Miracle-dz/UniFAR-FTUs huggingface dataset:
Frequent aberrant methylation of p16INK4a in primary rat lung tumors

The p16INK4a (p16) tumor suppressor gene is frequently inactivated by homozygous deletion or methylation of the 5' CpG island in cell lines derived from human non-small-cell lung cancers. However, the frequency of dysfunction in primary tumors appears to be significantly lower than that in cell lines. This discordance could result from the occurrence or selection of p16 dysfunction during cell culture. Alternatively, techniques commonly used to examine tumors for genetic and epigenetic alterations may not be sensitive enough to detect all dysfunctions within the heterogeneous cell population present in primary tumors. If p16 inactivation plays a central role in development of non-small-cell lung cancer, then the frequency of gene inactivation in primary tumors should parallel that observed in cell lines. The present investigation addressed this issue in primary rat lung tumors and corresponding derived cell lines. A further goal was to determine whether the aberrant p16 gene methylation seen in human tumors is a conserved event in this animal model. The rat p16 gene was cloned and sequenced, and the predicted amino acid sequence of its product found to be 62% homologous to the amino acid sequence of the human analog. Homozygous deletion accounted for loss of p16 expression in 8 of 20 cell lines, while methylation of the CpG island extending throughout exon 1 was observed in 9 of 20 cell lines. 2-Deoxy-5-azacytidine treatment of cell lines with aberrant methylation restored gene expression. The methylated phenotype seen in cell lines showed an absolute correlation with detection of methylation in primary tumors. Aberrant methylation was also detected in four of eight primary tumors in which the derived cell line contained a deletion in p16. These results substantiate the primary tumor as the origin for dysfunction of the p16 gene and implicate CpG island methylation as the major mechanism for inactivating this gene in the rat lung tumors examined. Furthermore, rat lung cancer appears to be an excellent model in which to investigate the mechanisms of de novo gene methylation and the role of p16 dysfunction in the progression of neoplasia.
Mechanism of Sperm Immobilization by Escherichia coli

Aim. To explore the influence of Escherichia coli on the motility of human spermatozoa and its possible mechanism. Methods. Highly motile preparations of spermatozoa from normozoospermic patients were coincubated with Escherichia coli for 4 hours. At 1, 2 and 4 hours of incubation, sperm motility was determined. The factor responsible for sperm immobilization without agglutination was isolated and purified from filtrates. Results. This report confirms the immobilization of spermatozoa by E. coli and demonstrates sperm immobilization factor (SIF) excreted by E. coli. Further this factor was purified by ammonium sulfate precipitation, gel permeation chromatography, and ion-exchange chromatography. Purified SIF (56 kDa) caused instant immobilization without agglutination of human spermatozoa at 800 μg/mL and death at 2.1 mg/mL. Spermatozoa incubated with SIF revealed multiple and profound alterations involving all superficial structures of spermatozoa as observed by scanning electron microscopy. Conclusion. In conclusion, these results have shown immobilization of spermatozoa by E. coli and demonstrate a factor (SIF) produced and secreted by E. coli which causes variable structural damage as probable morphological correlates of immobilization.
Evaluation of Islanding Detection Methods for Utility-Interactive Inverters in Photovoltaic Systems

This report describes the various methods and circuits that have been developed to detect an islanding condition for photovoltaic applications and presents three methods that have been developed to test those methods and circuits. Passive methods for detecting an islanding condition basically monitor parameters such as voltage and frequency and/or their characteristics and cause the inverter to cease converting power when there is sufficient transition from normal specified conditions. Active methods for detecting the island introduce deliberate changes or disturbances to the connected circuit and then monitor the response to determine if the utility grid with its stable frequency, voltage and impedance is still connected. If the small perturbation is able to affect the parameters of the load connection within prescribed requirements, the active circuit causes the inverter to cease power conversion and delivery of power to the loads. The methods not resident in the inverter are generally controlled by the utility or have communications between the inverter and the utility to affect an inverter shut down when necessary. This report also describes several test methods that may be used for determining whether the anti-islanding method is effective. The test circuits and methodologies used in the U.S. have been chosenmore » to limit the number of tests by measuring the reaction of a single or small number of inverters under a set of consensus-based worst-case conditions. « less
How to visualize the spider mite silk?

Tetranychus urticae (Acari: Tetranychidae) is a phytophagous mite that forms colonies of several thousand individuals. Like spiders, every individual produces abundant silk strands and is able to construct a common web for the entire colony. Despite the importance of this silk for the biology of this worldwide species, only one previous study suggested how to visualize it. To analyze the web structuration, we developed a simple technique to dye T. urticae'silk on both inert and living substrates. Fluorescent brightener 28 (FB) (Sigma F3543) diluted in different solvents at different concentrations regarding the substrate was used to observe single strands of silk. On glass lenses, a 0.5% dimethyl sulfoxide solution was used and on bean leaves, a 0.1% aqueous solution. A difference of silk deposit was observed depending the substrate: rectilinear threads on glass lenses and more sinuous ones on bean leaves. This visualizing technique will help to carry out future studies about the web architecture and silk used by T. urticae. It might also be useful for the study of other silk‐spinning arthropods. Microsc. Res. Tech. 2009. © 2009 Wiley‐Liss, Inc.
Properties of Dust Grains in Planetary Nebulae. I. The Ionized Region of NGC 6445

One of the factors influencing the spectral evolution of a planetary nebula is the fate of the dust grains that are emitting the infrared continuum. Several processes have been proposed that either destroy the grains or remove them from the ionized region. To test whether these processes are effective, we study new infrared spectra of the evolved nebula NGC 6445. These data show that the thermal emission from the grains is very cool and has a low flux compared to Hβ. A model of the ionized region is constructed, using the photoionization code CLOUDY 90.05. Based on this model, we show from depletions in the gas-phase elements that little grain destruction can have occurred in the ionized region of NGC 6445. We also argue that dust-gas separation in the nebula is not plausible. The most likely conclusion is that grains are residing inside the ionized region of NGC 6445 and that the low temperature and flux of the grain emission are caused by the low luminosity of the central star and the low optical depth of the grains. This implies that the bulk of the silicon-bearing grains in this nebula were able to survive exposure to hard-UV photons for at least several thousands of years, contradicting previously published results. A comparison between optical and infrared diagnostic line ratios gives a marginal indication for the presence of a t2 effect in the nebula. However, the evidence is not convincing and the differences could also be explained by uncertainties in the absolute flux calibration of the spectra, the aperture corrections that have been applied, or the collisional cross sections. The photoionization model allows an accurate determination of the central star temperature based on model atmospheres. The resulting value of 184 kK is in good agreement with the average of all published Zanstra temperatures based on blackbody approximations. The off-source spectrum taken with LWS clearly shows the presence of a warm cirrus component with a temperature of 24 K as well as a very cold component with a temperature of 7 K. Since our observation encompasses only a small region of the sky, it is not clear how extended the 7 K component is and whether it contributed significantly to the Far-Infrared Absolute Spectrophotometer (FIRAS) spectrum taken by COBE. Because our line of sight is in the Galactic plane, the very cold component could be a starless core.
Finding Dense Subgraphs withMathematical

The Maximum Dispersion problem asks for a partition of a given graph into p vertex-disjoint sets, each of them having at most k vertices. The goal is to maximize the total edge-weight of the induced subgraphs. We present the rst LP-based approximation algorithm. For the special case of computing a single subgraph, the Heaviest Subgraph problem, we analyze a randomized algorithm which uses a semideenite programming relaxation.
The U.S. Gender Pay Gap in the 1990S: Slowing Convergence

Using Michigan Panel Study of Income Dynamics (PSID) data, the authors study the slowdown in the convergence of female and male wages in the 1990s compared to the 1980s. They find that changes in human capital did not contribute to the slowdown, since women's relative human capital improved comparably in the two decades. Occupational upgrading and deunionization had a larger positive effect on women's relative wages in the 1980s than in the 1990s, explaining part of the slower 1990s convergence. However, the largest factor was a much faster reduction of the “unexplained” gender wage gap in the 1980s than in the 1990s. The evidence suggests that changes in labor force selectivity, changes in gender differences in unmeasured characteristics and in labor market discrimination, and changes in the favorableness of demand shifts each may have contributed to the slowing convergence of the unexplained gender pay gap.
Pronunciation Difference between Public and Private Basic School Pupils in Ghana

There is a general perception that pupils who attend private basic schools speak better English than those in public schools, but there has not been an investigation to ascertain whether indeed there is a distinction between the English language skills of a private basic school pupil and a public basic school pupil. The present study seeks to show the English pronunciation difference between public and private basic school pupils and also to show which of them speak better English. Recordings from pupils from both categories of schools obtained from two regions of Ghana are analysed. The findings show that the pronunciation of English segments is a way to differentiate between these pupils. The English vowels / ɪ /, / ɑː /, / eɪ /, / aʊ /, / ɪə / and the voiced palato-alveolar consonant / ʒ / are the English segments that distinguish public and private basic school pupils used for the study. In all the instances where a distinction exists between them, the direction of the pronunciation of the private basic school pupils alongside their reading skills support the claim that they speak better English.
Modeling Microblogging Adoption in the Enterprise

Despite a broad range of collaboration tools already available, enterprises continue to look for ways to improve internal and external communication. Microblogging is such a new communication channel with some considerable potential to improve intra-firm transparency and knowledge sharing. However, the adoption of such social software presents certain challenges to enterprises. Based on the results of four focus group sessions, we identified several new constructs to play an important role in the microblogging adoption decision. Examples include privacy concerns, communication benefits, perceptions regarding signal-to-noise ratio, as well codification effort. Integrating these findings with common views on technology acceptance, we formulate a model to predict the adoption of a microblogging system in the workspace. Our findings serve as an important guideline for managers seeking to realize the potential of microblogging in their company.
Helping Students Understand Challenging Topics in Science Through Ontology Training

Chi (2005) proposed that students experience difficulty in learning about physics concepts such as light, heat, or electric current because they attribute to these concepts an inappropriate ontological status of material substances rather than the more veridical status of emergent processes. Conceptual change could thus be facilitated by training students in the appropriate ontology prior to physics instruction. We tested this prediction by developing a computer-based module whereby participants learned about emergent processes. Control participants completed a computer-based task that was uninformative with respect to ontology. Both groups then studied a physics text concerned with electricity, including explanations and a posttest. Verbal explanations and qualitative problem solutions revealed that experimental students gained a deeper understanding of electric current.
An adaptive complexity reduction scheme with fast prediction unit decision for HEVC intra encoding

The next-generation High Efficiency Video Coding (HEVC) standard aims at providing double compression compared to the state-of-the-art H.264/AVC standard. However, this improved compression efficiency accompanies high computational complexity, which is primarily due to the recursive nature of the Coding Tree Unit structure and complex Rate-Distortion (RD) Optimization of Prediction Units (PU). In this paper, we propose a content-driven adaptive complexity reduction scheme that employs an a priori PU size selection algorithm. We adaptively combine smaller PUs into larger PUs depending upon the video frame contents under consideration. Our scheme eliminates the need for recursive or iterative RD cost comparisons to select the best PU size for an HEVC intra encoder. Experimental results demonstrate that the proposed scheme provides significant time savings (on average 43.74 %) for HEVC intra encoding, while incurring an insignificant video quality loss (on average -0.048 dB BD-PSNR).
How College Students Understand Their Self-Control Development: A Qualitative Analysis

Abstract Recent research has shown the importance of the positive benefits of high-levels of self-control for both individuals and society. Yet, we know only a limited amount about how college students understand and apply self-control. This qualitative study examined how a national sample of 75 students defined self-control, whether or not they believed that they had developed self-control in college, and where they found help developing it. The analysis illuminated situational strategies that students found helpful in strengthening the self-control muscle, such as advice from faculty and scheduling. The findings also affirm the important role that trusted relationships play in self-control development and guidance.
Pre-Grasp Interaction as a Manipulation Strategy for Movable Objects

Robotic systems have yet to match humans in skill for movement planning and tool manipulation. For example, humans can robustly grasp and manipulate objects even under task variation. However, successful grasping methods for robotic manipulators are often limited to structured environmental conditions. Our dual goals are to understand manipulation actions in humans and to add such skills to a robot manipulator's repertoire. In particular, we examine strategies for object acquisition, which is a common first component in manipulation actions. Many approaches to automating robot motion for object acquisition have focused on reach-to-grasp tasks, where the arm motion and hand configuration are planned for grasping an object. With these solutions, the object placement often remains fixed in the environment until the object is carefully grasped from its presented configuration. In contrast, humans often take advantage of an object's movability to reorient and regrasp an object during the acquisition process. This thesis investigates how such pre-grasp interaction can improve grasping through preparatory manipulation of the object's configuration. Specifically we studied the strategy of pre-grasp object rotation for grasp acquisition prior to a transport task. First, we examined the human performance of the pre-grasp rotation strategy. A larger amount of pre-grasp object rotation correlated to a greater lifting capability, or maximum payload, of the grasping posture used at the time of object acquisition. In addition, when the task was more difficult due to increased object mass or increased upright orientation constraints, there was decreased variability in the object orientation selected for grasping. Second, we developed and evaluated a method for planning pre-grasp rotation for a robot manipulator. Our results show that the pre-grasp rotation strategy can improve a robot's manipulation capabilities by both extending the effective workspace for a transport task and improving the quality of the transport action.
Noninvasive evaluation of intestinal lactase with 4-galactosylxylose: comparison with 3- and 2-galactosylxylose and optimization of the method in rats.

BACKGROUND Urinary excretion of D-xylose by suckling rats after ingestion of a mixture of 4-, 3-, and 2-galactosylxyloses reflects lactase activity in vivo. We aimed to select the most convenient of these disaccharides for detecting changes of the enzyme activity in vivo and to optimize the method. METHODS 4-, 3-, and 2-galactosylxyloses were synthesized and purified, then orally administered to suckling rats of different ages. D-Xylose was measured colorimetrically by the phloroglucinol reaction in urine and plasma. Lactase activity was determined in extracts of small intestine mucosa with lactose, galactosylxyloses, and phlorizin as substrates. RESULTS D-Xylose appeared in the urine in a dose-dependent manner after ingestion of any of the 3 galactosylxylose disaccharides. Correlation between D-xylose elimination and intestinal lactase activity was highest with 4-galactosylxylose (r = 0.97; n = 24), lower with 2-galactosylxylose (r = 0.89; n = 24), and lowest with 3-galactosylxylose (r = 0.34; n = 23). The kinetic properties of intestinal lactase accounted for these differences. D-Xylose concentration in plasma after administration of 4-galactosylxylose also correlated with lactase activity (r = 0.93; n = 33). CONCLUSIONS 4-Galactosylxylose is the most suitable compound for the evaluation of lactase activity in vivo. Measurement of the derived D-xylose in either urine or blood gives an estimate of the total lactose digestive capacity of the small intestine. The optimized method holds promise for development of a simple, low-cost, and reliable new test for the noninvasive diagnosis of hypolactasia.
The inflammatory cytokine interleukin-23 is elevated in lung cancer, particularly small cell type

Aim of the study Interleukin (IL)-17 and IL-23 play roles in inflammation and autoimmunity. The function of the IL-17/IL-23 pathway has not been completely evaluated in cancer patients. We aimed to investigate serum IL-17 and IL-23 levels and their relationship with clinicopathological and biochemical parameters in lung cancer patients. Material and methods Forty-five lung cancer patients and 46 healthy volunteers were included in the study. IL-17 and IL-23 measurements were made with the ELISA method. The ages of patients (53–84 years) and healthy subjects (42–82 years) were similar. Results Serum IL-23 levels were higher in lung cancer patients than in healthy subjects (491.27 ±1263.38 pg/ml vs. 240.51 ±233.18 pg/ml; p = 0.032). IL-23 values were higher in small cell lung cancer (SCLC) patients than in non-small cell lung cancer (NSCLC) patients (1325.30 ±2478.06 pg/ml vs. 229.15 ±103.22 pg/ml; p = 0.043). Serum IL-17 levels were lower in the patients, but the difference was not statistically significant (135.94 ±52.36 pg/ml vs. 171.33 ±133.51 pg/ml; p = 0.124). Presence of comorbid disease (diabetes mellitus, hypertension or chronic obstructive lung disease) did not have any effect on the levels of IL-17 or IL-23. Erythrocyte sedimentation rate values were positively correlated with cytokine levels, but serum albumin levels were negatively correlated. Conclusions Serum IL-23 levels are elevated in lung cancer patients, particularly those with SCLC. IL-17 and IL-23 values are correlated with inflammatory markers in the patients.
Perceptually based downscaling of images

We propose a perceptually based method for downscaling images that provides a better apparent depiction of the input image. We formulate image downscaling as an optimization problem where the difference between the input and output images is measured using a widely adopted perceptual image quality metric. The downscaled images retain perceptually important features and details, resulting in an accurate and spatio-temporally consistent representation of the high resolution input. We derive the solution of the optimization problem in closed-form, which leads to a simple, efficient and parallelizable implementation with sums and convolutions. The algorithm has running times similar to linear filtering and is orders of magnitude faster than the state-of-the-art for image downscaling. We validate the effectiveness of the technique with extensive tests on many images, video, and by performing a user study, which indicates a clear preference for the results of the new algorithm.
Automated Protein Turnover Calculations from 15N Partial Metabolic Labeling LC/MS Shotgun Proteomics Data

Protein turnover is a well-controlled process in which polypeptides are constantly being degraded and subsequently replaced with newly synthesized copies. Extraction of composite spectral envelopes from complex LC/MS shotgun proteomics data can be a challenging task, due to the inherent complexity of biological samples. With partial metabolic labeling experiments this complexity increases as a result of the emergence of additional isotopic peaks. Automated spectral extraction and subsequent protein turnover calculations enable the analysis of gigabytes of data within minutes, a prerequisite for systems biology high throughput studies. Here we present a fully automated method for protein turnover calculations from shotgun proteomics data. The approach enables the analysis of complex shotgun LC/MS 15N partial metabolic labeling experiments. Spectral envelopes of 1419 peptides can be extracted within an hour. The method quantifies turnover by calculating the Relative Isotope Abundance (RIA), which is defined as the ratio between the intensity sum of all heavy (15N) to the intensity sum of all light (14N) and heavy peaks. To facilitate this process, we have developed a computer program based on our method, which is freely available to download at http://promex.pph. univie.ac. at/protover.