Miracle-dz/UniFAR-FTUs huggingface dataset:
In situ particle size reduction as affected by forage species and grinding mesh size.

Two ruminally cannulated heifers were used to evaluate effects of three forage species (gamagrass, orchardgrass, and red clover) ground through two mesh sizes (2 and 5 mm) in a 3 x 2 factorial arrangement on particle size reduction in situ. Residues in polyester bags incubated for 3, 6, 12, 24, 36, 48, 60, and 72 h were analyzed for mean particle size. Initially, gamagrass had a 10.2% greater (P < .05) proportion of DM as particles larger than 300 microns that did orchardgrass or red clover, whereas forages ground through a 5-mm mesh (5-mm forage) had a 7.5% greater (P < .05) proportion of DM as 300 microns or larger particles than forages ground through a 2-mm mesh (2-mm forage). Mean particle size decreased with incubation time, resulting in reductions of 44, 42, 53, and 49% of gamagrass, orchardgrass, and 2- and 5-mm forages, respectively, after 60 h. Mean particle size of red clover was reduced 67% after 36 h of incubation. Particle size reduction was initiated earlier (12 vs 36 h) and occurred at a 150% faster (P < .01) rate for red clover than for gamagrass or orchardgrass. Although there was no difference (P > .10) between grinding mesh size at the time at which particle size reduction was initiated (24 h), particle reduction occurred at a 136% faster (P < .05) rate for forages ground through a 5-mm screen than for forages ground through a 2-mm screen. A greater (P < .10) reduction (595 microns by 36 h) in mean particle size occurred in red clover than in gamagrass or orchardgrass (average 376 microns by 60 h) during ruminal incubation. In addition, 5-mm forages exhibited a greater (P < .10) reduction in mean particle size (527 microns) than did 2-mm forages (372 microns) after 60 h of incubation. Substantial particle size reduction occurred in situ due to microbial digestion. The faster particle size reduction found in red clover may contribute to the greater observed intake for legumes.
Stabilizing periodontally compromised teeth with fiber-reinforced composite resin.

or those patients with moderate-tosevere periodontal disease, tooth mobility can contribute to discomfort when eating and decreased masticatory and occlusal function. Tarnow and Fletcher described the indications and contraindications for splinting periodontally involved teeth.1 They stated that the rationale for splinting teeth should include the severity of periodontal disease as determined by the amount of radiographic bone loss and/or the measured tooth mobility. The literature indicates that the main reasons to reduce tooth mobility with periodontal splinting are (1) primary occlusal trauma, (2) secondary occlusal trauma, and (3) progressive mobility, migration, and pain on function.1 Primary occlusal trauma is defined as injury resulting from excessive occlusal forces applied to a tooth or teeth with normal periodontal support, while secondary occlusal trauma is injury resulting from normal occlusal forces applied to a tooth or teeth with inadequate periodontal support.2 In the past, the splinting of periodontally compromised teeth was contentious. The presumption was that splinting to control tooth mobility was required to control gingival inflammation, periodontitis, and pocket formation. It was assumed that mobility had a direct relationship to attachment loss and formation of vertical osseous defects. Another assumption was that increasing tooth mobility was a direct consequence of traumatic occlusion,
A genetic/interval approach to optimal trajectory planning of industrial robots under torque constraints

In this paper an optimal trajectory planning problem for industrial multi-link robots is considered. Using a cubic polynomial joint interpolation scheme, a minimum time trajectory under torque constraints is planned via a global optimization algorithm proposed by the authors. This proposed optimization method takes into account a rigid-link full dynamics model. Numerical results for a two-link arm, related to a 10 knots trajectory, are reported.
Effects of elevated CO2 on fine root dynamics in a Mojave Desert community: a FACE study

Fine roots (≤1 mm diameter) are critical in plant water and nutrient absorption, and it is important to understand how rising atmospheric CO2 will affect them as part of terrestrial ecosystem responses to global change. This study's objective was to determine the effects of elevated CO2 on production, mortality, and standing crops of fine root length over 2 years in a free‐air CO2 enrichment (FACE) facility in the Mojave Desert of southern Nevada, USA. Three replicate 25 m diameter FACE rings were maintained at ambient (∼370 μmol mol−1) and elevated CO2 (∼550 μmol mol−1) atmospheric concentrations. Twenty‐eight minirhizotron tubes were placed in each ring to sample three microsite locations: evergreen Larrea shrubs, drought‐deciduous Ambrosia shrubs, and along systematic community transects (primarily in shrub interspaces which account for ∼85% of the area). Seasonal dynamics were similar for ambient and elevated CO2: fine root production peaked in April–June, with peak standing crop occurring about 1 month later, and peak mortality occurring during the hot summer months, with higher values for all three measures in a wet year compared with a dry year. Fine root standing crop, production, and mortality were not significantly different between treatments except standing crop along community transects, where fine root length was significantly lower in elevated CO2. Fine root turnover (annual cumulative mortality/mean standing crop) ranged from 2.33 to 3.17 year−1, and was not significantly different among CO2 treatments, except for community transect tubes where it was significantly lower for elevated CO2. There were no differences in fine root responses to CO2 between evergreen (Larrea) and drought‐deciduous (Ambrosia) shrubs. Combined with observations of increased leaf‐level water‐use efficiency and lack of soil moisture differences, these results suggest that under elevated CO2 conditions, reduced root systems (compared with ambient CO2) appear sufficient to provide resources for modest aboveground production increases across the community, but in more fertile shrub microsites, fine root systems of comparable size with those in ambient CO2 were required to support the greater aboveground production increases. For community transects, development of the difference in fine root standing crops occurred primarily through lower stimulation of fine root production in the elevated CO2 treatment during periods of high water availability.
Murine Heterotopic Heart Transplant Technique

It is now over forty years since this technique was first reported by Corry, Wynn and Russell. Although it took some years for other labs to become proficient in and utilize this technique, it is now widely used by many laboratories around the world. A significant refinement to the original technique was developed and reported in 2001 by Niimi. Described here are the techniques that have evolved over more than a decade in the hands of three surgeons (Plenter, Grazia, Pietra) in our center. These techniques are now being passed on to a younger generation of surgeons and researchers. Based largely on the Niimi experience, the procedures used have evolved in the fine details - details which we will endeavor to relate here in such a way that others may be able to use this very useful model. Like Niimi, we have found that a video aid to learning is a priceless resource for the beginner.
Application of CdTe/ZnSe Quantum Dots in In Vitro Imaging of Chicken Tissue and Embryo

The present work is aimed to synthesize CdTe/ZnSe core/shell quantum dots (QDs) in an easy way and to explore the possibilities of its application in in vitro imaging of chicken tissue and embryo. The QDs were prepared using microwave irradiation with different temperatures, which is a very easy and less time‐consuming method. Subsequently, these QDs were characterized by spectrofluorimetry, Transmission Electron Microscopy, X‐ray fluorescence analysis and Dynamic Light Scattering measurement. A blueshifting of the emission was found when ZnSe was deposited on CdTe QDs. The QDs showed its fluorescence emission quantum yields up to 25%. They were applied into chicken embryos and breast muscle tissues to study their efficiency in in vitro imaging. All the QDs of different color were able to visualize in in vitro imaging. The highest fluorescence intensity was detected in the case of red QDs prepared at 100°C. The green and red QDs were possible to detect up to the depth of 3 and 4 mm of the tissue, respectively.
Efficient Pointer Analysis of Java in Logic

Points-to analysis for Java benefits greatly from context sensitivity. CFL-reachability and k-limited context strings are two approaches to obtaining context sensitivity with different advantages: CFL-reachability allows local reasoning about data value flow and thus is suitable for demand-driven analyses, whereas k-limited analyses allow object sensitivity which is a superior calling-context abstraction for object-oriented languages. We combine the advantages of both approaches to obtain a context-sensitive analysis that is as precise as k-limited context strings, but is more efficient to compute. Our key insight is based on a novel abstraction of contexts adapted from CFL-reachability, which represents a relation between two calling contexts as a composition of transformations over contexts. We formulate pointer analysis in an algebraic structure of context transformations, which is a set of functions over calling contexts closed under function composition. We show that the context representation of context-string-based analyses is an explicit enumeration of all input and output values of context transformations. CFL-reachability-based pointer analysis is formulated to use call strings as contexts, but the context transformations concept can be applied to any context abstraction used in k-limited analyses, including objectand type-sensitive analysis. The result is a more efficient algorithm for computing context-sensitive pointer information for a wide variety of context configurations.
"Everything I Disagree With is #FakeNews": Correlating Political Polarization and Spread of Misinformation

An important challenge in the process of tracking and detecting the dissemination of misinformation is to understand the political gap between people that engage with the so called "fake news". A possible factor responsible for this gap is opinion polarization, which may prompt the general public to classify content that they disagree or want to discredit as fake. In this work, we study the relationship between political polarization and content reported by Twitter users as related to "fake news". We investigate how polarization may create distinct narratives on what misinformation actually is. We perform our study based on two datasets collected from Twitter. The first dataset contains tweets about US politics in general, from which we compute the degree of polarization of each user towards the Republican and Democratic Party. In the second dataset, we collect tweets and URLs that co-occurred with "fake news" related keywords and hashtags, such as #FakeNews and #AlternativeFact, as well as reactions towards such tweets and URLs. We then analyze the relationship between polarization and what is perceived as misinformation, and whether users are designating information that they disagree as fake. Our results show an increase in the polarization of users and URLs associated with fake-news keywords and hashtags, when compared to information not labeled as "fake news". We discuss the impact of our findings on the challenges of tracking "fake news" in the ongoing battle against misinformation.
Acinetobacter baumannii Response to Host-Mediated Zinc Limitation Requires the Transcriptional Regulator Zur

ABSTRACT Acinetobacter baumannii is a leading cause of ventilator-associated pneumonia in intensive care units, and the increasing rates of antibiotic resistance make treating these infections challenging. Consequently, there is an urgent need to develop new antimicrobials to treat A. baumannii infections. One potential therapeutic option is to target bacterial systems involved in maintaining appropriate metal homeostasis, processes that are critical for the growth of pathogens within the host. The A. baumannii inner membrane zinc transporter ZnuABC is required for growth under low-zinc conditions and for A. baumannii pathogenesis. The expression of znuABC is regulated by the transcriptional repressor Zur. To investigate the role of Zur during the A. baumannii response to zinc limitation, a zur deletion mutant was generated, and transcriptional changes were analyzed using RNA sequencing. A number of Zur-regulated genes were identified that exhibit increased expression both when zur is absent and under low-zinc conditions, and Zur binds to predicted Zur box sequences of several genes affected by zinc levels or the zur mutation. Furthermore, the zur mutant is impaired for growth in the presence of both high and low zinc levels compared to wild-type A. baumannii. Finally, the zur mutant exhibits a defect in dissemination in a mouse model of A. baumannii pneumonia, establishing zinc sensing as a critical process during A. baumannii infection. These results define Zur-regulated genes within A. baumannii and demonstrate a requirement for Zur in the A. baumannii response to the various zinc levels experienced within the vertebrate host.
PARASITIC INFECTION AND DEVELOPMENTAL STABILITY: FLUCTUATING ASYMMETRY IN GAMMARUS PULEX INFECTED WITH TWO ACANTHOCEPHALAN SPECIES

Several studies have reported a negative association between developmental stability and parasitic infection. However, the host–parasite associations examined so far consist only of a limited number of parasite taxa, and developmental stability was appraised on definitive hosts. The present study examines the association between infection by 2 acanthocephalan parasites, Pomphorhynchus laevis and Polymorphus minutus, and the developmental stability of their common intermediate host Gammarus pulex. Developmental stability was estimated from the fluctuating asymmetry (FA) levels of 6 morphological traits. A positive association was found between FA and infection. Infected gammarids tended to be more asymmetrical than the noninfected ones for an index generated by combining FA scores from 2 characters out of the 6 studied, even though no significant relationships were found between FA levels and parasitic loads. The simultaneous presence of both acanthocephalan species in the same host seems to be associated with increased FA levels of gammarids, but this trend was not statistically significant. For the same characters, males exhibited higher levels of FA than females.
Single nucleotide polymorphism barcoding of cytochrome c oxidase I sequences for discriminating 17 species of Columbidae by decision tree algorithm

Abstract DNA barcodes are widely used in taxonomy, systematics, species identification, food safety, and forensic science. Most of the conventional DNA barcode sequences contain the whole information of a given barcoding gene. Most of the sequence information does not vary and is uninformative for a given group of taxa within a monophylum. We suggest here a method that reduces the amount of noninformative nucleotides in a given barcoding sequence of a major taxon, like the prokaryotes, or eukaryotic animals, plants, or fungi. The actual differences in genetic sequences, called single nucleotide polymorphism (SNP) genotyping, provide a tool for developing a rapid, reliable, and high‐throughput assay for the discrimination between known species. Here, we investigated SNPs as robust markers of genetic variation for identifying different pigeon species based on available cytochrome c oxidase I (COI) data. We propose here a decision tree‐based SNP barcoding (DTSB) algorithm where SNP patterns are selected from the DNA barcoding sequence of several evolutionarily related species in order to identify a single species with pigeons as an example. This approach can make use of any established barcoding system. We here firstly used as an example the mitochondrial gene COI information of 17 pigeon species (Columbidae, Aves) using DTSB after sequence trimming and alignment. SNPs were chosen which followed the rule of decision tree and species‐specific SNP barcodes. The shortest barcode of about 11 bp was then generated for discriminating 17 pigeon species using the DTSB method. This method provides a sequence alignment and tree decision approach to parsimoniously assign a unique and shortest SNP barcode for any known species of a chosen monophyletic taxon where a barcoding sequence is available.
One-step acclimatization of plantlets using a mist reactor.

A mist reactor was used to grow and acclimatize carnation plants in vitro without using ex vitro acclimatization techniques. The acclimatization protocol in the reactor consisted of altering the mist-on period during the course of the culture period and a stepwise reduction in the relative humidity surrounding the plants from 98% to 70% relative humidity (RH) during the final week of in vitro growth. After transfer and further growth in a greenhouse for 5 weeks, survival was 91% for plants grown in reactors, 81% from vented boxes, and 50% from unvented boxes. Ex vitro survival directly correlated with increased in vitro rooting and decreased hyperhydration. In vitro rooting also correlated with high-quality plants, but did not significantly correlate with low hyperhydration, as normal plants often lacked roots. After 5 weeks in the greenhouse, the quantity of mid- and high-quality plants obtained from reactors and ventilated boxes was similar. Conditions in the mist reactor can be manipulated to produce plants that are readily acclimatized and are equal or better in quality and yield than plants produced using conventional methods.
Prognostic Analysis of E-Cadherin Gene Promoter Hypermethylation in Patients with Surgically Resected, Node-Positive, Diffuse Gastric Cancer

Purpose: Recent investigations have demonstrated that hypermethylation is a frequent mechanism for silencing tumor suppressor genes. This is a potentially reversible epigenetic change, and it is the target of a novel class of anticancer compounds with demethylating activity. Better understanding of the clinical implications of hypermethylation will allow the optimal planning of future trials with demethylating drugs. In this perspective, we investigated whether hypermethylation in the CDH1 promoter region is correlated with poor prognosis of patients with surgically resected, node-positive, diffuse gastric cancer. Experimental Design: Consecutive cases of diffuse gastric cancer were considered eligible for study entry. Additional inclusion criteria were radical surgery with a minimum of D1 lymphadenectomy, complete follow-up information, and availability of tumor specimens for methylation-specific PCR and immunohistochemistry analyses. Results: CDH1 promoter hypermethylation was found in 40 of 73 cases (54%), and it was significantly associated with worse prognosis. In patients with and without hypermethylation, the 5-year event-free survival rate was 30% and 62%, respectively, and the 5-year overall survival rate was 35% and 67%, respectively. CDH1 promoter hypermethylation retained its prognostic role for disease-free survival (P < 0.001) and overall survival (P < 0.001) in multivariate analysis. Immunohistochemistry showed a significant association between CDH1 methylation and E-cadherin expression (P < 0.001). Conclusions: This study shows adverse prognostic effect of CDH1 promoter hypermethylation in patients with diffuse gastric cancer. This form of cancer, and other types with frequent hypermethylation and silencing of critical tumor suppressor genes, would make appropriate targets for the testing of novel compounds with demethylating activity.
Edinburgh Research Explorer High-precision timing of 42 millisecond pulsars with the European Pulsar Timing Array

We report on the high-precision timing of 42 radio millisecond pulsars (MSPs) observed by the European Pulsar Timing Array (EPTA). This EPTA Data Release 1.0 extends up to mid-2014 and baselines range from 7-18 years. It forms the basis for the stochastic gravitational-wave background, anisotropic background, and continuous-wave limits recently presented by the EPTA elsewhere. The Bayesian timing analysis performed with TempoNest yields the detection of several new parameters: seven parallaxes, nine proper motions and, in the case of six binary pulsars, an apparent change of the semi-major axis. We ﬁnd the NE2001 Galactic electron density model to be a better match to our parallax distances (after correction from the Lutz-Kelker bias) than the M2 and M3 models by Schnitzeler (2012). However, we measure an average uncertainty of 80% (fractional) for NE2001, three times larger than what is typically assumed in the literature. We revisit the transverse velocity distribution for a set of 19 isolated and 57 binary MSPs and ﬁnd no statistical difference between these two populations. We detect Shapiro delay in the timing residuals of PSRs J1600 − 3053 and J1918 − 0642, implying pulsar and companion masses m p = 1 . 22 + 0 . 5 − 0 . 35 M ⊙ , m c = 0 . 21 + 0 . 06 − 0 . 04 M ⊙ and m p = 1 . 25 + 0 . 6 − 0 . 4 M ⊙ , m c = 0 . 23 + 0 . 07 − 0 . 05 M ⊙ , respectively. Finally, we use the measurement of the orbital period derivative to set a stringent constraint on the distance to PSRs J1012 + 5307 and J1909 − 3744, and set limits on the longitude of ascending node through the search of the annual-orbital parallax for PSRs J1600 − 3053 and J1909 − 3744.
Cross-cultural analysis of the Wikipedia community

This article reports a cross-cultural analysis of four Wikipedias in different languages and demonstrates their roles as communities of practice (CoPs). Prior research on CoPs and on the Wikipedia community often lacks cross-cultural analysis. Despite the fact that over 75p of Wikipedia is written in languages other than English, research on Wikipedia primarily focuses on the English Wikipedia and tends to overlook Wikipedias in other languages. This article first argues that Wikipedia communities can be analyzed and understood as CoPs. Second, norms of behaviors are examined in four Wikipedia languages (English, Hebrew, Japanese, and Malay), and the similarities and differences across these four languages are reported. Specifically, typical behaviors on three types of discussion spaces (talk, user talk, and Wikipedia talk) are identified and examined across languages. Hofstede's dimensions of cultural diversity as well as the size of the community and the function of each discussion area provide lenses for understanding the similarities and differences. As such, this article expands the research on online CoPs through an examination of cultural variations across multiple CoPs and increases our understanding of Wikipedia communities in various languages. © 2010 Wiley Periodicals, Inc.
Size regulation in chimaeric mouse embryos.

SUMMARY The size of the inner cell mass and egg cylinder was estimated in mouse embryos derived from the aggregation of two 8-cell stages and in control 'single' embryos. The comparison suggests that growth regulation in the 'double' embryos takes place fairly rapidly, after the formation of the egg cylinder but before the appearance of the pro-amniotic cavity.