Miracle-dz/UniFAR-FTUs huggingface dataset:
Environmentally Determined Differences in the Murine Lung Microbiota and Their Relation to Alveolar Architecture

Commensal bacteria control the micro-ecology of metazoan epithelial surfaces with pivotal effect on tissue homeostasis and host defense. In contrast to the upper respiratory tract, the lower respiratory tract of healthy individuals has largely been considered free of microorganisms. To understand airway micro-ecology we studied microbiota of sterilely excised lungs from mice of different origin including outbred wild mice caught in the natural environment or kept under non-specific-pathogen-free (SPF) conditions as well as inbred mice maintained in non-SPF, SPF or germ-free (GF) facilities. High-throughput pyrosequencing of reverse transcribed 16S rRNA revealed metabolically active murine lung microbiota in all but GF mice. The overall composition across samples was similar at the phylum and family level. However, species richness was significantly different between lung microbiota from SPF and non-SPF mice. Non-cultivatable Betaproteobacteria such as Ralstonia spp. made up the major constituents and were also confirmed by 16S rRNA gene cloning analysis. Additionally, Pasteurellaceae, Enterobacteria and Firmicutes were isolated from lungs of non-SPF mice. Bacterial communities were detectable by fluorescent in situ hybridization (FISH) at alveolar epithelia in the absence of inflammation. Notably, higher bacterial abundance in non-SPF mice correlated with more and smaller size alveolae, which was corroborated by transplanting Lactobacillus spp. lung isolates into GF mice. Our data indicate a common microbial composition of murine lungs, which is diversified through different environmental conditions and affects lung architecture. Identification of the microbiota of murine lungs will pave the path to study their influence on pulmonary immunity to infection and allergens using mouse models.
Assessment of clinical improvement and quality of life before and after tonsillectomy

Abstract Objective: To assess clinical improvement and quality of life measures in patients who had undergone tonsillectomy for recurrent acute and chronic tonsillitis between March 2004 and March 2005. Method: A retrospective survey of all adults and children who had undergone tonsillectomy for recurrent acute and chronic tonsillitis. Patients were asked to compare their symptoms for the 12-month period before and after tonsillectomy. Results: A review of 100 patients revealed that, following tonsillectomy: their days off work (or school) due to sore throat reduced by 95.3 per cent (from a mean of 27.6 to 1.3 days; confidence intervals 89.7 and 99.6 per cent); their visits to their general practitioner due to sore throat reduced by 95.6 per cent (from a mean of 7.9 to 0.4 visits; confidence intervals 93.8 and 95.1 per cent); and more than 90 per cent reported improved feelings of well-being, general health and energy. Conclusion: We conclude that tonsillectomy is of benefit for patients with recurrent acute and chronic tonsillitis. Tonsillectomy significantly reduced general practitioner attendances and resulted in an improved feeling of health and well-being.
Classification Framework of MapReduce Scheduling Algorithms

A MapReduce scheduling algorithm plays a critical role in managing large clusters of hardware nodes and meeting multiple quality requirements by controlling the order and distribution of users, jobs, and tasks execution. A comprehensive and structured survey of the scheduling algorithms proposed so far is presented here using a novel multidimensional classification framework. These dimensions are (i) meeting quality requirements, (ii) scheduling entities, and (iii) adapting to dynamic environments; each dimension has its own taxonomy. An empirical evaluation framework for these algorithms is recommended. This survey identifies various open issues and directions for future research.
Constrictor and Dilator Effects of Angiotensin II on Cerebral Arterioles

Background and Purpose— In light of the equivocal data on the cerebral vasoconstrictor and vasodilator actions of angiotensin II (Ang II) and the potential clinical importance of this, we investigated the effects of Ang II on rat pial arterioles. Methods— We determined the effect of Ang I (3.10−6 mol/L) in the absence and presence of the converting enzyme inhibitor, captopril (10−5 mol/L) in cerebral arterioles of male Wistar rats (open-skull preparation), and those of Ang II (3.10−12 to 3.10−6 mol/L) in the absence and presence of the Ang II receptor (AT1) antagonist, telmisartan (10−5 mol/L) or the AT2 antagonist, PD123319 (10−5 mol/L). We examined the effect of PD123319 (10−5 mol/L) and the Ca2+-activated K+ (BKCa) channel blocker, tetraethylammonium (10−4 mol/L) on the Ang II responses in the presence of telmisartan (10−5 mol/L). Results— Ang II-induced dose-dependent constriction with a maximum decrease of −20.1±1.0% at 10−6 mol/L. Captopril significantly decreased Ang I-induced vasoconstriction (−4.0±0.9 versus −21.3±2.5%; n=4). Telmisartan reversed Ang II-induced vasoconstriction (9.5±2.5 versus −20.1±1% at 10−6 mol/L; n=5). PD123319 significantly increased Ang II-induced vasoconstriction (−12.9±0.8 versus −10.2±0.4% at 10−6 mol/L; n=5). PD123319 abolished (−2.6±0.7 versus 9.3±1.1% at 10−6 mol/L; n=5) whereas tetraethylammonium reversed (−12.1±1.6 versus 9.9±1.0% at 10−6 mol/L; n=4) Ang II-induced vasodilatation in the presence of telmisartan. Conclusion— Angiotensin is converted locally into Ang II; the overall effect of Ang II is vasoconstrictor following stimulation of the AT1 receptor, but a vasodilator response can be evoked following stimulation of the AT2 receptor and activation of BKCa.
Disrupted in schizophrenia 1 and synaptic function in the mammalian central nervous system

The disrupted in schizophrenia 1 (DISC1) gene is found at the breakpoint of an inherited chromosomal translocation, and segregates with major mental illnesses. Its potential role in central nervous system (CNS) malfunction has triggered intensive investigation of the biological roles played by DISC1, with the hope that this may shed new light on the pathobiology of psychiatric disease. Such work has ranged from investigations of animal behavior to detailed molecular‐level analysis of the assemblies that DISC1 forms with other proteins. Here, we discuss the evidence for a role of DISC1 in synaptic function in the mammalian CNS.
High-SNR power offset in multiantenna communication

The analysis of the multiple-antenna capacity in the high-SNR regime has hitherto focused on the high-SNR slope (or maximum multiplexing gain), which quantifies the multiplicative increase as a function of the number of antennas. This traditional characterization is unable to assess the impact of prominent channel features since, for a majority of channels, the slope equals the minimum of the number of transmit and receive antennas. Furthermore, a characterization based solely on the slope captures only the scaling but it has no notion of the power required for a certain capacity. This paper advocates a more refined characterization whereby, as a function of SNR|/sub dB/, the high-SNR capacity is expanded as an affine function where the impact of channel features such as antenna correlation, unfaded components, etc., resides in the zero-order term or power offset. The power offset, for which we find insightful closed-form expressions, is shown to play a chief role for SNR levels of practical interest.
Impact of Improved Glycemic Control on Cardiac Function in Type 2 Diabetes Mellitus

Background—Patients with type 2 diabetes mellitus are at risk of heart failure. Specific therapeutic interventions for diabetic heart disease are still elusive. We aimed to examine the impact of improved glycemic control on left ventricular (LV) function in these patients. Methods and Results—A total of 105 subjects with type 2 diabetes mellitus (aged 54±10 years) and poor glycemic control received optimization of treatment for blood glucose, blood pressure, and cholesterol to recommended targets for 12 months. LV systolic and diastolic function, measured by LV global longitudinal strain (GLS) and septal e′ velocities, were compared before and after optimization. At baseline, patients had impaired LV systolic (GLS −14.9±3.2%) and diastolic function (e′ 6.2±1.7 cm/s). After 12 months, glycated hemoglobin (HbA1c) decreased from 10.3±2.4% to 8.3±2.0%, which was associated with significant relative improvement in GLS of 21% and septal e′ of 24%. There was a progressively greater improvement in GLS as patients achieved a lower final HbA1c. Patients achieving an HbA1c of <7.0% had the largest improvement. The 15 patients whose HbA1c worsened experienced a decline in GLS. Patients who improved their HbA1c by ≥1.0% had a significantly higher relative improvement in e′ than those who did not (32% versus 8%; P=0.003). Baseline GLS, decrease in body mass index, and treatment with metformin were additional independent predictors of GLS improvement. Conclusions—Improvements in glycemic control over a 12-month period led to improvements in LV systolic and diastolic function. This may have long-term prognostic implications.
Universal proximity effect in target search kinetics in the few-encounter limit

When does a diffusing particle reach its target for the first time? This first-passage time (FPT) problem is central to the kinetics of molecular reactions in chemistry and molecular biology. Here we explain the behavior of smooth FPT densities, for which all moments are finite, and demonstrate universal yet generally non-Poissonian long-time asymptotics for a broad variety of transport processes. While Poisson-like asymptotics arise generically in the presence of an effective repulsion in the immediate vicinity of the target, a time-scale separation between direct and reflected indirect trajectories gives rise to a universal proximity effect: Direct paths, heading more or less straight from the point of release to the target, become typical and focused, with a narrow spread of the corresponding first passage times. Conversely, statistically dominant indirect paths exploring the system size tend to be massively dissimilar. The initial distance to the target particularly impacts gene regulatory or competitive stochastic processes, for which often few binding events determine the regulatory outcome. The proximity effect is independent of details of the transport, highlighting the robust character of the FPT features uncovered here.
Optimal Hashing-based Time-Space Trade-offs for Approximate Near Neighbors

[See the paper for the full abstract. ] We show tight upper and lower bounds for time-space trade-offs for the $c$-Approximate Near Neighbor Search problem. For the $d$-dimensional Euclidean space and $n$-point datasets, we develop a data structure with space $n^{1 + \rho_u + o(1)} + O(dn)$ and query time $n^{\rho_q + o(1)} + d n^{o(1)}$ for every $\rho_u, \rho_q \geq 0$ such that: \begin{equation} c^2 \sqrt{\rho_q} + (c^2 - 1) \sqrt{\rho_u} = \sqrt{2c^2 - 1}. \end{equation} This is the first data structure that achieves sublinear query time and near-linear space for every approximation factor $c > 1$, improving upon [Kapralov, PODS 2015]. The data structure is a culmination of a long line of work on the problem for all space regimes; it builds on Spherical Locality-Sensitive Filtering [Becker, Ducas, Gama, Laarhoven, SODA 2016] and data-dependent hashing [Andoni, Indyk, Nguyen, Razenshteyn, SODA 2014] [Andoni, Razenshteyn, STOC 2015]. Our matching lower bounds are of two types: conditional and unconditional. First, we prove tightness of the whole above trade-off in a restricted model of computation, which captures all known hashing-based approaches. We then show unconditional cell-probe lower bounds for one and two probes that match the above trade-off for $\rho_q = 0$, improving upon the best known lower bounds from [Panigrahy, Talwar, Wieder, FOCS 2010]. In particular, this is the first space lower bound (for any static data structure) for two probes which is not polynomially smaller than the one-probe bound. To show the result for two probes, we establish and exploit a connection to locally-decodable codes.
Shift-Reduce CCG Parsing

CCGs are directly compatible with binary-branching bottom-up parsing algorithms, in particular CKY and shift-reduce algorithms. While the chart-based approach has been the dominant approach for CCG, the shift-reduce method has been little explored. In this paper, we develop a shift-reduce CCG parser using a discriminative model and beam search, and compare its strengths and weaknesses with the chart-based C&C parser. We study different errors made by the two parsers, and show that the shift-reduce parser gives competitive accuracies compared to C&C. Considering our use of a small beam, and given the high ambiguity levels in an automatically-extracted grammar and the amount of information in the CCG lexical categories which form the shift actions, this is a surprising result.
Forecast Evaluation and Combination

It is obvious that forecasts are of great importance and widely used in economics and finance. Quite simply, good forecasts lead to good decisions. The importance of forecast evaluation and combination techniques follows immediately -- forecast users naturally have a keen interest in monitoring and improving forecast performance. More generally, forecast evaluation figures prominently in many questions in empirical economics and finance. We provide selective account of forecast evaluation and combination methods. First we discuss evaluation of a single forecast, and in particular, evaluation of whether and how it may be improved. Second, we discuss the evaluation and comparison of the accuracy of competing forecasts. Third, we discuss whether and how a set of forecasts may be combined to produce a superior composite forecast. Fourth, we describe a number of forecast evaluation topics of particular relevance in economics and finance, including methods for evaluating direction-of-change forecasts, probability forecasts and volatility forecasts.
Healthcare Professionals' Experiences With EHR-System Access Control Mechanisms

Access control mechanisms might influence on the information seeking and documentation behavior of clinicians. In this study, we have surveyed healthcare professionals in nursing homes and hospitals on their attitudes to, and experiences with using access control mechanisms. In some situations, the access control mechanisms of the EHR system made clinicians postpone documentation work. Their practice of reading what others have documented was also influenced. Not all clinicians logged out of the system when they left a workstation, and some clinicians reported to do some of their documentation work in the name of others. The reported practices might have implications for the safety of the patient.
A longitudinal study of structural brain network changes with normal aging

The aim of this study was to investigate age-related changes in the topological organization of structural brain networks by applying a longitudinal design over 6 years. Structural brain networks were derived from measurements of regional gray matter volume and were constructed in age-specific groups from baseline and follow-up scans. The structural brain networks showed economical small-world properties, providing high global and local efficiency for parallel information processing at low connection costs. In the analysis of the global network properties, the local and global efficiency of the baseline scan were significantly lower compared to the follow-up scan. Moreover, the annual rate of change in local and global efficiency showed a positive and negative quadratic correlation with the baseline age, respectively; both curvilinear correlations peaked at approximately the age of 50. In the analysis of the regional nodal properties, significant negative correlations between the annual rate of change in nodal strength and the baseline age were found in the brain regions primarily involved in the visual and motor/control systems, whereas significant positive quadratic correlations were found in the brain regions predominately associated with the default-mode, attention, and memory systems. The results of the longitudinal study are consistent with the findings of our previous cross-sectional study: the structural brain networks develop into a fast distribution from young to middle age (approximately 50 years old) and eventually became a fast localization in the old age. Our findings elucidate the network topology of structural brain networks and its longitudinal changes, thus enhancing the understanding of the underlying physiology of normal aging in the human brain.
In vitro antibacterial spectrum of a new broad-spectrum 8-methoxy fluoroquinolone, gatifloxacin.

The in vitro antibacterial spectrum of gatifloxacin was compared with those of ciprofloxacin and ofloxacin. Gatifloxacin was two- to four-fold more potent than comparator quinolones against staphylococci, streptococci, pneumococci and enterococci (gatifloxacin MIC90s, < or =1 mg/L, except 4 mg/L against methicillin-resistant Staphylococcus aureus and Enterococcus faecium). Gatifloxacin was two-fold less potent than ciprofloxacin, and the same as or two-fold more potent than ofloxacin against Enterobacteriaceae (MIC90s, 0.06-0.5 mg/L against most members of the Enterobacteriaceae and < or =1 mg/L against Proteus/Morganella spp.). Relative to the comparator quinolones, gatifloxacin was two- to four-fold more potent against Providencia spp. , and had good potency against Acinetobacter spp. (MIC90s, 0.25-1 mg/L). Gatifloxacin and ofloxacin had similar anti-pseudomonal potency, with corresponding MIC90s of 4, 8 and 0.25 mg/L for Pseudomonas aeruginosa, Pseudomonas fluorescens and Pseudomonas stutzeri, while ciprofloxacin had two- to eight-fold more potency. The three quinolones were equipotent against Burkholderia cepacia (MIC90s, 8 mg/L), but gatifloxacin was two-fold more potent against Stenotrophomonas maltophilia (MIC90, 4 mg/L). Gatifloxacin was highly potent (MIC90s, 0.03-0.06 mg/L) against Haemophilus influenzae, Legionella spp. , Helicobacter pylori and had at least eight-fold better anti-chlamydial and anti-mycoplasma potency (gatifloxacin MIC90s, 0.13 mg/L). The higher quinolone MICs for ureaplasma (MIC90s, 4-8 mg/L) may be due to the acidic pH of the ureaplasma test medium, which antagonizes quinolones. Like other quinolones, gatifloxacin had poor potency against Mycobacterium avium-intracellulare, though it was eight- to 16-fold more potent against Mycobacterium tuberculosis (MIC90, 0.25 mg/L). Of the three quinolones, only gatifloxacin had activity against Bacteroides fragilis and Clostridium difficile. In summary, gatifloxacin is a broad-spectrum 8-methoxy fluoroquinolone that is more potent than ciprofloxacin and ofloxacin against Gram-positive bacteria, chlamydia, mycoplasma, mycobacteria and anaerobes.
Paracrine Factors of Mesenchymal Stem Cells Recruit Macrophages and Endothelial Lineage Cells and Enhance Wound Healing

Bone marrow derived mesenchymal stem cells (BM-MSCs) have been shown to enhance wound healing; however, the mechanisms involved are barely understood. In this study, we examined paracrine factors released by BM-MSCs and their effects on the cells participating in wound healing compared to those released by dermal fibroblasts. Analyses of BM-MSCs with Real-Time PCR and of BM-MSC-conditioned medium by antibody-based protein array and ELISA indicated that BM-MSCs secreted distinctively different cytokines and chemokines, such as greater amounts of VEGF-α, IGF-1, EGF, keratinocyte growth factor, angiopoietin-1, stromal derived factor-1, macrophage inflammatory protein-1alpha and beta and erythropoietin, compared to dermal fibroblasts. These molecules are known to be important in normal wound healing. BM-MSC-conditioned medium significantly enhanced migration of macrophages, keratinocytes and endothelial cells and proliferation of keratinocytes and endothelial cells compared to fibroblast-conditioned medium. Moreover, in a mouse model of excisional wound healing, where concentrated BM-MSC-conditioned medium was applied, accelerated wound healing occurred compared to administration of pre-conditioned or fibroblast-conditioned medium. Analysis of cell suspensions derived from the wound by FACS showed that wounds treated with BM-MSC-conditioned medium had increased proportions of CD4/80-postive macrophages and Flk-1-, CD34- or c-kit-positive endothelial (progenitor) cells compared to wounds treated with pre-conditioned medium or fibroblast-conditioned medium. Consistent with the above findings, immunohistochemical analysis of wound sections showed that wounds treated with BM-MSC-conditioned medium had increased abundance of macrophages. Our results suggest that factors released by BM-MSCs recruit macrophages and endothelial lineage cells into the wound thus enhancing wound healing.
Microstructure–properties relationships in martensitic stainless steel resistance spot welds

The paper addresses the phase transformations and mechanical response of martensitic stainless steel resistance spot welds. The fusion zone microstructure consists of carbon-rich martensite together with a relatively high amount of retained delta ferrite along the grain boundaries with a transition in solidification mode from equiaxed to columnar dendritic grains across the fusion zone. The heat affected zone microstructure is featured by martensitic matrix together with carbide precipitation. The very high hardness of the fusion zone and the heat affected zone, the sharpness of the notch at sheet/sheet interface, which is located in the hard microstructural zone, and the presence of delta ferrite in the weld nugget play important roles in failure characteristics and mechanical performance of the joint.
Seasonal Prevalence of Aedes aegypti and Ae.albopictus in Three Topographical Areas of Southern Thailand

This study investigated the seasonal prevalence of Aedes aegypti and Ae. albopictus larvae in three topographical areas (i.e. mangrove, rice paddy and mountainous areas). Samples were collected from 300 households in both wet and dry seasons in nine districts in Nakhon Si Thammarat province. Ae. aegypti and Ae. albopictus were found in 21 out of 29 types of water containers in mangrove, rice paddy and mountainous areas. Ae. aegypti and Ae. albopictus laid eggs in different container types depending on season and topographical areas. Ae. aegypti larvae were found most in metal box in mangrove and mountainous areas in wet season. Ae. albopictus larvae were also found most in metal box in mangrove and mountainous areas in both wet and dry seasons. All Ae. albopictus larval indices were higher than Ae. aegypti larval indices in all three topographical areas and both seasons. HI and BI did not differ in three topographical areas but differed between Aedes sp. HI for both Ae. aegypti and Ae. albopictus in all three topographical areas in both seasons were greater than 10 %, except Aedes aegypti in rice paddy area in wet season. This indicated high risks of DHF transmission in these areas. Keywords—Aedes aegypti, Aedes albopictus, Season,