Miracle-dz/UniFAR-FTUs huggingface dataset:
Down-Regulation of MHC Class II Expression through Inhibition of CIITA Transcription by Lytic Transactivator Zta during Epstein-Barr Virus Reactivation1

The presentation of peptides to T cells by MHC class II molecules is of critical importance in specific recognition to a pathogen by the immune system. The level of MHC class II directly influences T lymphocyte activation. The aim of this study was to identify the possible mechanisms of the down-regulation of MHC class II expression by Zta during EBV lytic cycle. The data in the present study demonstrated that ectopic expression of Zta can strongly inhibit the constitutive expression of MHC class II and CIITA in Raji cells. The negative effect of Zta on the CIITA promoter activity was also observed. Scrutiny of the DNA sequence of CIITA promoter III revealed the presence of two Zta-response element (ZRE) motifs that have complete homology to ZREs in the DR and left-hand side duplicated sequence promoters of EBV. By chromatin immunoprecipitation assays, the binding of Zta to the ZRE221 in the CIITA promoter was verified. Site-directed mutagenesis of three conserved nucleotides of the ZRE221 substantially disrupted Zta-mediated inhibition of the CIITA promoter activity. Oligonucleotide pull-down assay showed that mutation of the ZRE221 dramatically abolished Zta binding. Analysis of the Zta mutant lacking DNA binding domain revealed that the DNA-binding activity of Zta is required for the trans repression of CIITA. The expression of HLA-DRα and CIITA was restored by Zta gene silencing. The data indicate that Zta may act as an inhibitor of the MHC class II pathway, suppressing CIITA transcription and thus interfering with the expression of MHC class II molecules.
Radiation pattern reconfigurable antenna using double layer tunable graphene superstrate

A novel radiation pattern reconfigurable antenna operating at Ka-band is presented based on tunable graphene superstrate. The superstrate consists of two symmetrical DC biased graphene-aluminia-silicon structures separated by a dielectric slab, which is placed half a wavelength far away from the top of the waveguide fed slot source, thus forms a Fabry-Parot resonant antenna with tunable radiation gain and beam width. The superstrate is analyzed by transfer matrix method and shows an adjustable transmission response with different surface resistivity of the graphene film. By tuning the graphene resistivity through biasing voltage between graphene layer and silicon layer, a Ka-band antenna with reconfigurable radiation gain and beam width is well designed and demonstrated.
Epidemiology of Bartonella Infection in Rodents and Shrews in Taiwan

During the period of August 2002 and November 2004, an epidemiological investigation for Bartonella infection was conducted in small mammals in Taiwan. Using whole blood culture on chocolate agar plates, Bartonella species were successfully isolated from 41.3% of the 310 animals tested. The isolation rate of Bartonella species varied among different animal species, including 52.7% of the 169 Rattus norvegicus, 28.6% of the 126 Sucus murinus, 10% of the 10 Rattus rattus and 66.7% of the three Rattus losea. Bacteremia prevalence also varied with the origin of the animals, as 56.2% of the animals captured on farms, 38.6% of the ones captured at harbour sites and 11.8% of the animals captured from urban areas were bacteremic. Through molecular analysis of the gltA gene and 16S/23S intergenic spacer region, genetic diversity of Bartonella organisms was identified, including strains closely related to Bartonella tribocorum, Bartonella grahamii, Bartonella elizabethae, Bartonella phoceensis and Bartonella rattimassiliensis. Moreover, this is the first report of zoonotic B. elizabethae and B. grahamii identified in R. losea, the lesser rice‐field rat. Various Bartonella species were identified in R. norvegicus, compared to 97.2% of Suncus murinus with unique Bartonella species. By indirect immunofluorescence antibody test, using various rodent Bartonella species as antigens, consistently low percentage of seropositivity implied that small mammals may play a role as competent reservoirs of Bartonella species in Taiwan. Future studies need to be conducted to determine whether these Bartonella species would be responsible for human cases of unknown fever or febrile illness in Taiwan, especially zoonotic B. elizabethae and B. grahamii.
Industry-academia collaborations in software engineering: An empirical analysis of challenges, patterns and anti-patterns in research projects

Research collaboration between industry and academia supports improvement and innovation in industry and helps to ensure industrial relevance in academic research. However, many researchers and practitioners believe that the level of joint industry-academia collaboration (IAC) in software engineering (SE) research is still relatively low, compared to the amount of activity in each of the two communities. The goal of the empirical study reported in this paper is to exploratory characterize the state of IAC with respect to a set of challenges, patterns and anti-patterns identified by a recent Systematic Literature Review study. To address the above goal, we gathered the opinions of researchers and practitioners w.r. t. their experiences in IAC projects. Our dataset includes 47 opinion data points related to a large set of projects conducted in 10 different countries. We aim to contribute to the body of evidence in the area of IAC, for the benefit of researchers and practitioners in conducting future successful IAC projects in SE. As an output, the study presents a set of empirical findings and evidence-based recommendations to increase the success of IAC projects.
Market Integration and Efficiency of Indian Stock Markets : A Study of NSE

The study tries to explore the dynamics of comovement of stock markets of USA ,Brazil, Mexico, China and India during the period from January, 1996 to July, 2007 using daily closing price data. It attempts to analyze the speed of adjustment coefficients using daily, weekly and monthly data. It also tries to examine the efficiency of the stock market as a result of initiatives and regulatory measures taken by NSE and SEBI respectively. The long-term relationships among the markets are analyzed using the Johansen and Juselius multivariate cointegration approach. Short-run dynamics are captured through vector error correction models. The analysis reveals that there is an evidence of cointegration among the markets demonstrating that stock prices in the countries studied here share a common trend. The results reveal that the speed of adjustment of Indian stock market is higher than other stock markets of the world. The analysis of speed of adjustment coefficient reveals that there are significant underreaction and overreaction alongwith full adjustment are observed at both shorter as well as longer differencing intervals during first period i.e. 1996-2001 using daily data while the second period i.e. 2002-2007 indicates significant overreactions with higher speed of adjustment coefficient. The results of event methodology reveal that the stock market become efficient at information processing in recent times with regard to few regulatory measures taken by SEBI. JEL Classification: G14, C32
A Controlled, Randomized, Double‐blind Study of Ketorolac for Postoperative Analgesia After Plastic Surgery

The present study was designed to evaluate the efficacy and safety of ketorolac compared with metamizol (Nolotil) in the control of pain after plastic surgery. Almost no literature exists on postoperative pain control in this specialty. A multiple-dose, randomized, double-blind study of parallel design was carried out. One hundred patients received either ketorolac 30 mg intramuscularly (IM) every 8 hours or metamizol 2 g IM every 8 hours for postoperative analgesia during the first 48 postoperative hours. Pain severity was assessed using a visual analog scale. Adverse events were recorded. There were no significant differences between the groups in terms of pain scores or frequency of adverse events throughout the study. Two postoperative hemorrhages were recorded in the ketorolac group. Ketorolac and metamizol were found to be equally safe and effective in reducing postoperative pain after plastic surgery. It should be noted that 52% of patients in the ketorolac group and 48% in the metamizol group considered their postoperative analgesia to be very good. Nevertheless, for surgical procedures or for patients in whom postoperative hematoma formation is a particular concern, ketorolac probably should not be used.
On the perceptual specificity of memory representations

The present paradigm involved manipulating the congruency of the perceptual processing during the study and test phases of a recognition memory task. During each trial, a gaze-contingent window was used to limit the stimulus display to a region either inside or outside a 10° square centred on the participant's point of gaze, constituting the Central and Peripheral viewing modes respectively. The window position changed in real time in concert with changes in gaze position. Four experiments documented better task performance when viewing modes at encoding and retrieval matched than when they mismatched (i.e., perceptual specificity effects). Viewing mode congruency effects were demonstrated with both verbal and non-verbal stimuli. The present research is motivated and discussed in terms of theoretical views proposed in the 1970s including the levels-of-processing framework and the proceduralist viewpoint. In addition, implications for current processing and multiple systems views of memory are outlined.
Comorbidities and Risk of Chemotherapy-Induced Peripheral Neuropathy Among Participants 65 Years or Older in Southwest Oncology Group Clinical Trials.

BACKGROUND Neuropathy is a debilitating toxicity associated with various chemotherapy agents. We evaluated the association between common comorbid conditions and the development of peripheral neuropathy in patients treated with taxane-based chemotherapy. METHODS We examined the Southwest Oncology Group database to identify phase II and III trials that included taxane therapy from 1999 to 2011. We linked the Southwest Oncology Group clinical records to Medicare claims data according to Social Security number, sex, and date of birth. The following disease conditions potentially associated with peripheral neuropathy were evaluated: diabetes, hypothyroidism, hypercholesterolemia, hypertension, varicella zoster, peripheral vascular disease, and autoimmune diseases. Multivariate logistic regression was used to model the odds of experiencing grade 2 to 4 neuropathy. RESULTS A total of 1,401 patients from 23 studies were included in the analysis. Patients receiving paclitaxel were more likely to experience grade 2 to 4 neuropathy compared with docetaxel (25% v 12%, respectively; OR, 2.20; 95% CI, 1.52 to 3.18; P < .001). The inclusion of a platinum agent was also associated with greater neuropathy (OR, 1.68; 95% CI, 1.18 to 2.40; P = .004). For each increase in age of 1 year, the odds of neuropathy increased 4% (P = .006). Patients with complications from diabetes had more than twice the odds of having neuropathy (OR, 2.13; 95% CI, 1.31 to 3.46; P = .002) compared with patients with no diabetes. In contrast, patients with autoimmune disease were half as likely to experience neuropathy (OR, 0.49; 95% CI, 0.24 to 1.02; P = .06). The other conditions were not associated with neuropathy. CONCLUSION We found that in addition to drug-related factors, age and history of diabetes were independent predictors of the development of chemotherapy-induced peripheral neuropathy. Interestingly, we also observed that a history of autoimmune disease was associated with reduced odds of neuropathy. Patients with diabetic complications may choose to avoid paclitaxel or taxane plus platinum combination therapies if other efficacious options exist.
A Support System for Basic Practice of Playing the Drums

We proposed and developed a computer system that can be used to help drummers to practise a technique called here ‘drum-loop performance’ (DLP)” using a MIDI drums. We define DLP as repeatedly playing basic rhythm patterns that consist of one or two measures under given tempi. Training in this way as much as possible is a highly effective way for drummers to develop their basic skills. Our research covers three key areas. First, we have investigated what kind of features of a player’s performance should be used to evaluate their proficiency. Second, we have decided on criteria for evaluating performance proficiency, and, third, we have developed ways of visually representing the relevant information to the player. Moreover, on the basis of the developed way, we constructed a support system which can be used to visualize the player's performance situations in real-time. Using the system, a player visually reviews his/her performances while playing. Therefore, a player should be able to immediately recognize performance errors, and be aware of his/her tendencies and weak points much more easily than by merely listening his/her performance.
Effects of cattle grazing on herbage quality in a herbaceous Mediterranean rangeland

The main objective of this study was to determine to what extent grazing pressure and timing modulate the seasonal progression of herbage quality in hilly Mediterranean grassland systems. The study was conducted during six consecutive years between 2003 and 2008 at the Karei Deshe experimental farm, in eastern Galilee, Israel, dominated by rich hemicryptophytic grassland. Treatments included two different grazing intensities, heavy and moderate, with 1·1 and 0·55 cows ha−1, respectively, and management that included a continuous and a seasonal stocking system that was divided at both intensities into early and late grazing. Herbage samples were analysed for digestibility, crude protein, neutral detergent fibre and acid detergent fibre contents. Significant differences in herbage quality were found between seasons and years. Herbage quality was significantly higher in paddocks grazed continuously or early in the season. Herbage quality increased with increasing grazing intensity as younger herbage and continued re-growth were maintained during the green season. The greater difference between herbage qualities was found at the peak of the growing season. The significant differences found in herbage quality emphasize the importance of the decision-making process aimed at improving cattle grazing management in Mediterranean rangelands and its consequences for the sustainability of the system.
Treatment for Idiopathic Toe-Walking: Results at Skeletal Maturity

Thirteen skeletally mature subjects who had been treated as children for idiopathic toe-walking underwent gait analysis and calf muscle strength testing at an average of 10.8 years from the last intervention. Six had had serial casting only; seven had had either a percutaneous tendo Achilles lengthening or a Baker's gastroc-soleus lengthening. Sagittal plane kinematics at the ankle was altered in 12 of the 13 subjects, but the changes were detectable visually in only 3 subjects. One subject had increased ankle plantarflexion at initial contact, but the other 12 subjects had a normal first rocker. Peak ankle dorsiflexion in stance averaged only 9°, and 11 of the subjects had a peak ankle dorsiflexion in stance greater than 2 standard deviations below normative values. Ankle dorsiflexion was also restricted on passive measures, but there was no correlation between ankle dorsiflexion non-weight-bearing and in gait. Inversion of second rocker was seen in two subjects with peak ankle dorsiflexion in stance occurring before 25% of the gait cycle. Power generation by the calf during a single heel-rise test was variable between subjects but within normative values compared with controls. The authors conclude that most subjects showed persistent changes in ankle kinematics and kinetics despite treatment but that this was not detectable visually in most subjects.
Interleukin-4 and-13 promote basolateral secretion of H 1 and cathepsin L by glomerular epithelial cells

Van Den Berg, José G. , Jan Aten, Carla Annink, Jan H. Ravesloot, Ekkehard Weber, and Jan J. Weening. Interleukin-4 and -13 promote basolateral secretion of H and cathepsin L by glomerular epithelial cells. Am J Physiol Renal Physiol 282: F26–F33, 2002. First published August 8, 2001; 10.1152/ajprenal.00102. 2002. —Minimal change nephrosis (MCN) is characterized by massive proteinuria and ultrastructural alterations of glomerular visceral epithelial cells (GVEC). MCN has been associated with elevated production of interleukin (IL)-13 by circulating T lymphocytes and with T helper 2 lymphocyte-dependent conditions. We recently showed that GVEC express IL-4 and IL-13 receptors and that IL-4 and IL-13 increase transcellular ion transport over GVEC monolayers. We therefore hypothesized that IL-13 may directly injure GVEC. Here we demonstrate that IL-4 and IL-13 induce bafilomycin A1-sensitive basolateral proton secretion by cultured GVEC, indicating involvement of vacuolar H-ATPase. The effects of IL-4 and IL-13 were accompanied by redistribution of the small GTPases Rab5b and Rab7, as shown by confocal immunofluorescence studies. Furthermore, Western blot analysis and assays for cysteine proteinase activity revealed basolateral secretion of the lysosomal proteinase procathepsin L by cultured GVEC, stimulated by IL-4 and IL-13. We speculate that IL-4 and IL-13 influence intracellular trafficking of proteins and promote proteolysis at the basolateral surface of GVEC, which may play a pathogenic role in altered glomerular permeability.
Modulation of tamoxifen sensitivity by antisense Bcl‐2 and trastuzumab in breast carcinoma cells

Because the overexpression of HER‐2 and Bcl‐2 is associated with resistance to tamoxifen (TAM), the authors examined the effect of antisense (AS) Bcl‐2 on sensitivity to TAM compared with the effect of trastuzumab on sensitivity to TAM in breast carcinoma cell lines.
Numerical Approximations to the Boussinesq Equations

Joshua B Wilson Numerical Approximations to the Boussinesq Equations (Under the direction of Alberto Scotti) A study of the Boussinesq equations in one dimension is presented. These equations describe the nonlinear wave propagation of a free surface under inviscid, incompressible, and irrotational constraints. Physically, they describe the motion of long waves (compared to the depth of the domain) which find applications in oceanography and coastal engineering. Dispersive properties are examined and numerical solutions are found (O(∆x2,∆t2)) using a hybrid Finite Volume / Finite Differencing Method. Since all of the numerical code is original (written in C++/Python), a detailed explanation of the numerical method is given. To validate the numerical model, convergence rates are computed using analytic solutions found by S. Ding and X. Zhao [4]. Special attention is given to solitary waves (”solitons”) which can arise in systems exhibiting weakly non-linear and dispersive properties.
Representation of the coverage of mass spectrometry ionization methods in two-dimensional plots of molecular weight and polarity or dipole moment.

The coverage obtained with different mass spectrometry ionization methods for various classes of compounds is often compared in illustrations that plot the compoundmolecular weight against its polarity. These illustrations can be used to determine how an ionization method will perform with a particular class of compounds. While these illustrations appear to clearly represent the performance ranges of different ionization methods, the polarity is only plotted as broad classes of non-polar, semi-polar and polar. In addition, the shapes assigned to represent the range of efficient ionization for each ionization method appear to be arbitrary and inconsistent among different reports. Therefore, while the general performance range for an ionization method can be determined, a specific compound of interest cannot be accurately placed on one of these illustrations using its molecular weight and polarity. We conducted a literature search to investigate the origin of these illustrations, and found Maurer first proposed them to determine the best ionization technique to use as the interfacewith chromatography. Since then, these types of illustrations have been used in educational presentations on mass spectrometry and in advertising brochures for mass spectrometry products. We could not find any studies that detailed specific values being used for polarity rather than the general classes of polarity, or any explanation of the shapes selected to represent the performance ranges in these illustrations. Therefore, it could be assumed that these illustrations are impressionistic. It is likely that general knowledge of the coverage of each ionization method has been used to construct these impressionistic illustrations. For example, electron ionization (EI) and chemical ionization (CI) are known to be good for compounds with lower molecular weight and polarity, whereas atmospheric pressure chemical ionization (APCI) and electrospray ionization (ESI) are known to be good for compounds with higher molecular weight and polarity. The application of these illustrations may be limited to showing general performance ranges of different ionization methods. To move beyond this, and construct an accurate illustration of this type, a series of well-defined experiments would need to be conducted for all available ionization methods with a wide range of compounds. However, a fundamental problem with this experimental design is that the two properties (i.e. molecular weight and polarity) are not sufficient to characterize all ionization methods. The ionization efficiency can be affected by other
DIS@DIS: a system for semantic data integration under integrity constraints

The recent developments of computer and telecommunication technology, such as the expansion of the Internet and the World Wide Web, have made available to users a huge number of information sources, generally autonomous, heterogeneous and widely distributed. As a consequence, information integration has emerged as a crucial issue in many application domains, e.g., distributed databases, cooperative information systems, data warehousing, as well as in accessing distributed data over the Web.