Miracle-dz/UniFAR-FTUs huggingface dataset:
University of Groningen RNF8-Independent Lys63 Poly-Ubiquitylation Prevents Genomic Instability in Response to Replication-Associated DNA Damage Ramaekers,

The cellular response to DNA double strand breaks (DSBs) involves the ordered assembly of repair proteins at or near sites of damage. This process is mediated through post-translational protein modifications that include both phosphorylation and ubiquitylation. Recent data have demonstrated that recruitment of the repair proteins BRCA1, 53BP1, and RAD18 to ionizing irradiation (IR) induced DSBs is dependent on formation of non-canonical K63-linked polyubiquitin chains by the RNF8 and RNF168 ubiquitin ligases. Here we report a novel role for K63-ubiquitylation in response to replication-associated DSBs that contributes to both cell survival and maintenance of genome stability. Suppression of K63-ubiquitylation markedly increases large-scale mutations and chromosomal aberrations in response to endogenous or exogenous replication-associated DSBs. These effects are associated with an S-phase specific defect in DNA repair as revealed by an increase in residual 53BP1 foci. Use of both knockdown and knockout cell lines indicates that unlike the case for IR-induced DSBs, the requirement for K63ubiquitylation for the repair of replication associated DSBs was found to be RNF8-independent. Our findings reveal the existence of a novel K63-ubiquitylation dependent repair pathway that contributes to the maintenance of genome integrity in response to replication-associated DSBs. Citation: Ramaekers CHMA, van den Beucken T, Bristow RG, Chiu RK, Durocher D, et al. (2014) RNF8-Independent Lys63 Poly-Ubiquitylation Prevents Genomic Instability in Response to Replication-Associated DNA Damage. PLoS ONE 9(2): e89997. doi:10.1371/journal.pone. 0089997 Editor: Anja-Katrin Bielinsky, University of Minnesota, United States of America Received May 7, 2013; Accepted January 28, 2014; Published February 28, 2014 Copyright: 2014 Ramaekers et al. This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited. Funding: This work was financially supported by the Transnational University Limburg (30943045T to BW), the Dutch Cancer Society, the Ontario Ministry of Health and Long Term Care (OMOHLTC), the Ontario Institute for Cancer Research, and the Terry Fox Research Institute (Selective therapies program to BW). The views expressed do not necessarily reflect those of the OMOHLTC. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript. Competing Interests: The authors have declared that no competing interests exist. * E-mail: bwouters@uhnresearch.ca . These authors contributed equally to this work.
Evaluation of Cassava Genotypes for Resistance to Cassava Mosaic Disease and Agronomic Traits

Sixteen cassava genotypes comprising introductions, local landraces and improved genotypes were evaluated for two seasons in Mansa, Zambia, for their reaction to cassava mosaic disease (CMD). The study was conducted in 2009/10 and 2010/11 seasons to evaluate the reaction of cassava cultivars to CMD and agronomic traits. Cassava mosaic disease severity and leaf retention were scored at 6 months after planting (MAP) and data on yield and yield components were recorded at harvest (7 MAP). Significant genotype x season interaction for CMD, harvest index, fresh root yield, biomass, plant height, root size and leaf retention was recorded. Bangweulu, Kalaba, Chikula, Mwakamoya and Chila-7 were the most susceptible genotypes over the two seasons. Mweru, Kampolombo, TMS190, TMS3001, Tanganyika and Nalumino had low severity scores. Harvest index ranged from 0.36 (Mwakamoya) to 0.55 (Chila-7) for the combined seasons. Chila-7 had the highest fresh root yield with a mean of 0.87 kg plant-1 for the combined seasons. The resistant genotypes might be used to improve the CMD resistance of local cultivars through hybridisation.
The effects of the repetitive and reinforced oral hygiene motivation methods on plaque and inflammation markers of adolescents with fixed appliances

Amac: Sabit ortodontik tedavi goren hastalarda oral hijyen girisimlerinin yuksek standartta olmasi vazgecilmezdir. Bu calismanin amaci, tekrarli oral hijyen motivasyon (OHM) yontemlerinin sabit ortodontik tedavi goren adolesanlarda plak indeksi (PI), gingival indeks (GI) ve sondlamada kanama (SK) skorlarinda azalmayla sonuclanip sonuclanmadiginin arastirilmasidir. Yontem:Calisma grubu 90 kisiden olusmaktaydi ve uc alt gruba ayrildi: Grup I: yalniz sozel bilgilendirme (n=30), Grup II: Model uzerinde OHM yonteminin demonstrasyonu ve hastaya gozetim altinda uygulatilmasi (n=30), Grup III: Katalog uzerinde bilgilendirme ve hastaya gozetim altinda uygulatilmasi (n=30). Periodontal parametreler (PI, GI ve SK) baslangic, motivasyon sonrasi 1. ve 4. haftalarda kaydedilmis ve OHM yontemleri bu seanslarda kaydedildi ve tekrarlandi. Sonuclar: Dorduncu hafta bulgulari baslangic ile karsilastirildiginda tum gruplarda tum parametrelerde anlamli dusus bulundu (P
SEAFLOOR RELIEF RECONSTRUCTION FROM SIDE SCAN SONAR DATA

Side scan sonar is one of the most widely used imaging systems in the underwater environment. It is relatively cheap and easy to deploy, in comparison with more powerful sensors. Although side scan sonar does not provide seafloor bathymetry directly, its records are directly related to seafloor images. In the paper, the method for 3 seafloor relief reconstruction from side scan sonar data is presented. The method is based on the Shape From Shading technique and for estimation of a bottom depth at a currently processed point, it uses the information from both currently processed and previous ping. The results obtained by several versions of the developed algorithm are presented. The obtained results are promising and also show how the performance of the proposed algorithm might be improved in further work.
Entanglement of Fermions at Quantum Criticality 1

The study of entanglement properties of quantum critical many-particle systems has become a subject of intense interest. While the basic features of entanglement scaling for critical spin-1/2 systems (coupled qubits) are by now fairly well understood, entanglement properties of critical fermions (or bosons) are less well studied. In an effort to contribute to this problem, we have analyzed the single-site entanglement of a generic spin-1/2 lattice fermion system and found that (under certain provisos) this measure can be used as a reliable marker to identify and partly characterize a quantum critical point. We illustrate our findings by exact analytical results for the single-site entanglement at the magnetic and Mott–Hubbard transitions of the 1D Hubbard model and at the Mott-Hubbard transitions of the 1D Hubbard model with long-range hopping. PACS numbers: 71.10. Fd, 03.65. Ud, 03.67. Mn, 05.70. Jk DOI: 10.1134/S0030400X07070041 MULTIPARTICLE PROBLEMS OF QUANTUM OPTICS AND QUANTUM INFORMATICS
Measuring student satisfaction with vocational education and training services ... and getting it right

This paper highlights the importance of using quality survey instruments to collect data about student satisfaction. It discusses the challenges involved in collecting quality student satisfaction data and describes a structural equation model as a possible means of designing and collecting this data. A national survey instrument has been developed which will be used by all registered training organisations (RTOs) to collect their learner satisfaction data. The development of this instrument validates the key point made in this paper: that it is essential for RTOs to have a quality survey tool in order to improve the validity of learner satisfaction surveys across the VET sector.
A Random Subspace based Classification for Temporal Data of Satellite Images

Change detection techniques are playing major role in order to know the changes in different situations. Using these methods, we can know the changes that are occurred or occurring on earth due to climatically changes or degradation of certain areas. Change detection will help us to observe the different areas on earth remotely. The correct changes can be obtained via proper classification methods. Generally a single classifier may not meet the current requirement. So that ensemble classifiers are required. Wrong classification results incorrect changes. In this paper, ensemble subspace classifier is discussed to get accurate classification thereby accurate changes can be obtained. The changed area is calculated based on the comparison of the number of pixels in each class of two temporal images. Here we have shown the changed pixels in each class and also changed areas in each and every class.
Draft 1 Genotype and provenance-related variation in the leaf surface secondary metabolites of silver 1 birch 2

Complete List of Authors: Deepak, Maya; Ita-Suomen yliopisto Luonnontieteiden ja metsatieteiden tiedekunta, Environmetnal and Biological Sciences Lihavainen, Jenna; Ita-Suomen yliopisto Luonnontieteiden ja metsatieteiden tiedekunta, Department of Environmental and Biological Sciences; University of Helsinki, Department of Biosciences Keski-Saari, Sa ita; Ita-Suomen yliopisto Luonnontieteiden ja metsatieteiden tiedekunta, Department of Environmental and Biological Sciences Kontunen-Soppela, Sari; University of Eastern Finland, Department of Biology Salojärvi, Jarkko; Helsingin yliopisto Matemaattis-luonnontieteellinen tiedekunta Tenkanen, Antti; Ita-Suomen yliopisto Luonnontieteiden ja metsatieteiden tiedekunta, Department of Environmental and Biological Sciences Heimonen, Kaisa; Ita-Suomen yliopisto Luonnontieteiden ja metsatieteiden tiedekunta, Department of Environmental and Biological Sciences Oksanen, Elina; University of Eastern Finland, Department of Biology Keinänen, Markku; Ita-Suomen yliopisto Luonnontieteiden ja metsatieteiden tiedekunta, Deparment of Environmental and Biological Sciences
Planck Constant in the Special Theory of Relativity (Fast Wave–Wave–Particle Triality)

Aims: The Planck’s constant has two parts; one part shows the 'rest action', 'rest energy' of waves and another part shows the 'kinetic action', 'kinetic energy' of waves. These two parts change in a synchronized manner and they make possible a superluminal velocity of the particle in tunneling. Particles (waves) with superluminal velocity are fast waves. Methodology: The de Broglie wavelength describes wave-particle duality. The de Broglie wavelength formula and Planck’s law seem to be contradicted in tunneling. Tunneling fast waves have longer wavelengths than "normal" waves. According to the de Broglie formula, a longer wavelength means smaller momentum (smaller energy). But fast waves have the same amount of energy as normal waves, since they can be transformed into each other. The barrier in tunneling cannot be seen as an optical medium, rather a special kind of space made out of matter that other matter is able to use as space. Here we show that the 'rest actions', 'rest energies' of fast waves in different spaces can resolve the contradiction. This 'rest action' of the wave is a new concept that hasn't been considered. It is hidden in the Planck constant. Planck’s constant doesn’t change, but it has two changing parts. The two parts of Planck’s constant work together. The values of these parts depend on the velocity of the fast wave. Comparing these two parts, we can introduce the moving indicator of the particle called ő. (Pronunciation is ɜː like her). Calculating ő, we are able to say how fast the particle (fast wave) travels compared to the given space. Results: Fast waves are made out of normal waves (or particles). The fast wave is the same particle in a different form. The Fast Wave–Wave–Particle Triality describes a new kind of metamorphosis of matter—how tunneling electrons travel faster than light without violating special relativity. Using the Fast Wave–Wave–Particle Triality, we realize that the speed of light is not a speed limit for particles with mass, since they can be transformed into fast waves. The Fast Wave–Wave–Particle Triality shows the border of scope of the special theory of relativity.
Sea surface topography fields of the tropical Pacific

Time series of maps of monthly tropical Pacific dynamic topography anomalies from 1979 through 1985 were constructed by means of assimilation of tide gauge and expendable bathythermograph (XBT) data into a linear model driven by observed winds. Estimates of error statistics were calculated and compared to actual differences between hindcasts and observations. Four experiments were performed as follows: one with no assimilation, one with assimiation of sea level anomaly data from eight selected island tide gauge stations, one with assimilation of dynamic height anomalies derived from XBT data, and one with both XBT and tide gauge data assimilated. Data from seven additional tide gauge stations were withheld from the assimilation process and used for verification in all four experiments. Statistical objective maps based on data alone were also constructed for comparison purposes. The dynamic response of the model without assimilation was, in general, weaker than the observed response. Assimilation resulted in enhanced signal amplitude in all three assimilation experiments. RMS amplitudes of statistical objective maps were only strong near observing points. In large data-void regions these maps show amplitudes even weaker than the wind-driven model without assimilation. With few exceptions the error estimates generated by the Kalman filter appeared quite reasonable. Since the error processes cannot be assumed to be white or stationary, we could find no straightforward way to test the formal statistical hypothesis that the time series of differences between the filter output and the actual observations were drawn from a population with statistics given by the Kalman filter estimates. The autocovariance of the innovation sequence, i.e., the sequence of differences between forecasts before assimilation and observations, has long been used as an indicator of how close a filter is to optimality. We found that the best filter we could devise was still short of the goal of producing a white innovation sequence. In this and earlier studies, little sensitivity has been found to the parameters under our direct control. Extensive changes in the assumed error statistics make only marginal differences. The same is true for long time and space scale behavior of different models with richer physics and finer resolution. Better data assimilation results will probably require relaxation of the assumptions of stationarity and serial independence of the errors. Formulation of such detailed noise models will require longer time series, with the attendant problems of matching very different data sets.
Psychophysiological arousal signatures of near-misses in slot machine play

Near-misses in slot machines resemble jackpot wins but fall just short (e.g. two red sevens on the payline and a third just above). These outcomes have been shown to be subjectively arousing outcomes that promote further slot machine play. We assessed the psychophysical responses of 65 participants to wins, losses and near-misses while playing a slot machine simulator. Skin conductance responses were significantly larger for near-misses than either wins or losses. Similarly, heart rate deceleration was significantly larger for near-misses than either wins or losses. These arousal responses were not mediated by players' problem gambling status – near-misses generated large arousal responses even among novice players. We propose that these arousal patterns are due to the frustration of just missing a big win. This research shows the psychophysiological responses triggered by near-misses, and furthers our understanding of how near-misses promote further play.
MEASUREMENT OF THE DIELECTRIC PROPERTIES OF LIQUID CRYSTAL MATERIAL FOR MICROWAVE APPLICATIONS

Liquid Crystal (LC) is an anisotropic liquid material which flows like a liquid, but at the same time its molecules have an orientational order like in the solid state [1]. Thus, LC is a promising dielectric material for designing reconfigurable devices at microwave frequencies. In order to optimize the design of reconfigurable microwave devices, accurate values of the dielectric permittivity and the loss tangent of LCs are needed. However, new LCs are not well characterized at these frequencies because of its recent use for microwave applications. Therefore, the characterization in this frequency range is required for its practical use within microwave components and devices [2]. In this work, the split-cylinder resonator method has been used for the characterization of LCs at two frequency points, i.e. 5 and 11 GHz. The method is based on the measurement of the resonance frequency and quality factor of the two states of the LC molecules for extracting the complex dielectric permittivity [3]. For achieving these two states, no electric or magnetic fields are needed, just the cell must be turned 90º inside the cavity. The dielectric properties (permittivity and loss tangent) of four different LC samples, GT3-23002 from Merck and QYPD193, QYPD142, and QYPD036 from Qingdao QY Liquid Crystal Co, have been obtained. The highest values of the dielectric anisotropy are presented for the samples QYPD036 and QYPD193, together with the highest values of the corresponding loss tangent parameters. Furthermore, it is observed for all the LCs that the loss tangent decreases and the dielectric anisotropy increases at higher frequencies, which must be taken into account in the development of reconfigurable microwave devices.
Post-randomization for Identification Risk Limited Microdata Release from General Surveys

Before releasing survey data, statistical agencies usually perturb the original data to keep each survey unit’s information confidential. One significant concern is identity disclosure, which occurs when an intruder correctly identifies the records of a survey unit by matching the values of some key (or pseudo-identifying) variables. Nayak, Zhang and You (2018) developed a post-randomization method for a strict identification risk control in releasing survey microdata. The procedure also well preserves the observed frequencies and hence statistical estimates in case of simple random sampling. We show that in general surveys, the procedure may induce considerable bias in commonly used survey weighted estimators. We propose a modified procedure that better preserves weighted estimates. The procedure is illustrated and empirically assessed with an application to a publicly available U.S. Census Bureau data set.
Studies on phytochemistry and bioefficacy of cultivars of Piper betle Linn.

The plant, Piper betle. Linn is a creeper belonging to the Piperaceae family. The leaves are found to possess different medicinal properties and function as a stimulant. The taste is found to differ with different types of cultivars and the present study is conducted to know whether they differ in their phytochemical constitution and biological efficacies. Four different cultivars, i.e. Banarasi, Calcutta, Kammar and Kumbakonam of Piper betle were selected for this study and the methanolic extracts of the leaves were evaluated for antibacterial, anticandidal, antioxidant and larvicidal activities. Antibacterial and anticandidal efficacy was studied using Disc diffusion test. DPPH was used to detect antioxidant ability and the larvicidal potency was studied using the larvae of Artemia salina. Further, the aqueous extract of the leaves was screened for the presence of phytoconstituents. Tannins, flavonoids and terpenoids were detected in all the four cultivars however; Steroids are found to be absent. Among the cultivars, Kumbakonam variety has shown better antibacterial and anticandidal activity, Kammar has shown better antioxidant potency and the variety Calcutta has shown better larvicidal potency. The study aptly demonstrates the existence of difference in biopotency among the cultivars of Piper betle and proper selection of cultivar for specific usage in pharmaceutical industry is recommended.
U.S. INTERNATIONAL TRADE COMMISSION

This paper incorporates recent advances in gravity modeling, many made by Baier and Bergstrand (2006, 2007), and extends them to multiple sectors and multiple endogenous trade policy instruments. This study examines the effect of tariff reductions and free trade agreement participation on sectoral imports in a panel with about 75 countries, 25 manufacturing sectors, and three time periods. The panel includes sectoral data for bilateral imports, preferential tariff rates, and gross output, as well as national data for GDP and FTA participation. Preferential tariff reductions increase trade in all sectors, and have a statistically significant effect in all sectors except electronics and certain primary manufacturing sectors. About two-thirds of sectors have a further significant response from engaging in an FTA. Multilateral resistance terms indicate that the trade-diverting effect of tariff reductions with other partners is significant in all sectors except food, beverages, textiles, and apparel, and nontariff tradediverting effects of free trade agreements are significant in nearly all sectors. These results are used to estimate changes to U.S. sectoral trade that would result from complete liberalization under a proposed U.S.-Korea free trade agreement. The estimates are based on theoretically-consistent adjustments for country size, sectoral output, and trade barriers, and include both direct effects of policy changes and indirect effects through multilateral resistance terms. The gravity estimates are compared to CGE model results for the same liberalization. The tariff-driven gravity results are very highly correlated with the CGE results across sectors but are on average only one-tenth as large. The CGE results, however, do not match patterns in other FTA-driven changes, and the CGE model considerably underpredicts trade changes in wood, machinery, transport, and electronics sectors relative to gravity-based estimates. The views expressed in this paper are those of the author and do not necessarily represent those of the U.S. International Trade Commission or the individual Commissioners. I thank Judy Dean, Robert Feinberg, Michael Ferrantino, and Jose Signoret for helpful comments and advice. Alan Fox and Samuel Munyaneza kindly contributed data to this project. Nicholas Grossman, Ioana Mic, and Brandice Pettinato provided excellent research assistance. Correspondence should be sent to william.powers@usitc.gov