut off score of 5 for anxiety and 12 for depression is recommended. The DASS showed probabilities of anxiety and depression after a negative test result of 0.05 and 0.06 respectively. Probabilities of 0.29 for anxiety disorder and 0.33 for depression after a positive test result reflect relatively low specificity of the DASS. Conclusion: The psychometric properties of the DASS are suitable for use in an occupational health care setting. The DASS can be helpful in ruling out anxiety disorder and depression in employees with mental health problems.
Carbon Dioxide Sequestration In Alkaline Waste

The present study focuses on exploring an array of alkaline waste residues, procured from diverse sources as means for sequestering maximal CO2. Alkaline waste residues undertaken for the study included: (1) Cement Bag Filter Dust, (2) Finished Cement Sample, (3) Marble Dust and (4) Baghouse Dust. Experiments were conducted in a self fabricated Carbonation reactor under 80% CO2 concentration and at 40°C, water: solid (w/s) ratio of 0.2 to 1.2 with relative humidity in the reactor was maintained at 100%. Carbonation reactions were carried for 16hrs with sampling done every at intervals of 4hrs. The highest degree of carbonation achieved with Cement Bag Filter Dust was 25.84% at w/s ratio of 0.4 without any amendments to the waste material. Degree of carbonation achieved under similar conditions for other waste residue was 17.21% by Finished Cement Sample followed by Marble Dust 10.98% and finally by Baghouse Dust was 7.54%. It was concluded that a low w/s ratio of 0.4 was optimum for carbonation reaction due to increased access to reaction sites. Detailed experiments are further needed inorder to address the inconsistency in the observed carbonation achieved by different waste due to their heterogeneous nature.
Competition and loan contracting: Evidence from covenants and performance pricing

This paper examines how product market threats shape debt contracting. Bolton and Scharfstein (1990) suggest that while contract terms linked to borrower performance mitigate incentive misalignment between creditors and borrowers, they make a borrower more vulnerable to product market threats, which would decline its performance and make these performance-sensitive terms more likely to become binding. In line with this trade-off between product markets and financial markets, we provide evidence that high product market threats significantly moderate the use of performance sensitive terms in loan contracts, particularly when the benefit of doing so outweighs its cost in exacerbating borrower-creditor incentive conflicts.
Analyzing Delay in Wireless Multi-hop Heterogeneous Body Area Networks

With increase in ageing population, health care market keeps growing. There is a need for monitoring of health issues. Wireless Body Area Network (WBAN) consists of wireless sensors attached on or inside human body for monitoring vital health related problems e.g, Electro Cardiogram (ECG), Electro Encephalogram (EEG), ElectronyStagmography (ENG) etc. Due to life threatening situations, timely sending of data is essential. For data to reach health care center, there must be a proper way of sending data through reliable connection and with minimum delay. In this paper transmission delay of different paths, through which data is sent from sensor to health care center over heterogeneous multi-hop wireless channel is analyzed. Data of medical related diseases is sent through three different paths. In all three paths, data from sensors first reaches ZigBee, which is the common link in all three paths. Wireless Local Area Network (WLAN), Worldwide Interoperability for Microwave Access (WiMAX), Universal Mobile Telecommunication System (UMTS) are connected with ZigBee. Each network (WLAN, WiMAX, UMTS) is setup according to environmental conditions, suitability of device and availability of structure for that device. Data from these networks is sent to IP-Cloud, which is further connected to health care center. Delay of data reaching each device is calculated and represented graphically. Main aim of this paper is to calculate delay of each link in each path over multi-hop wireless channel.
False time-reversal violation and energy level statistics: the role of anti-unitary symmetry

The authors extend the classification of symmetries necessary to predict the universality class of spectral fluctuations of quantal systems whose classical motion is chaotic, by explaining that a system with neither time-reversal symmetry (T) nor geometric symmetry may display the spectral statistics of the Gaussian orthogonal ensemble (GOE), rather than those of the Gaussian unitary ensemble (GUE), provided it possesses instead some combination of symmetries which includes T. Such combinations constitute invariance under anti-unitary transformations (whose classical analogue are called anticanonical). For a particle in a magnetic field B plus scalar potential V, an example is TSx where Sx is a mirror reflection under which B and V are invariant. The authors illustrate this numerically for a single flux line in a hard-walled enclosure (Aharonov-Bohm quantum billiards), which also provides an example of an anti-unitary symmetry of non-geometrical origin; the spectral fluctuations are, as predicted, GOE rather than GUE.
Towards Discovering and Understanding Unexpected Hazards in Tailoring Antivirus Software for Android

In its latest comparison of Android Virus Detectors (AVDs), the independent lab AV-TEST reports that they have around 95% malware detection rate. This only indicates that current AVDs on Android have good malware signature databases. When the AVDs are deployed on the fast-evolving mobile system, their effectiveness should also be measured on their runtime behavior. Therefore, we perform a comprehensive analysis on the design of top 30 AVDs tailored for Android. Our new understanding of the AVDs' design leads us to discover the hazards in adopting AVD solutions for Android, including hazards in malware scan (malScan) mechanisms and the engine update (engineUpdate). First, the malScan mechanisms of all the analyzed AVDs lack comprehensive and continuous scan coverage. To measure the seriousness of the identified hazards, we implement targeted evasions at certain time (e.g., end of the scan) and locations (certain folders) and find that the evasions can work even under the assumption that the AVDs are equipped with "complete" virus definition files. Second, we discover that, during the engineUpdate, the Android system surprisingly nullifies all types of protections of the AVDs and renders the system for a period of high risk. We confirmed the presence of this vulnerable program logic in all versions of Google Android source code and other vendor customized system images. Since AVDs have about 650-1070 million downloads on the Google store, we immediately reported these hazards to AVD vendors across 16 countries. Google also confirmed our discovered hazard in the engineUpdate procedure, so feature enhancements might be included in later versions. Our research sheds the light on the importance of taking the secure and preventive design strategies for AVD or other mission critical apps for fast-evolving mobile-systems.
Inhibition of Calpain Blocks the Phagosomal Escape of Listeria monocytogenes

Listeria monocytogenes is a Gram-positive facultative intracellular bacterium responsible for the food borne infection listeriosis, affecting principally the immunocompromised, the old, neonates and pregnant women. Following invasion L. monocytogenes escapes the phagosome and replicates in the cytoplasm. Phagosome escape is central to L. monocytogenes virulence and is required for initiating innate host-defence responses such as the secretion of the cytokine interleukin-1. Phagosome escape of L. monocytogenes is reported to depend upon host proteins such as γ-interferon-inducible lysosomal thiol reductase and the cystic fibrosis transmembrane conductance regulator. The host cytosolic cysteine protease calpain is required in the life cycle of numerous pathogens, and previous research reports an activation of calpain by L. monocytogenes infection. Thus we sought to determine whether host calpain was required for the virulence of L. monocytogenes. Treatment of macrophages with calpain inhibitors blocked escape of L. monocytogenes from the phagosome and consequently its proliferation within the cytosol. This was independent of any direct effect on the production of bacterial virulence factors or of a bactericidal effect. Furthermore, the secretion of interleukin-1β, a host cytokine whose secretion induced by L. monocytogenes depends upon phagosome escape, was also blocked by calpain inhibition. These data indicate that L. monocytogenes co-opts host calpain to facilitate its escape from the phagosome, and more generally, that calpain may represent a cellular Achilles heel exploited by pathogens.
Loss of Dcc in the spinal cord is sufficient to cause a deficit in lateralized motor control and the switch to a hopping gait

Background: Humans with heterozygous mutations in the axon guidance receptor DCC display congenital mirror movements (MMs), which are involuntary movements of body parts, such as fingers, on one side of the body that mirror voluntary movement of the opposite side. In mice, the homozygous Dcckanga mutant allele causes synchronous MM‐like hindlimb movements during locomotion, resulting in hopping. In both human and mice, the neuroanatomical defect responsible for the deficit in lateralized motor control remains to be elucidated. Results: Using the HoxB8‐Cre line to specifically remove Dcc from the spinal cord, we found misrouting of commissural axons during their migration toward the floor plate, resulting in fewer axons crossing the midline. These mice also have a hopping gait, indicating that spinal cord guidance defects alone are sufficient to cause hopping. Conclusions: Dcc plays a role in the development of local spinal networks to ensure proper lateralization of motor control during locomotion. Local spinal cord defects following loss of Dcc cause a hopping gait in mice and may contribute to MM in humans. Developmental Dynamics 247:620–629, 2018. © 2017 Wiley Periodicals, Inc.
Combined in situ experimentation and modelling approaches to disentangle processes involved in the earliest stage of community assembly

The ecological process of community assembly is described as the succession of three phases: colonization, regulation and segregation. Early colonization remains the least studied and quantified phase of assembly. In order to fill this gap, an approach combining in situ experiments and modelling was proposed to study colonization by a benthic macrofauna community in open microcosms containing a single, non-limiting resource. The experiment was three months long. A total of 51 taxa were observed in the microcosms, but data analyses of the species composition and abundances revealed that five species, Capitella spp. , Gammaropsis maculata, Erichtionus punctatus, Nereiphylla paretti and Harmothoe mariannae, explained most of the observed variation in the assembly process. The population dynamics of these species were simulated taking into account functional traits that govern individual interactions. The dynamic model simulated a demographic stochasticity due to low population densities that result from the small size of the experimental microcosms. Using this combined approach of experiments and modelling, we showed that predation interactions alone can account for the abundances and species composition of primary consumers during the transient phase of early colonization.
A nonlinear transform based analog video transmission framework

Soft-cast, a cross-layer design for wireless video transmission, is proposed to solve the drawbacks of digital video transmission: threshold transmission framework achieving the same effect. Specifically, in encoder, we carry out power allocation on the transformed coefficients and encode the coefficients based on the new formulation of power distortion. In decoder, the process of LLSE estimator is also improved. Accompanied with the inverse nonlinear transform, DCT coefficients can be recovered depending on the scaling factors , LLSE estimator coefficients and metadata. Experiment results show that our proposed framework outperforms the Soft-cast in PSNR 1.08 dB and the MSSIM gain reaches to 2.35% when transmitting under the same bandwidth and total power.
Problem‐based learning

In problem-based learning, students working in collaborative groups learn by resolving complex, realistic problems under the guidance of faculty. In this chapter, we examine the evidence for effectiveness of the method to achieve its goals of fostering deep understandings of content and discuss the potential for developing process skills: research, negotiation and teamwork, writing, and verbal communication.
Strength and porosity evolution of two cement mortar submerged in pig slurry.

Pig slurry is an agricultural by-product used chiefly to fertilize cultivated fields. The demand for fertilizer depends on crop cycles. So, the slurry must be stored over long periods of time. In Spain, the lagoons of different depths generally used for such storage are made of brick covered with plain or reinforced concrete. Also, the slurry is in contact with other precast concrete structural members. The degradation of these structures may entail substantial economic loss, in patterned flooring especially, where deterioration-induced collapse can cause severe injury to the animals. The paper presents two aspects related to the durability of the mortar cements. In it addresses the variations observed in porosity and flexural and compressive strength in two types of cement mortar when submerged in pig slurry. The tests were conducted in a 100 m3 experimental lagoon. The mortars were exposed to three types of environments for 36 months: one outside the test lagoon and two submerged in it, at two different depths. Bending and compression measurements were taken after 3, 12, 24 and 36 months. In addition, 3, 24 and 36 month specimens were tested for total porosity and pore-size distribution.
Orthotopic approach of set-membership parameters estimation for LPV system using fractional models

In this paper, a novel method of set membership identification for linear parameter varying (LPV) fractional system is presented, where the probability distribution of the disturbances is assumed unknown but bounded. In such context, the new approach consists of enclosing all feasible parameters by an outer orthotope. The performance of the new approach has been evaluated using a numerical example and a Monte Carlo simulation.