Miracle-dz/UniFAR-FTUs huggingface dataset:
Change detection in pictorial and solid scenes: The role of depth of field

This paper investigates the influence of depth of field on change detection in both pictorial and solid scenes. In this work, a within-subjects experiment is conducted using a flicker paradigm, with which the hit rate and response time for change detection are obtained. The results show that depth of field has effects on change detection: the hit rate is smaller and response time is longer in the scene with small depth of field than in the scene with large depth of field or uniform blur. It is concluded that when depth of field is small and binocular disparity is not zero in a picture, the influence of depth of field on change detection is more significant than binocular disparity. This conclusion leads to the result that the change in the sharp area is detected easier and faster than in the area that is closer to the observer.
Comparing the succinctness of monadic query languages over finite trees

We study the succinctness of monadic second-order logic and a variety of monadic fixed point logics on trees. All these languages are known to have the same expressive power on trees, but some can express the same queries much more succinctly than others. For example, we show that, under some complexity theoretic assumption, monadic second-order logic is non-elementarily more succinct than monadic least fixed point logic, which in turn is non-elementarily more succinct than monadic datalog.
CILIA AND VESICULAR PARTICLES IN THE ENDOCRINE PANCREAS OF THE MONGOLIAN GERBIL

Though the general appearance and the cellular composition of the pancreatic islets of the Mongolian gerbil (Meriones unguiculatus) conformed to those of most other rodent species, some peculiar ultrastructural details were found. Thus there were diversiform, mainly vesicular particles with varying electron opacity in these islets. The vesicular particles showed a clear association to cilia which seemed to possess a basic fiber pattern of 9 + 0. The basal bodies were localized in the cytoplasm of the islet parenchymal cells, most often in the β-cells, and the vesicular particles occurred in the portions of cilia that were protruding into intercellular spaces. The cilia were often swollen, and the vesicular particles were mainly found in the space between the ciliary membranes and the longitudinal fibers. A few vesicular particles could be seen inside and sometimes seemingly in contact with these fibers. Occasionally, there were morphologically similar structures in the cytoplasm of adjacent β-cells. The vesicular particles were differentiated from the vesicles occurring in nerve structures by their larger size, as well as by their heterogeneous shape and electron opacity. The nature of the vesicular particles and the significance of their presence in cilia and in the cytoplasm of some of the islet cells remain unknown. Among other possibilities, it is, however, suggested that the vesicular particles may represent secretory material.
Invariance control in robotic applications: Trajectory supervision and haptic rendering

Invariance control is a novel approach from control theory for constrained control of nonlinear systems. This paper extends the invariance control method to multi-input systems subject to nonlinear constraints. Experimental results of two robotic applications demonstrate the flexibility of the invariance control approach. The first scenario is trajectory supervision. The second one is haptic rendering of rigid surfaces. Experiments are conducted on a 3 DOF robot arm.
Characteristics, risk factors and mortality of stroke patients in Kyoto, Japan

Objectives The aim of the study was to evaluate the characteristics, risk factors and outcome of recent stroke patients in Kyoto, Japan. Design We analysed stroke patients in the registry with regard to their characteristics, risk factors and mortality. Cox proportional hazards regressions were used to calculate adjusted HRs for death. Settings The Kyoto prefecture of Japan has established a registry to enrol new stroke patients in cooperation with the Kyoto Medical Association and its affiliated hospitals Participants The registry now has data on 14 268 patients enrolled from 1 January 1999 to 31 December 2009. Of these, 12 774(89.5%) underwent CT, 9232 (64.7%) MRI, 2504 (17.5%) angiography and 342 (2.4%) scintigraphy. Excluding 480 (3.3%) unclassified patients, 13 788 (96.6%) patients formed the basis of further analyses which were divided into three subtypes: cerebral infarction (CI), cerebral haemorrhage (CH) and subarachnoid haemorrhage (SAH). Results A total of 13 788 confirmed stroke patients in the study cohort comprised 9011 (86.3%) CI, 3549 (25.7%) CH and 1197 (8.7%) SAH cases. The mean age ±SD was 73.3±11.8, 69.1±13.6 and 62.7±13.5 in the CI, CH and SAH cases, respectively. Men were predominant in the CI and CH cases, whereas women were predominant in the SAH cases. The frequencies of risk factors were different among the subtypes. Mortality was worst in SAH, followed by CH, and least in CI. HRs for death adjusted for age, sex, histories of hypertension, arrhythmia, diabetes mellitus and hyperlipaemia and use of tobacco and/or alcohol showed a significant (p<0.001) difference among CI (as reference), CH (3.71; 3.11 to 4.43) and SAH (8.94; 7.21 to 11.11). Conclusions The characteristics, risk factors and mortality were evaluated in a quantitative manner in a large Japanese study cohort to shed light on the present status of stroke medicine.
Layered Indium Selenide under High Pressure: A Review

This paper intends a short review of the research work done on the structural and electronic properties of layered Indium Selenide (InSe) and related III–VI semiconductors under high pressure conditions. The paper will mainly focus on the crucial role played by high pressure experimental and theoretical tools to investigate the electronic structure of InSe. This objective involves a previous revision of results on the pressure dependence of the InSe crystal structure and related topics such as the equation of state and the pressure-temperature crystal phase diagram. The main part of the paper will be devoted to reviewing the literature on the optical properties of InSe under high pressure, especially the absorption experiments that led to the identification of the main optical transitions, and their assignment to specific features of the electronic structure, with the help of modern first-principles band structure calculations. In connection with these achievements we will also review relevant results on the lattice dynamical, dielectric, and transport properties of InSe, as they provided very useful supplementary information on the electronic structure of the material.
Crystal structure of the left-handed archaeal RadA helical filament: identification of a functional motif for controlling quaternary structures and enzymatic functions of RecA family proteins

The RecA family of proteins mediates homologous recombination, an evolutionarily conserved pathway that maintains genomic stability by protecting against DNA double strand breaks. RecA proteins are thought to facilitate DNA strand exchange reactions as closed-rings or as right-handed helical filaments. Here, we report the crystal structure of a left-handed Sulfolobus solfataricus RadA helical filament. Each protomer in this left-handed filament is linked to its neighbour via interactions of a β-strand polymerization motif with the neighbouring ATPase domain. Immediately following the polymerization motif, we identified an evolutionarily conserved hinge region (a subunit rotation motif) in which a 360° clockwise axial rotation accompanies stepwise structural transitions from a closed ring to the AMP–PNP right-handed filament, then to an overwound right-handed filament and finally to the left-handed filament. Additional structural and functional analyses of wild-type and mutant proteins confirmed that the subunit rotation motif is crucial for enzymatic functions of RecA family proteins. These observations support the hypothesis that RecA family protein filaments may function as rotary motors.
N-acetylcysteine improves group B streptococcus clearance in a rat model of chronic ethanol ingestion.

BACKGROUND Sepsis is the most common risk factor associated with acute respiratory distress syndrome (ARDS) and results in a 40-60% mortality rate due to respiratory failure. Furthermore, recent epidemiological studies have demonstrated that a history of alcohol abuse increases the risk of ARDS by 3.6-fold. More recently, group B streptococcus (GBS) infections in nonpregnant adults have been increasing, particularly in alcoholics where there is an increased risk of lobular invasion and mortality. We have shown in an established rat model that chronic ethanol ingestion impaired macrophage internalization of inactivated infectious particles in vitro and enhanced bidirectional protein flux across the alveolar epithelial-endothelial barriers, both of which were attenuated when glutathione precursors were added to the diet. We hypothesized that chronic ethanol ingestion would increase the risk of infection even though GBS is less pathogenic but that dietary N-acetylcysteine (NAC), a glutathione precursor, would improve in vivo clearance of infectious particles and reduce systemic infection. METHODS After 6 weeks of ethanol feeding, rats were given GBS intratracheally and sacrificed 24 hours later. GBS colony-forming units were counted in the lung, liver, spleen, and bronchoalveolar lavage fluid. Acute lung injury in response to GBS was also assessed. RESULTS Chronic ethanol exposure decreased GBS clearance from the lung indicating an active lung infection. In addition, increased colonies formed within the liver and spleen indicated that ethanol increased the risk of systemic infection. Ethanol also exacerbated the acute lung injury induced by GBS. NAC supplementation normalized GBS clearance by the lung, prevented the appearance of GBS systemically, and attenuated acute lung injury. CONCLUSIONS These data suggested that chronic alcohol ingestion increased the susceptibility of the lung to bacterial infections from GBS as well as systemic infections. Furthermore, dietary NAC improved in vivo clearance of GBS particles, attenuated acute lung injury, and disseminated infection.
Mechanical Ventilation and the Titer of Antibodies as Risk Factors for the Development of Transfusion-Related Lung Injury

Purpose. Onset of transfusion-related acute lung injury (TRALI) is suggested to be a threshold-event. Data is lacking on the relation between titer of antibodies infused and onset of TRALI. We determined whether onset of TRALI is dependent on the titer of MHC-I antibodies infused in a combined model of ventilator-induced lung injury and antibody-induced TRALl. Methods. BALB/c mice were ventilated for five hours with low (7.5 ml/kg) or high (15 ml/kg) tidal volume. After three hours of MV, TRALI was induced by infusion of 0.5 mg/kg, 2.0 mg/kg or 4.5 mg/kg MHC-I antibodies. Control animals received vehicle. After five hours of MV, animals were sacrificed. Results. MV with high tidal volumes resulted in increased levels of all markers of lung injury compared to animals ventilated with low tidal MV. In ventilator-induced lung injury, infusion of 4.5 mg/kg of antibodies further increased pulmonary wet-to-dry ratio, pulmonary neutrophil influx and pulmonary KC levels, whereas infusion of lower dose of antibodies did not augment lung injury. In contrast, mice ventilated with low tidal volumes did not develop lung injury, irrespective of the dose of antibody used. Conclusions. In the presence of injurious MV, onset of TRALI depends on the titer of antibodies infused.
Indexing hierarchical structures using graph spectra

Hierarchical image structures are abundant in computer vision and have been used to encode part structure, scale spaces, and a variety of multiresolution features. In this paper, we describe a framework for indexing such representations that embeds the topological structure of a directed acyclic graph (DAG) into a low-dimensional vector space. Based on a novel spectral characterization of a DAG, this topological signature allows us to efficiently retrieve a promising set of candidates from a database of models using a simple nearest-neighbor search. We establish the insensitivity of the signature to minor perturbation of graph structure due to noise, occlusion, or node split/merge. To accommodate large-scale occlusion, the DAG rooted at each nonleaf node of the query "votes" for model objects that share that "part," effectively accumulating local evidence in a model DAG's topological subspaces. We demonstrate the approach with a series of indexing experiments in the domain of view-based 3D object recognition using shock graphs.
MODOMICS: a database of RNA modification pathways

MODOMICS is the first comprehensive database resource for systems biology of RNA modification. It integrates information about the chemical structure of modified nucleosides, their localization in RNA sequences, pathways of their biosynthesis and enzymes that carry out the respective reactions. MODOMICS also provides literature information, and links to other databases, including the available protein sequence and structure data. The current list of modifications and pathways is comprehensive, while the dataset of enzymes is limited to Escherichia coli and Saccharomyces cerevisiae and sequence alignments are presented only for tRNAs from these organisms. RNAs and enzymes from other organisms will be included in the near future. MODOMICS can be queried by the type of nucleoside (e.g. A, G, C, U, I, m1A, nm5s2U, etc.), type of RNA, position of a particular nucleoside, type of reaction (e.g. methylation, thiolation, deamination, etc.) and name or sequence of an enzyme of interest. Options for data presentation include graphs of pathways involving the query nucleoside, multiple sequence alignments of RNA sequences and tabular forms with enzyme and literature data. The contents of MODOMICS can be accessed through the World Wide Web at .
A Multiscale Approach to Modelling Drug Metabolism by Membrane-Bound Cytochrome P450 Enzymes

Cytochrome P450 enzymes are found in all life forms. P450s play an important role in drug metabolism, and have potential uses as biocatalysts. Human P450s are membrane-bound proteins. However, the interactions between P450s and their membrane environment are not well-understood. To date, all P450 crystal structures have been obtained from engineered proteins, from which the transmembrane helix was absent. A significant number of computational studies have been performed on P450s, but the majority of these have been performed on the solubilised forms of P450s. Here we present a multiscale approach for modelling P450s, spanning from coarse-grained and atomistic molecular dynamics simulations to reaction modelling using hybrid quantum mechanics/molecular mechanics (QM/MM) methods. To our knowledge, this is the first application of such an integrated multiscale approach to modelling of a membrane-bound enzyme. We have applied this protocol to a key human P450 involved in drug metabolism: CYP3A4. A biologically realistic model of CYP3A4, complete with its transmembrane helix and a membrane, has been constructed and characterised. The dynamics of this complex have been studied, and the oxidation of the anticoagulant R-warfarin has been modelled in the active site. Calculations have also been performed on the soluble form of the enzyme in aqueous solution. Important differences are observed between the membrane and solution systems, most notably for the gating residues and channels that control access to the active site. The protocol that we describe here is applicable to other membrane-bound enzymes.
Gait analysis in prosthetics: Opinions, ideas and conclusions

A review was performed of the literature of the last eleven years (1990–2000) with the topic: “clinical use of instrumented gait analysis in patients wearing a prosthesis of the lower limb”. To this end a literature search was performed in Embase, Medline and Recal. Forty-five (45) articles were identified for study from which 34 were reviewed. The reviews were divided into five subtopics: 1) adaptive strategies in gait (12 studies); 2) the influence of different parts of the prosthesis on gait (12 studies); 3) pressure measurements in the socket in gait studies (4 studies); 4) the influence of the mass of the prostheses on gait (5 studies); 5) energy considerations in gait (2 studies). A considerable part of the studies concerned the adaptive strategies of the amputee in walking and running and the evaluation of different prosthetic feet. All aspects and outcomes were reviewed concerning the clinical relevance.
Cellular Meets WiFi: Traffic Offloading or Resource Sharing?

Traffic offloading and resource sharing are two common methods for delivering cellular data traffic over unlicensed bands. In this paper, we first develop a hybrid method to take full advantages of both traffic offloading and resource sharing methods, where cellular base stations (BSs) offload traffic to WiFi networks and simultaneously occupy certain number of time slots on unlicensed bands. Then, we analytically compare the cellular throughput of the three methods with the guarantee of WiFi per-user throughput in the single-BS scenario. We find that traffic offloading can achieve better performance than resource sharing when existing WiFi user number is below a threshold and the hybrid method achieves the same performance as the resource sharing method when existing WiFi user number is large enough. In the multi-BS scenario where the coverage of small cells and WiFi access points are mutually overlapped, we consider to maximize the minimum average per-user throughput of each small cell and derive a closed-form expression for the throughput upper bound in each method. Meanwhile, practical traffic offloading and resource sharing algorithms are also developed for the three methods, respectively. Numerical results validate our theoretical analysis and demonstrate the effectiveness of the proposed algorithms as well.
Expertise Development With Different Types of Automation

Objective: I explored whether different cognitive abilities (information-processing ability, working-memory capacity) are needed for expertise development when different types of automation (information vs. decision automation) are employed. Background: It is well documented that expertise development and the employment of automation lead to improved performance. Here, it is argued that a learner’s ability to reason about an activity may be hindered by the employment of information automation. Additional feedback needs to be processed, thus increasing the load on working memory and decelerating expertise development. By contrast, the employment of decision automation may stimulate reasoning, increase the initial load on information-processing ability, and accelerate expertise development. Authors of past research have not investigated the interrelations between automation assistance, individual differences, and expertise development. Method: Sixty-one naive learners controlled simulated air traffic with two types of automation: information automation and decision automation. Their performance was captured across 16 trials. Well-established tests were used to assess information-processing ability and working-memory capacity. Results: As expected, learners’ performance benefited from expertise development and decision automation. Furthermore, individual differences moderated the effect of the type of automation on expertise development: The employment of only information automation increased the load on working memory during later expertise development. The employment of decision automation initially increased the need to process information. Conclusion: These findings highlight the importance of considering individual differences and expertise development when investigating human–automation interaction. Application: The results are relevant for selecting automation configurations for expertise development.
Channels in Martian valley networks: Discharge and runoff production

The highland valley networks are perhaps the most compelling evidence for widespread fluvial activity on Mars . 3.5 Ga. However, determining the hydrology of these features has been difficult owing to poor image resolution and the lack of available topographic data. New orbital imaging reveals 21 late-stage channels within valley networks, which we use to estimate formative discharges and to evaluate water supply mechanisms. We find that channel width and associated formative discharge are comparable to terrestrial valley networks of similar area and relief. For 15 narrow channels in basin-filling networks, likely episodic runoff production rates up to centimeters per day and first-order formative discharges of ;300‐3000 m 3 /s are similar to terrestrial floods supplied by precipitation. Geothermal melting of ground ice would produce discharges ;100 times smaller per unit area and would require pulsed outbursts to form the channels. In four large valleys with few tributaries, wider channels may represent large subsurface outflows or paleolake overflows, as these four channels originate at breached basin divides and/or near source regions for the catastrophic outflow channels.
Rapid, parallel path planning by propagating wavefronts of spiking neural activity

Efficient path planning and navigation is critical for animals, robotics, logistics and transportation. We study a model in which spatial navigation problems can rapidly be solved in the brain by parallel mental exploration of alternative routes using propagating waves of neural activity. A wave of spiking activity propagates through a hippocampus-like network, altering the synaptic connectivity. The resulting vector field of synaptic change then guides a simulated animal to the appropriate selected target locations. We demonstrate that the navigation problem can be solved using realistic, local synaptic plasticity rules during a single passage of a wavefront. Our model can find optimal solutions for competing possible targets or learn and navigate in multiple environments. The model provides a hypothesis on the possible computational mechanisms for optimal path planning in the brain, at the same time it is useful for neuromorphic implementations, where the parallelism of information processing proposed here can fully be harnessed in hardware.
Increased Macrosomia and Perinatal Morbidity Independent of Maternal Obesity and Advanced Age in Korean Women With GDM

OBJECTIVE To examine the impact of gestational diabetes mellitus(GDM) on perinatal outcome in a setting where influences of maternal age and obesity would be minimal. RESEARCH DESIGN AND METHODS A case-control study was done to compare the outcome of pregnancy in 65 women with GDM and 153 women with normal carbohydrate metabolism matched for age, height, and prepregnancy weight. RESULTS The frequencies of preeclampsia and primary cesarean sections were higher and delivery was earlier in pregnancies complicated by GDM. Birth weight, symmetry index, and chest circumference were greater, and macrosomia and need for phototherapy were more common in offspring of mothers with GDM. Cord-serum C-peptide and insulin concentrations were higher in the infants of mothers with GDM and were strongly correlated with birth weight and symmetry index. However, maternal age, prepregnancy weight, and prepregnancy BMI were not correlated with birth weight. Postprandial glucose levels during the first 2 weeks after diagnosis of GDM had associations with the infants' birth weight, symmetry index, and cord insulin concentration in the diet-treated patients with GDM. CONCLUSIONS Antepartum maternal glucose metabolism was significantly associated with fetal hyperinsulinemia and excessive fetal growth in relatively nonobese Korean women. These findings support a direct role for metabolic factors in the adverse outcomes in pregnancies complicated by GDM.