Miracle-dz/UniFAR-FTUs huggingface dataset:
Prevention of alveolar osteitis after third molar surgery: Comparative study of the effect of warm saline and chlorhexidine mouth rinses

Background: Chlorhexidine mouth rinses have a proven efficacy for the prevention of alveolar osteitis after third molar surgery. This study compares the efficacy of warm saline rinse, a component of postextraction instructions, with that of chlorhexidine in our institution over a period of 2 years. Patients and Methods: Apparently healthy patients who were referred to the Oral Surgery Clinic of our institution, with an indication for surgical extraction of lower third molar were prospectively, consecutively, and uniformly randomized into warm saline and chlorhexidine groups. The experimental group (n = 50/100) were instructed to gargle twice daily with warm saline, whereas the chlorhexidine group (n = 50/100) were instructed to gargle with 0.12% chlorhexidine. Information on demographic, types and level of impaction, indications for extraction, and development of alveolar osteitis were obtained and analyzed. Comparative statistics were done using Pearson's Chi-square, Fisher's exact, or Mann–Whitney U-tests as appropriate. P <0.05 was considered statistically significant. Results: The demographic, types and level of impaction as well as indications for extractions were comparable between the study groups (P > 0.05). The overall prevalence of alveolar osteitis was 5%. There was no statistically significant difference between application of warm saline and 0.12% chlorhexidine rinse with respect to the development of alveolar osteitis (P = 0.648). Conclusion: Warm saline mouth rinse is equally as effective as chlorhexidine mouth rinse, as prophylaxis against prevention of alveolar osteitis after third molar surgery.
Whole-Plant Dynamic System of Nitrogen Use for Vegetative Growth and Grain Filling in Rice Plants (Oryza sativa L.) as Revealed through the Production of 350 Grains from a Germinated Seed Over 150 Days: A Review and Synthesis

A single germinated rice (Oryza sativa L) seed can produce 350 grains with the sequential development of 15 leaves on the main stem and 7–10 leaves on four productive tillers (forming five panicles in total), using nitrogen (N) taken up from the environment over a 150-day growing season. Nitrogen travels from uptake sites to the grain through growing organ-directed cycling among sequentially developed organs. Over the past 40 years, the dynamic system for N allocation during vegetative growth and grain filling has been elucidated through studies on N and 15N transport as well as enzymes and transporters involved. In this review, we synthesize the information obtained in these studies along the following main points: (1) During vegetative growth before grain-filling, about half of the total N in the growing organs, including young leaves, tillers, root tips and differentiating panicles is supplied via phloem from mature source organs such as leaves and roots, after turnover and remobilization of proteins, whereas the other half is newly taken up and supplied via xylem, with an efficient xylem-to-phloem transfer at stem nodes. Thus, the growth of new organs depends equally on both N sources. (2) A large fraction (as much as 80%) of the grain N is derived largely from mature organs such as leaves and stems by degradation, including the autophagy pathway of chloroplast proteins (e.g., Rubisco). (3) Mobilized proteinogenic amino acids (AA), including arginine, lysine, proline and valine, are derived mainly from protein degradation, with AA transporters playing a role in transferring these AAs across cell membranes of source and sink organs, and enabling their efficient reutilization in the latter. On the other hand, AAs such as glutamine, glutamic acid, γ-amino butyric acid, aspartic acid, and alanine are produced by assimilation of newly taken up N by roots and and transported via xylem and phloem. The formation of 350 filled grains over 50 days during the reproductive stage is ascribed mainly to degradation and remobilization of the reserves, previously accumulated over 100 days in the sequentially developed vegetative organs.
Bacterial Community Structure and Diversity in a Century-Old Manure-Treated Agroecosystem

ABSTRACT Changes in soil microbial community structure and diversity may reflect environmental impact. We examined 16S rRNA gene fingerprints of bacterial communities in six agroecosystems by PCR amplification and denaturing gradient gel electrophoresis (PCR-DGGE) separation. These soils were treated with manure for over a century or different fertilizers for over 70 years. Bacterial community structure and diversity were affected by soil management practices, as evidenced by changes in the PCR-DGGE banding patterns. Bacterial community structure in the manure-treated soil was more closely related to the structure in the untreated soil than that in soils treated with inorganic fertilizers. Lime treatment had little effect on bacterial community structure. Soils treated with P and N-P had bacterial community structures more closely related to each other than to those of soils given other treatments. Among the soils tested, a significantly higher number of bacterial ribotypes and a more even distribution of the bacterial community existed in the manure-treated soil. Of the 99 clones obtained from the soil treated with manure for over a century, two (both Pseudomonas spp.) exhibited 100% similarity to sequences in the GenBank database. Two of the clones were possible chimeras. Based on similarity matching, the remaining 97 clones formed six major clusters. Fifty-six out of 97 were assigned taxonomic units which grouped into five major taxa: α-, β-, and γ-Proteobacteria (36 clones), Acidobacteria (16 clones), Bacteroidetes (2 clones), Nitrospirae (1 clone), and Firmicutes (1 clone). Forty-one clones remained unclassified. Results from this study suggested that bacterial community structure was closely related to agroecosystem management practices conducted for over 70 years.
Statistical Applications in Genetics and Molecular Biology Bayesian Learning from Marginal Data in Bionetwork Models

In studies of dynamic molecular networks in systems biology, experiments are increasingly exploiting technologies such as flow cytometry to generate data on marginal distributions of a few network nodes at snapshots in time. For example, levels of intracellular expression of a few genes, or cell surface protein markers, can be assayed at a series of interim time points and assumed steady-states under experimentally stimulated growth conditions in small cellular systems. Such marginal data on a small number of cellular markers will typically carry very limited information on the parameters and structure of dynamic network models, though experiments will typically be designed to expose variation in cellular phenotypes that are inherently related to some aspects of model parametrization and structure. Our work addresses statistical questions of how to integrate such data with dynamic stochastic models in order to properly quantify the information—or lack of information—it carries relative to models assumed. We present a Bayesian computational strategy coupled with a novel approach to summarizing and numerically characterizing biological phenotypes that are represented in terms of the resulting sample distributions of cellular markers. We build on Bayesian simulation methods and mixture modeling to define the approach to linking mechanistic mathematical models of network dynamics to snapshot data, using a toggle switch example integrating simulated and real data as context.
Forest herbicide effects on pacific northwest ecosystems: A literature review

The use of silvicultural herbicides to control competing vegetation has evolved over the past 75 years and has become an integral component of today’s forestry management practices. Although the direct effects of herbicides on non-target biota are generally well understood and documented, comparatively little information is available on indirect and long-term (more than five years) effects. This review summarizes extant scientific literature by providing brief synopses of the direct effects of forest herbicides on plant and animal communities, but primarily emphasizes the indirect effects to wildlife in the Pacific Northwest. Herbicides increase survival and growth of crop trees and are effective at controlling target vegetation. Many studies have shown that herbicides have low toxicity to wildlife, tend to dissipate quickly, have limited mobility (rapidly fixed in environments), and do not bioaccumulate. Forest herbicides can enter aquatic ecosystems via accidental runoff or drift, but this riparian contact is minimized through the use of vegetation buffers, drift prediction models, application timing, and droplet size. When herbicides are applied at recommended rates in managed forests, direct toxic effects on wildlife and fish are not expected. Based on general measures of vegetation composition and structure, plant communities found in intensively managed forests recover quickly following chemical treatment (typically within two to three years). Wildlife responses to vegetation changes induced by herbicides at a stand level tend to be speciesand site-specific, with timing of wildlife community recovery linked directly to the pace of vegetation recovery. Indirect effects of herbicides on wildlife associated with habitat modification depend on a variety of factors, including composition of the wildlife and vegetation communities, herbicide characteristics, application rates, treatment, and timing. Soil microbial communities and nutrient availability can be affected by herbicide treatments, potentially influencing nutrient cycling. Suggested future research topics include long-term indirect effects and shifts in plant community structure at both landscape scales and ecosystem levels; effects of herbicides (at field application rates) on underrepresented taxa (especially amphibians and reptiles); and effects of constantly evolving formulations and tank mixes (including adjuvants and surfactants).
Exploring Flickr's related tags for semantic annotation of web images

Exploring social media resources, such as Flickr and Wikipedia to mitigate the difficulty of semantic gap has attracted much attention from both academia and industry. In this paper, we first propose a novel approach to derive semantic correlation matrix from Flickr's related tags resource. We then develop a novel conditional random field model for Web image annotation, which integrates the keyword correlations derived from Flickr, and the textual and visual features of Web images into an unified graph model to improve the annotation performance. The experimental results on real Web image data set demonstrate the effectiveness of the proposed keyword correlation matrix and the Web image annotation approach.
An empirical study on the developers' perception of software coupling

Coupling is a fundamental property of software systems, and numerous coupling measures have been proposed to support various development and maintenance activities. However, little is known about how developers actually perceive coupling, what mechanisms constitute coupling, and if existing measures align with this perception. In this paper we bridge this gap, by empirically investigating how class coupling - as captured by structural, dynamic, semantic, and logical coupling measures - aligns with developers' perception of coupling. The study has been conducted on three Java open-source systems - namely ArgoUML, JHotDraw and jEdit - and involved 64 students, academics, and industrial practitioners from around the world, as well as 12 active developers of these three systems. We asked participants to assess the coupling between the given pairs of classes and provide their ratings and some rationale. The results indicate that the peculiarity of the semantic coupling measure allows it to better estimate the mental model of developers than the other coupling measures. This is because, in several cases, the interactions between classes are encapsulated in the source code vocabulary, and cannot be easily derived by only looking at structural relationships, such as method calls.
Power in partnership? An analysis of an NGO's relationships with its partners

This article analyses partnership relationships between NGOs and donors. Using a framework adapted from Dahl (1957) to explore issues of power in the relationships of a US-based development NGO, it questions whether the current emphasis on organizational partnership is useful or whether in practice and in theory greater recognition should be given to the importance of individual relationships. It examines whether asymmetrical relationships can be termed partnerships and highlights the potential for such a discourse to reinforce existing power inequalities. Reproduced by permission of London School of Economics
An improved sentiment analysis algorithm for Chinese news

In recent years, news sentiment analysis is a hotspot in the field of natural language processing, and it is also a challenging problem. Methods based on semantic direction almost only consider polarity of emotion words of every sentence in news. We present an improved news sentiment analysis method. It divides news sentiment analysis into title sentiment analysis and text sentiment analysis. For the title, we use our rule set to process. For the text, we use an algorithm of subjective sentences recognition and an algorithm of subject word recognition to analyze the sentiment of Chinese news. We call the proposed method is Improved Sentiment Analysis (ISA). Experimental data shows that the proposed method improves the accuracy of news sentiment analysis.
Multispectral biometric sensor

The biometric measurement system includes a platen, a light source, a light detector, and a controller. The controller interfaces with the light source and the photodetector. The controller has instructions for illuminating the target skin site under different optical conditions during a single lighting session as the individual target skin site moves over the platen. Yes. The controller can also generate a target from light received by the photodetector after being scattered from the target skin site for a number of different optical conditions as the individual target skin site moves over the platen. It also has instructions for deriving a multispectral image of the skin area.
Non-Darcy porous media flow in no-slip and slip regimes

In this paper lattice-Boltzmann equation method is used to simulate non-Darcy flow in porous media. 2-D in-line and staggered arrangements of uniform cylinders have been considered. The results of a comprehensive computational evaluation are reported: the range of validity of Darcy-Forchheimer equation is investigated and correlations for macroscopic transport properties are presented (i. e., for the permeability and the inertial parameter). Our investigation covers both no-slip and the slip-flow regimes.
Designing a novel linear‐time graph kernel for semantic link network

Graph is an efficient tool for representing structured data such as proteins, molecular compounds, and social networks. Graph kernel is a technique to measure the similarity between graphs. However, existing graph kernels still have several limitations: (1) semantics on link is ignored; (2) node is associated with single label; (3) most graph kernels require more than cubic time, which is still computationally expensive; and, (4) there is seldom consideration of handling the graph comparison when the number of node types becomes huge. In this paper, we utilize semantic link network (SLN) to represent complex structured data with richer semantic information. Topic model is employed for dimension reduction and tagging each node with multiple labels. And a novel linear‐time graph kernel for SLN is designed to calculate the similarity between two SLNs. This work remedies the limitations of the conventional graph kernels. The effectiveness and efficiency of this approach are evaluated by the document classification task on public corpora. Empirical results demonstrate that the proposed method can achieve better performance than the traditional topic model‐based classification approach. Copyright © 2015 John Wiley & Sons, Ltd.
Early Detection of Breast Cancer through Population‐Based Mammographic Screening in Asian Women: A Comparison Study between Screen‐Detected and Symptomatic Breast Cancers

Abstract: The first nation‐wide mammographic screening program in Asia, BreastScreen Singapore (BSS), was launched in Singapore in January 2002. This study compared the presentation and results of screen‐detected breast cancers with symptomatic breast cancers in two affiliated high‐volume institutions, one of which was an assessment centre for BSS. The medical records of patients diagnosed with primary breast cancer at the Department of General Surgery, Singapore General Hospital and the Department of Surgical Oncology, National Cancer Centre, Singapore, during the period January 2002 to December 2003 were reviewed. Clinical and pathological comparisons were made between screen‐detected lesions and symptomatic lesions. Of a total of 767 cases, 640 (83.4%) were invasive carcinomas and 127 (16.6%) were ductal carcinoma in‐situ (DCIS) lesions. Only 13.4% of them were screen‐detected. Compared to symptomatic cancers, screen‐detected lesions were of smaller size (median size 18 versus 23 mm), a lower stage (stages 0–2, 95 versus 83.2%) and histologic grade (grade 1–2, 71 versus 60%), with a higher incidence of DCIS (31.0 versus 14.3%) and had higher rates of breast conservation (45.6 versus 28.2%) (all p‐values <0.05). By multivariate analysis, tumor palpability, tumor size >20 mm, nodal involvement, cerbB2 overexpression, and advanced disease stage were independent poor prognostic factors for disease‐free survival, whereas nodal involvement, advanced disease, and recurrence predicted poor cancer‐specific survival. However, there was no statistically significant difference in disease‐free survival or cancer‐specific survival between the two groups at a median follow‐up of 38 months. Screening mammography has allowed the detection of smaller and hence oncologically more favorable lesions in Asian women. Although no significant survival benefit was demonstrated in our study, a longer period of follow‐up is essential before the benefit of mortality reduction, as a result of mammography screening becomes evident in our population.
The determination of the tribe of family members in Luhak Limopuluh Koto, West Sumatera Indonesia

In this paper, some mathematical models that state the tribe of the family members in Nagari Luhak Limopuluh Koto West Sumatera, Indonesia were built. The models were constructed by using the marriage rule and the ethnic data of Minangkabau community which embrace the matrilineal system. The marriage rule prohibits the same inter-tribal marriage while the matrilineal system causes the mother, child, and sibling tribes to be equal. Therefore, the matrices formed by marriage rule, mother-son tribal relation, someone-his/her sibling tribal relation, and the transpose of the matrices, are used in matrix multiplication to obtain the tribal models. The models are consecutively A, AC’, (AC’)B, ((AC’)B)W’, ((AC’)B)C, ((AC’)B)W, ((AC’)W’ for Denai, Denai’s mother, the sister of Denai’s mother, the brother of Denai’s mother, the husband of Denai’s mother’s sister, the son of Denai’s mother’s sister, the wife of Denai’s mother’s brother, and the Denai’s father models.
Understanding brachiation: insight from a collisional perspective

SUMMARY Gibbons are able to brachiate effectively through the forest canopy with a suspended swinging motion via contact with handholds. The swing phase is unlikely to be a cause of significant energy loss as pendulums are able to oscillate with only gradual mechanical energy dissipation. We consider the energetics associated with the transition of either a swing (during continuous-contact brachiation) or a ballistic flight (ricochetal brachiation) to a subsequent swing. In both styles of brachiation, kinematic data suggest that a gibbon overshoots the path that would allow a smooth transition into the swing phase. The sudden change in velocity due to such an overshoot is associated with a collision. Assuming neither the handhold nor the gibbon stores elastic strain energy, the energetic consequences of such overshoots can be calculated. We suggest two reasons for overshooting smooth transition trajectories: in the case of continuous contact brachiation, excess mechanical energy can be maintained with a high amplitude swing, and an overshoot during ricochetal brachiation produces a safety margin. The degree of energy loss with the transition to the swing phase is dependent both on the alignment of the pre- and post-transition paths, and on the kinetic energy at that instant. Active mechanisms reduce the effects of overshoots in both brachiation gaits. During continuous-contact brachiation, the path of the centre of mass can be controlled actively by flexion both of the trailing arm and the legs. During ricochetal brachiation, the length between the hand and the centre of mass (determining the subsequent swing path) can be controlled throughout the flight phase with leg flexion/extension. In addition, the elongated arms characteristic of gibbons improves the geometry of a collision for a given overshoot, and so may be viewed as a morphological adaptation reducing the energetic losses caused by overshooting for safety.
A robust self-localization system for a small mobile autonomous robot

This paper presents a low-cost self-localization system suitable for small mobile autonomous robots. This system is particularly adapted to situations in which the robots might suer undesirable movements, during which the wheels slip over the ground, caused either by collisions with nondetected obstacles or collisions with other robots. These situations are normally fatal for encoder-based odometry. The system was integrated in the Bulldozer IV robot, developed to participate in a robotics contest, the Micro-Rato 2001, where situations as those referred to above are frequent. The system combines azimuth from an analog compass with odometry from an optical PC mouse and allows the robot, within an unknown maze, to return to the start point after having reached a given goal. This paper presents a brief discussion on the techniques commonly used to provide the notion of self-localization in mobile autonomous robots. Then, the developed self-localization system is described, as well as its integration in the navigational system of the Bulldozer IV robot. Finally, a set of experimental results is presented that allow characterizing the performance of the navigational/self-localization system, illustrating its robustness in terms of resilience to externally forced movements.
Safety and efficacy analysis of one‐stop intervention for treating nonvalvular atrial fibrillation

Nonvalvular atrial fibrillation (AF) is a common arrhythmia. The treatment strategy for AF mainly includes controlling symptoms and decreasing the rate of complications. Our study aimed to evaluate the safety and efficacy of combination treatment of catheter ablation and left atrial appendage (LAA) closure (one‐stop intervention) in patients with nonvalvular AF.