Miracle-dz/UniFAR-FTUs huggingface dataset:
Expression of Caveolin-1 in tongue squamous cell carcinoma by quantum dots

Quantum dots (QDs) are a new class of fluorescent probes to detect biomarker expression. The role of caveolin-1 (Cav-1) in tongue squamous cell carcinoma (TSCC) is still unknown. This study aimed to investigate the expression profile of Cav-1 in carcinogenesis and development of TSCC by QDs immunofluorescence histochemistry (QDs-IHC) and discuss the relationship between the Cav-1 expression and the clinicopathological outcomes. QDs-IHC was used to detect Cav-1 expression in tissue microarrays including normal tongue mucosa (NTM; n=10), hyperplastic tongue mucosa (HTM; n=10), tongue pre-cancer lesions (TPL; n=15) and primary tongue squamous cell carcinoma (PTSCC; n=61). Correlations between the Cav-1 expression and clinicopathologic variables were evaluated statistically. Cells positive for Cav-1 were clearly detected and bright images were obtained in a fine, granular pattern at the cell membrane and cytoplasm using QDs-IHC. The rate of Cav-1 immunoreactivity increased progressively from NTM (0%), HTM (0%), TPL (36%) to PTSCC (74%). When compared with each other, there was statistical significance among PTSCC, TPL and NTM as well as among PTSCC, TPL and HTM. Moreover, Cav-1 expression level in PTSCC was correlated positively with clinical stage and histologic grade. QDs-IHC could accurately detect protein location in tongue mucosa. An increased expression of Cav-1 in the stepwise carcinogenesis from NTM, HTM, TPL to PTSCC suggested that Cav-1 might be an oncogene in the development of tongue squamous cell carcinoma.
Metric space similarity joins

Similarity join algorithms find pairs of objects that lie within a certain distance ε of each other. Algorithms that are adapted from spatial join techniques are designed primarily for data in a vector space and often employ some form of a multidimensional index. For these algorithms, when the data lies in a metric space, the usual solution is to embed the data in vector space and then make use of a multidimensional index. Such an approach has a number of drawbacks when the data is high dimensional as we must eventually find the most discriminating dimensions, which is not trivial. In addition, although the maximum distance between objects increases with dimension, the ability to discriminate between objects in each dimension does not. These drawbacks are overcome via the introduction of a new method called Quickjoin that does not require a multidimensional index and instead adapts techniques used in distance-based indexing for use in a method that is conceptually similar to the Quicksort algorithm. A formal analysis is provided of the Quickjoin method. Experiments show that the Quickjoin method significantly outperforms two existing techniques.
Specific Circuit Training in Young Judokas

Ten adolescent judokas performed circuit training consisting of six 40-s periods of judo exercises separated by 40 s (CT1:1), 120 s (CT1:3), or 200 s (CT1:5) of rest. Heart rate, blood lactate concentration, and the number of repetitions were recorded. Heart rate reached ~180 beats·min-1 at the end of work periods, with slightly lower values for CT1:5. Blood lactate concentration increased until the 6th and 5th work periods for CT1:1 and CT1:3, respectively, whereas the peak value was lower and achieved earlier for CT1:5. Conversely, the number of repetitions was greater during CT1:5. These results suggest that circuit training composed of judo exercises substantially affects aerobic and anaerobic metabolisms, with relative contributions depending on the rest duration.
Bicluster detection using strength pareto front evolutionary algorithm

Biclustering has many applications in various fields such as pattern classification, information retrieval, data mining and functional annotation. Biclustering extracts accurate information from gene expression datasets by clustering rows and columns of a dataset simultaneously. In this paper, a new multi-objective evolutionary biclustering framework based on strength Pareto front evolutionary algorithm (SPEA2) is proposed. A heuristic search is added into SPEA2 to delete and add genes and conditions into randomly generated biclusters. In order to select the best bicluster among Pareto front solutions, k-mean algorithm is used. The new population is generated based on mutation and crossover. The performance of the proposed method is evaluated using synthetic and real datasets and compared with several well-known biclustering methods. The experimental results show better performance and significant enrichment of detected biclusters.
Genetic mapping of phenotypic and quantitative trait loci underlying horticulturally important traits in watermelon

UNDERLYING HORTICULTURALLY IMPORTANT TRAITS IN WATERMELON by JASON MICHAEL PROTHRO (Under the Direction of Cecilia McGregor) ABSTRACT QTL analysis was performed for multiple traits in an elite x egusi and an elite x citron F2 population of watermelon (Citrullus lanatus var. lanatus Thunb.). Two linkage maps were constructed for QTL analysis using single nucleotide polymorphism (SNP) markers. A total of 16 quantitative trait loci (QTL) were identified across 10 traits in the elite x egusi population on a linkage map containing 14 linkage groups spanning a genetic distance of 1,514 cM. Eighteen QTL were identified for 12 traits in the elite x citron population on a linkage map containing 16 linkage groups covering a genetic distance of 1,144 cM. The QTL identified in this study can be useful for marker assisted selection (MAS) in watermelon breeding programs and broaden genetic diversity in commercially important elite watermelon germplasm by introducing favorable alleles from exotic germplasm sources.
Risk-Factor Profile of Living Kidney Donors: The Australia and New Zealand Dialysis and Transplant Living Kidney Donor Registry 2004-2012

Background Recent literature suggests that living kidney donation may be associated with an excess risk of end-stage kidney disease and death. Efforts to maximize access to transplantation may result in acceptance of donors who do not fit within current guidelines, potentially placing them at risk of adverse long-term outcomes. Methods We studied the risk profile of Australian and New Zealand living kidney donors using data from the Australia and New Zealand Dialysis and Transplant Living Kidney Donor Registry over 2004 to 2012. We compared their predonation profile against national guidelines for donor acceptance. Results The analysis included 2,932 donors (mean age 48.8 ± 11.2 years, range 18–81), 58% female and 87% Caucasian. Forty (1%) had measured glomerular filtration rate less than 80 mL/min; 32 (1%) had proteinuria >300 mg/day; 589 (20%) were hypertensive; 495 (18%) obese; 9 (0.3%) were diabetic while a further 55 (2%) had impaired glucose tolerance; and 218 (7%) were current smokers. Overall 767 donors (26%) had at least one relative contraindication to donation and 268 (9%) had at least one absolute contraindication according to national guidelines. Conclusions Divergence of current clinical practice from national guidelines has occurred. In the context of recent evidence demonstrating elevated long-term donor risk, rigorous follow-up and reporting of outcomes are now mandated to ensure safety and document any change in risk associated with such a divergence.
Uniqueness results for convex Hamilton-Jacobi equations under $p>1$ growth conditions on data

Unbounded stochastic control problems may lead to Hamilton-Jacobi-Bellman equations whose Hamiltonians are not always defined, especially when the diffusion term is unbounded with respect to the control. We obtain existence and uniqueness of viscosity solutions growing at most like $o(1+|x|^p)$ at infinity for such HJB equations and more generally for degenerate parabolic equations with a superlinear convex gradient nonlinearity. If the corresponding control problem has a bounded diffusion with respect to the control, then our results apply to a larger class of solutions, namely those growing like $O(1+|x|^p)$ at infinity. This latter case encompasses some equations related to backward stochastic differential equations.
A Unified Algorithmic Approach for Efficient Online Label Ranking

Label ranking is the task of ordering labels with respect to their relevance to an input instance. We describe a unified approach for the online label ranking task. We do so by casting the online learning problem as a game against a competitor who receives all the examples in advance and sets its label ranker to be the optimal solution of a constrained optimization problem. This optimization problem consists of two terms: the empirical label-ranking loss of the competitor and a complexity measure of the competitor’s ranking function. We then describe and analyze a framework for online label ranking that incrementally ascends the dual problem corresponding to the competitor’s optimization problem. The generality of our framework enables us to derive new online update schemes. In particular, we use the relative entropy as a complexity measure to derive efficient multiplicative algorithms for the label ranking task. Depending on the specific form of the instances, the multiplicative updates either have a closed form or can be calculated very efficiently by tailoring an interior point procedure to the label ranking task. We demonstrate the potential of our approach in a few experiments with email categorization tasks.
Effects of Adding Resorbable Phosphate Glass Fibres and PLA to Calcium Phosphate Bone Cements

Background Calcium phosphate cements (CPCs), due to their biocompatibility and degradation properties, are being widely investigated as a replacement to more commonly used polymethylmethacrylate (PMMA) for vertebroplasty. CPCs have shown the potential to be replaced by host bone tissue during the healing/remodelling process. However, brittleness and comparatively low strength restrict the use of CPC in load-bearing applications. Although porous CPC can integrate with bone over time, slow degradation profiles and poor interconnectivity between pores restricts osseointegration to the top layer of CPC only. Methods Polylactic acid (PLA) and phosphate glass fibres (PGFs) were incorporated in a CPC matrix to overcome the problem of inherent brittleness and limited osseointegration. Results Incorporation of PLA and PGFs within CPC was successful in achieving a much less brittle CPC matrix without affecting the mechanical properties of CPC. The area under the stress-strain curve showed that the total energy to failure of the CPC hybrid was significantly greater than that of the CPC control. Conclusions The methodology adopted here to add PLA within the CPC matrix may also allow for incorporation of PLA cross-linked biochemicals. Micrographic studies revealed that it was possible to confer control over pore size, shape and interconnectivity without negatively affecting the mechanical properties of the cement. This tailorable porosity could potentially lead to better osseointegration within CPC.
Spots and stripes: ecology and colour pattern evolution in butterflyfishes

The incredible diversity of colour patterns in coral reef fishes has intrigued biologists for centuries. Yet, despite the many proposed explanations for this diversity in coloration, definitive tests of the role of ecological factors in shaping the evolution of particular colour pattern traits are absent. Patterns such as spots and eyespots (spots surrounded by concentric rings of contrasting colour) have often been assumed to function for predator defence by mimicking predators' enemies' eyes, deflecting attacks or intimidating predators, but the evolutionary processes underlying these functions have never been addressed. Striped body patterns have been suggested to serve for both social communication and predator defence, but the impact of ecological constraints remains unclear. We conducted the first comparative analysis of colour pattern diversity in butterflyfishes (Family: Chaetodontidae), fishes with conspicuous spots, eyespots and wide variation in coloration. Using a dated molecular phylogeny of 95 species (approx. 75% of the family), we tested whether spots and eyespots have evolved characteristics that are consistent with their proposed defensive function and whether the presence of spots and body stripes is linked with species' body length, dietary complexity, habitat diversity or social behaviour. Contrary to our expectations, spots and eyespots appeared relatively recently in butterflyfish evolution and are highly evolutionarily labile, suggesting that they are unlikely to have played an important part in the evolutionary history of the group. Striped body patterns showed correlated evolution with a number of ecological factors including habitat type, sociality and dietary complexity. Our findings question the prevailing view that eyespots are an evolutionary response to predation pressure, providing a valuable counter example to the role of these markings as revealed in other taxa.
Role of α-Tubulin Acetylation and Protein Kinase D2 Ser/Tyr Phosphorylation in Modulation by Ghrelin of Porphyromonas gingivalis-Induced Enhancement in Matrix Metalloproteinase-9 (MMP-9) Secretion by Salivary Gland Cells

Matrix metalloproteinas-9 (MMP-9) is a glycosylated endopeptidase, and hence its processing between the endoplasmic reticulum (ER), Golgi and trans-Golgi (TGN) network remains under a strict control of factors that affect the microtubule (MT) stabilization, and the recruitment and activation of coat and cargo proteins, including ADP-ribosylation factors (Arfs) and protein kinase D (PKD). Here, we report on the factors implicated in the regulation of MMP-9 secretion by salivary gland acinar cells in response to P. gingivalis LPS, and the effect of hormone, ghrelin. We show that the LPS-elicited induction in MMP-9 secretion is associated with the increase in α-tubulin acetylation and the enhancement in MT stabilization, while the modulatory effect of ghrelin is reflected in a decrease in α-tubulin acetylation. Further, the effect of the LPS occurs in concert with up-regulation in Arf-guanine nucleotide exchange factor (GEF)-mediated Arf1 activation and the TGN recruitment of PKD2, while ghrelin exerts the modulatory effect on Arf-GEF activation. Moreover, we reveal that the LPS-induced up-regulation in MMP-9 secretion is reflected in a marked increase in PKCδ-mediated PKD2 phosphorylation on Ser, while the modulatory effect of ghrelin is manifested by the SFK-PTKs-dependent phosphorylation of PKD2 on Tyr. The findings demonstrate that MT stabilization along with Arf-GEF-mediated Arf1/PKD2 activation play a major role in P. gingivalis LPS-induced up-regulation in salivary gland acinar cell MMP-9 secretion, and point the modulatory mode of action by ghrelin.
The Association between Distribution of Influenza-Like Illness and Climate in Each Zone of Thailand

Background: Influenza is a respiratory infection that commonly occurs in humans. According to the World Health Organization, the estimation of influenza-related morbidity rate was 5 - 10% in adults and 20 - 30% in children worldwide, causing 3 - 5 million people to have serious influenza-related illnesses. Climatic factors might affect both the survival and transition of influenza viruses. This study aimed to find the association between distribution of Influenza-like Illness (ILI) and climate in each zone of Thailand. Methods: Secondary data of ILI cases and climatic factors were extracted from infectious disease surveillance report of the Bureau of Epidemiology, Thai Ministry of Public Health and from meteorological data of the Thai Meteorological Department from January 2011 to December 2015. An ecological study and generalized estimation equation was used to explore the association between Influenza-like Illness and climate in each zone of Thailand. Results: Weekly ILI rates associated with climate and air temperature was found to have a negative association and played a major role in all zones except for Northeastern and Southwestern zones. Relative humidity was found to have a positive association with the ILI rate in Central, Bangkok, Eastern and Southwestern zones. Rainfall was found to have a positive association with ILI rates in Northern and Southwestern zones but was found to have a negative association in Southeastern zones due to its different climate. The association between rainfall and influenza outbreaks may be indirect, similar to the crowds and public spaces that contribute to increased contact time and influenza transmission. Conclusion: Using weather information may predict influenza outbreaks and be beneficial to prevention and early preparedness for climate change.
Spatial and temporal reasoning: beyond Allen's calculus

Many formalisms for qualitative spatial and temporal reasoning fit into a pattern exemplified by Allen's temporal interval calculus. Constraint-based reasoning using Allen's calculus can benefit from some of its main properties: (a) the underlying constraint algebra is a relation algebra, in Tarski's sense: (b) testing path-consistency is a complete method for testing consistency for well-determined subclasses of relations: (c) atomic path-consistent networks are consistent and determine unique qualitative configurations; (d) the first order theory associated to the calculus is aleph-zero categorical. When considering analogous calculi, many of the properties mentioned above no longer hold. The main object of this paper is to examine some of the new questions which arise. In order to do so, we use the idea of weak representations of the algebras as a unifying concept.
Treatment Toxicity in Elderly Patients With Advanced Non–Small Cell Lung Cancer

Objectives: Toxicity is a main concern limiting the use of chemotherapy and radiotherapy (RT) for elderly patients with non–small cell lung cancer (NSCLC). The objective of this study was to assess the rates of treatment-related toxicity among elderly stage IIIB and IV NSCLC patients. Materials and Methods: We used the Surveillance, Epidemiology, and End Results registry linked to Medicare records to identify 2596 stage IIIB and 14,803 stage IV NSCLC patients aged 70 years and above, diagnosed in 2000 or later. We compared rates of toxicity requiring hospitalization according to treatment (chemotherapy, RT, or chemoradiation [CRT]) in unadjusted and adjusted models controlling for selection bias using propensity scores. Results: Among stage IIIB patients, rates of any severe toxicity were 10.1%, 23.8%, 30.4%, and 39.2% for patients who received no treatment, RT, chemotherapy alone, and CRT, respectively. In stage IV patients, rates of any severe toxicity were 31.5% versus 13.5% among those treated with and without chemotherapy, respectively. In stage IIIB patients treated with CRT, the most common toxicities was esophagitis (odds ratio, 48.5; 95% confidence interval, 6.7-350.5). Among stage IV patients treated with chemotherapy, the risk of toxicity was highest for neutropenia (odds ratio, 8.4; 95% confidence interval, 6.1-11.5). Conclusions: Toxicity was relatively common among stage IIIB patients with up to a 6-fold increase in elderly individuals treated with CRT and a 4-fold increase in toxicities among stage IV patients. This information should be helpful to guide discussions about the risk-benefit ratio of chemotherapy and RT in elderly patients with advanced NSCLC.
PINOID Positively Regulates Auxin Efflux in Arabidopsis Root Hair Cells and Tobacco Cells[W]

Intercellular transport of auxin is mediated by influx and efflux carriers in the plasma membrane and subjected to developmental and environmental regulation. Here, using the auxin-sensitive Arabidopsis thaliana root hair cell system and the tobacco (Nicotiana tabacum) suspension cell system, we demonstrate that the protein kinase PINOID (PID) positively regulates auxin efflux. Overexpression of PID (PIDox) or the auxin efflux carrier component PINFORMED3 (PIN3, PIN3ox), specifically in the root hair cell, greatly suppressed root hair growth. In both PIDox and PIN3ox transformants, root hair growth was nearly restored to wild-type levels by the addition of auxin, protein kinase inhibitors, or auxin efflux inhibitors. Localization of PID or PIN3 at the cell boundary was disrupted by brefeldin A and staurosporine. A mutation in the kinase domain abrogated the ability of PID to localize at the cell boundary and to inhibit root hair growth. These results suggest that PIDox- or PIN3ox-enhanced auxin efflux results in a shortage of intracellular auxin and a subsequent inhibition of root hair growth. In an auxin efflux assay using transgenic tobacco suspension cells, PIDox or PIN3ox also enhanced auxin efflux. Collectively, these results suggest that PID positively regulates cellular auxin efflux, most likely by modulating the trafficking of PIN and/or some other molecular partners involved in auxin efflux.
Obtaining optical properties on demand

Reconfigurable metamaterials provide a flexible platform for nanophotonic technology With the developments in nanotechnology that enable atoms, singly or in clumps, to be moved and arranged at will, we now have the capability of creating metamaterials that can display properties not found in naturally occurring media. Today lenses are being developed that image more sharply than glass lenses, and materials can be designed that make objects invisible or bend light beams into any chosen trajectory. We look here at the impact that metamaterials are having on photonics (see the figure).
Quantification of Optic Disc Edema during Exposure to High Altitude Shows No Correlation to Acute Mountain Sickness

Background The study aimed to quantify changes of the optic nerve head (ONH) during exposure to high altitude and to assess a correlation with acute mountain sickness (AMS). This work is related to the Tuebingen High Altitude Ophthalmology (THAO) study. Methodology/Principal Findings A confocal scanning laser ophthalmoscope (cSLO, Heidelberg Retina Tomograph, HRT3®) was used to quantify changes at the ONH in 18 healthy participants before, during and after rapid ascent to high altitude (4559 m). Slitlamp biomicroscopy was used for clinical optic disc evaluation; AMS was assessed with Lake Louise (LL) and AMS-cerebral (AMS-c) scores; oxygen saturation (SpO2) and heart rate (HR) were monitored. These parameters were used to correlate with changes at the ONH. After the first night spent at high altitude, incidence of AMS was 55% and presence of clinical optic disc edema (ODE) 79%. Key stereometric parameters of the HRT3® used to describe ODE (mean retinal nerve fiber layer [RNFL] thickness, RNFL cross sectional area, optic disc rim volume and maximum contour elevation) changed significantly at high altitude compared to baseline (p<0.05) and were consistent with clinically described ODE. All changes were reversible in all participants after descent. There was no significant correlation between parameters of ODE and AMS, SpO2 or HR. Conclusions/Significance Exposure to high altitude leads to reversible ODE in the majority of healthy subjects. However, these changes did not correlate with AMS or basic physiologic parameters such as SpO2 and HR. For the first time, a quantitative approach has been used to assess these changes during acute, non-acclimatized high altitude exposure. In conclusion, ODE presents a reaction of the body to high altitude exposure unrelated to AMS.