Miracle-dz/UniFAR-FTUs huggingface dataset:
DIMERIZATION IS REQUIRED FOR THE TRANSACTIVATION FUNCTION OF LUMAN BUT NOT FOR ITS ACTIVATION BY PROTEOLYTIC CLEAVAGE

DIMERIZATION IS REQUIRED FOR THE TRANSACTIVATION FUNCTION OF LUMAN BUT NOT FOR ITS ACTIVATION BY PROTEOLYTIC CLEAVAGE Adam McCluggage Advisor: University of Guelph, 2011 Professor Ray Lu Luman (LZIP/CREB3) is a basic leucine zipper (bZIP) transcription factor that has been linked to the endoplasmic reticulum (ER) stress response. In the event of ER stress, Luman is proteolytically cleaved, or ‘activated’, through regulated intramembrane proteolysis (RIP), resulting in an amino-terminal fragment that translocates to the nucleus to activate transcription of downstream unfolded protein response (UPR)-related genes. The general mode of activation of the key signal transducers of the UPR appears to be an alteration of their oligomeric states. Structural and functional similarities to these proteins suggest that Luman may be activated in a similar manner. In this thesis, we demonstrate through in vitro and in vivo studies that Luman can form homodimers in the cell. Through the use of mutagenesis, we show that Luman dimerization is mediated through the leucine zipper and we provide evidence that Luman dimerization is required for its transcription activation function. However, we found that Luman dimerization is not required for its activation by proteolytic cleavage.
Designing ground states of Hopfield networks for quantum state preparation

We present a protocol to store a polynomial number of arbitrary bit strings, encoded as spin configurations, in the approximately degenerate low-energy manifold of an all-to-all connected Ising spin glass. The iterative protocol is inspired by machine learning techniques utilizing $k$-local Hopfield networks trained with $k$-local Hebbian learning and unlearning. The trained Hamiltonian is the basis of a quantum state-preparation scheme to create quantum many-body superpositions with tunable squared amplitudes using resources available in near term experiments. We find that the number of configurations that can be stored in the ground states and thus turned into superposition scales with the $k$-locality of the Ising interaction.
Richtmyer-Meshkov Instability and Gas-particle Interaction of Contoured Shock-tube Flows : a Numerical Study

In this paper, computational fluid dynamics (CFD) is utilized to characterize a prototype biolistic delivery system, the biomedical device based on the contoured-shock-tube design (CST), with the aim at investigating shocks induced flow instabilities within the contoured shock tube. The shock/interface interactions, the growth of perturbation at an interface between two fluids of different density are interrogated. The key features of the gas dynamics and gas-particle interaction are discussed keywords— Simulation, Shock wave, Particle, Interface, Supersonic, Richtmyer-Meshkov Instability
Application of the PRMS model in the Zhenjiangguan watershed in the Upper Minjiang River basin

The PRMS model was established for Zhenjiangguan watershed in the upper reach of the Minjiang River basin, China. The results showed that PRMS had an acceptable performance in simulating monthly runoff in the study area. The analysis on the impacts of precipitation changes on hydrological processes indicated that both runoff and evapotranspiration increased with the increase of precipitation. Moreover, evapotranspiration had larger sensitivity to the change of precipitation than runoff.
Unplanned Category Purchase Incidence: Who Does It, How Often, and Why

Unplanned category purchase incidence is an important source of retailer volume and profits. We analyze this phenomenon in detail with a multi-level Poisson model calibrated on data from 434 households making over 18,000 purchases in 58 categories across 3,000 trips to 21 stores. We find that unplanned category purchase incidence is not proportional to the number of categories bought, and not a single shopping trip is completely unplanned. The majority of variation is across shoppers. Specifically, it is explained in part by demographic variables traditionally measured by marketers, but more by other ―traits‖ that reflect long-run shopping habits such as level of planning and information gathering styles. Short term shopping goals (e.g., major trip, forgotten needs, etc.) also play an important role. We replicate classic results of time available (more unplanned purchasing) and high store knowledge (less unplanned purchasing); however we find that the overall occurrence of unplanned purchasing is significantly lower than that commonly reported.
Approach to solving DCSP using BDI

BDI is an agent who works based on three basic attitudes: beliefs, desires and intentions. Is presented in this paper the development of a multiagent system based on BDI agents or intentional agents to solve problems of satisfaction of typical restrictions, using the algorithm "Asynchronous Backtracking. The problem is distributed on several agents working together to find a solution. Is shown part of the system design, through development methodology oriented to AAII agents, and the application of the above by implementing two such problems: N-Queens and Sudoku, the results obtained from experiments and conclusions based on this.
New Class of Antimicrobial Agents : SBA-15 Silica Containing Anchored Copper Ions

1Department of Microelectronics and Nanotechnology, Czestochowa University of Technology, Al. Armii Krajowej 36, 42-201 Czestochowa, Poland 2H. Niewodniczański Institute of Nuclear Physics, Polish Academy of Sciences, ul. Radzikowskiego 152, 31-342 Krakow, Poland 3Institute of Environmental Engineering, Czestochowa University of Technology, ul. Brzeznicka 60a, 42-200 Czestochowa, Poland 4Institute of Computer Science, Czestochowa University of Technology, ul. Dabrowskiego 69, 42-201 Czestochowa, Poland 5Institute of Mechanical Technologies, Czestochowa University of Technology, Al. Armii Krajowej 21, 42-201 Czestochowa, Poland 6Faculty of Computer Science and Materials Science, University of Silesia, Institute of Materials Science, Silesian Center for Education and Interdisciplinary Research, ul. 75 Pułku Piechoty 1A, 41-500 Chorzów, Poland
Testing cosmological models with large-scale power modulation using microwave background polarization observations

We examine the degree to which observations of large-scale cosmic microwave background (CMB) polarization can shed light on the puzzling large-scale power modulation in maps of CMB anisotropy. We consider a phenomenological model in which the observed anomaly is caused by modulation of large-scale primordial curvature perturbations, and calculate Fisher information and error forecasts for future polarization data, constrained by the existing CMB anisotropy data. Because a significant fraction of the available information is contained in correlations with the anomalous temperature data, it is essential to account for these constraints. We also present a systematic approach to finding a set of normal modes that maximize the available information, generalizing the well-known Karhunen-Loeve transformation to take account of the constraints from the temperature data. A polarization map covering at least $\sim 60\%$ of the sky should be able to provide a $3\sigma$ detection of modulation at the level favored by the temperature data. A significant fraction of the information in such a data set is contained in the single mode that optimally encapsulates the signal due to temperature-polarization correlation.
Seismic Wave Modeling in Viscoelastic VTI Media by Using Spectral Element Method

Spectral element method (SEM) for elastic media is well known for its great flexibility and high accuracy in solving problems with complex geometries. It is an advanced choice for wave simulations. Due to anelasticity of earth media, SEM for elastic media is no longer appropriate. On fundamental of the second-order elastic SEM, this work takes the viscoelastic wave equations and the vertical transversely isotropic (VTI) media into consideration, and establishes the second-order SEM for wave modeling in viscoelastic VTI media. The second-order perfectly matched layer for viscoelastic VTI media is also introduced. The problem of handling the overlapped absorbed corners is solved. A comparison with the analytical solution in a twodimensional viscoelastic homogeneous medium shows that the method is accurate in the wave-field modeling. Furtherly, numerical validation also presents its great flexibility in solving wave propagation problems in complex heterogeneous media. This second-order SEM with perfectly matched layer for viscoelastic VTI media can be easily applied in wave modeling in a limited region.
Application of B‐splines and curved geometries to boundaries in SPH

Smoothed particle hydrodynamics (SPH) has been increasing in popularity rapidly in recent years and is being used for an ever wider range of applications. Central to almost all of these application is the inclusion of accurate wall boundaries. We present here a discussion of boundaries in SPH, in particular, focusing on reflected ghost‐particle boundaries. We show how one can include curved shapes as geometrical objects and more generally as parametric non‐uniform rational B‐spline (NURBS) curves. By properly considering the reflection operation, we derive a correction factor that demonstrably improves the accuracy of the SPH solution and present examples to confirm this. NURBS are standard for representing both 2D curves and 3D surfaces. We detail how they can be practically included in an SPH implementation, including how to calculate various required quantities and reflect particles in the NURBS object. Copyright © 2014 John Wiley & Sons, Ltd.
SIGNIFICANCE OF ECTOMYCORRHIZAE IN FOREST ECOSYSTEMS OF INDIA

The biodiversity of Indian forest ecosystem is under serious threat from the last two decade and the endemic plants of Western Ghats, Eastern Ghats as well as few important keystone species which also form climax species in Himalayan regions are facing elimination due to habitat loss. Causes for rapid depletion of forest ecosystem in India has been due to over exploitation, overgrazing, poor regeneration, widespread logging, and rapid increase in human population, tourism, removal of leaf and wood litter from the forests floor, demand for fuel wood, fodder, timber and diversion of forestlands for agriculture. Intensive or extensive inventorying and monitoring “hot spots” of biodiversity has thus become a difficult task to achieve for Indian foresters and ecologists. Ectomycorrhizal diversity with important tree species of India is still in the exploratory phase. Any amount of ectomycorrhizal association in tree seedlings is hence needed rather than no ectomycorrhizal association and some species of ectomycorrhizal fungi can be more useful to trees, in certain geographical and environmental conditions, than others. Therefore these fungal species should be effectively managed and applied
No Need to be Discrete: A Method for Continuous Time Mediation Analysis

Mediation is one concept that has shaped numerous theories. The list of problems associated with mediation models, however, has been growing. Mediation models based on cross-sectional data can produce unexpected estimates, so much so that making longitudinal or causal inferences is inadvisable. Even longitudinal mediation models have faults, as parameter estimates produced by these models are specific to the lag between observations, leading to much debate over appropriate lag selection. Using continuous time models (CTMs) rather than commonly employed discrete time models, one can estimate lag-independent parameters. We demonstrate methodology that allows for continuous time mediation analyses, with attention to concepts such as indirect and direct effects, partial mediation, the effect of lag, and the lags at which relations become maximal. A simulation compares common longitudinal mediation methods with CTMs. Reanalysis of a published covariance matrix demonstrates that CTMs can be fit to data used in longitudinal mediation studies.
Root damage to apple plants by cockchafer larvae induces a change in volatile signals below‐ and above‐ground

Volatile organic compounds (VOCs) mediate communication between plants and insects. Plants under insect herbivore attack release VOCs either at the site of attack or systemically, indicating within‐plant communication. Some of these VOCs, which may be induced only upon herbivore attack, recruit parasitoids and predatory insects to feed on the attacking insects. Moreover, some plants are able to ‘eavesdrop’ on herbivore‐induced plant volatiles (HIPVs) to prime themselves against impending attack; such eavesdropping exemplifies plant–plant communication. In apple orchards, the beetle Melolontha melolontha L. (Coleoptera: Scarabaeidae) is an important insect pest whose larvae live and feed on roots for about 4 years. In this study, we investigated whether the feeding activity of M. melolontha larvae (1) alters the volatile profile of apple roots, (2) induces the release of HIPVs systemically in the leaves, and (3) whether infested plants communicate to neighbouring non‐infested conspecifics through HIPVs. To answer these questions, we collected constitutive VOCs from intact M9 roots as well as M. melolontha larvae‐damaged roots using a newly designed ‘rhizobox’, to collect root‐released volatiles in situ, without damaging the plant root system. We also collected VOCs from the leaf‐bearing shoots of M9 whose roots were under attack by M. melolontha larvae and from shoots of neighbouring non‐infested conspecifics. Gas chromatography‐mass spectrometry analysis showed that feeding activity of M. melolontha larvae induces the release of specific HIPVs; for instance, camphor was found in the roots only after larvae caused root damage. Melolontha melolontha also induced the systemic release of methyl salicylate and (E,E)‐α‐farnesene from the leaf‐bearing shoots. Methyl salicylate and (E,E)‐α‐farnesene were also released by the shoots of non‐infested neighbouring conspecifics. These phenomena indicate the induction of specific VOCs below‐ and above‐ground upon M. melolontha larvae feeding on apple roots as well as plant–plant communication in apple plants.
DNA sequence and prokaryotic expression analysis of vitellogenin from Antheraea pernyi

In this study, the DNA sequence of vitellogenin from Antheraea pernyi (Ap-Vg) was identified and its functional domain (30-740 aa, Ap-Vg-1) was expressed in Escherichia coli BL21 (DE3) cells. The recombinant Ap-Vg-1 proteins were purified and used for antibody preparation. The results showed that the intact DNA sequence of Ap-Vg consisted of 8124 bp including 6 exons (2258, 205, 982, 879, 184 and 829 bp) and 5 introns (84, 78, 410, 1055 and 795 bp) and was highly homologous to the vitellogenin from Antheraea yamamai. SDS-PAGE and western blot analysis demonstrated that a 85 KD recombinant protein was successfully expressed in E. coli cells and its expression was not remarkably changed under induction by different IPTG concentration. The titre of antibodies raised against rabbits was about 1:7800 which was determined by ELISA.
Possible Models of Early Austronesian Social Organization

THIS PAPER IS addressed to a consideration of the possibilities of comparison. I Since current typologies contemporary Austronesian societies influence judgment on ble earlier forms of Austronesian society, it is these typologies and the bases for them that require examination if are make any attempt at the construction of prior structures. In this paper, I wish to take as my starting point the important article on early Austronesian social organization by Blust (1980). Instead of discussing specific aspects of the argument of this paper, on which I have already commented at some length (Fox 1980), I wish to consider some of Blust's underlying assumptions. My intention is to consider alternative assumptions. \Vith this as background, I then wish to indulge in a hypothetic consideration and manipulation of possible models of Austronesian social organization. Other disciplines regularly have recourse to such theoretical exercises and I would argue that in the present, and as yet early, stage of our understanding this is a particularly salutary procedure. To avoid an element of vacuousness, however, I propose to rely on an early, but nonetheless still useful, paper by Kroeber (1919) on kinship in the Philippines as an appropriate source for constructing a model that can be compared with models drawn from evidence of societies in other parts of the Austronesian world. Finally, I would like to draw on evidence from a larger, ongoing study of the social organization of societies in eastern Indonesia that would tend to support a "genetic" or historical linguistic model of the kind envisioned in my earlier discussion. I admit that, at this stage, my discussion of this evidence is both premature partial and I offer it only to solicit comment and further discussion.
Optimising the ingredients for evaluation of the effects of intervention

Background: In Howard, Best, and Nickels (2015, Optimising the design of intervention studies: Critiques and ways forward. Aphasiology, 2015.), we presented a set of ideas relevant to the design of single-case studies for evaluation of the effects of intervention. These were based on our experience with intervention research and methodology, and a set of simulations. Our discussion and conclusions were not intended as guidelines (of which there are several in the field) but rather had the aim of stimulating debate and optimising designs in the future. Our paper achieved the first aim—it received a set of varied commentaries, not all of which felt we were optimising designs, and which raised further points for debate. Aims: This paper responds to the commentaries and in the context of recent guidelines for evaluation of the design of single-case studies. We aim to further the discussion our target article has started and extend the scope of the discussion more broadly to issues that were not raised in our target article (e.g., replication). Main Contributions and Conclusions: It is clear that there is a strong consensus that adequately designed single-case studies of intervention are an appropriate and important tool in our quest for effective interventions with people with cognitive disorders. It is also the case that many agree that there is no single design that is appropriate for every intervention, every participant or every question. However, whichever design is used it must be able to discriminate between the true effect of an intervention on behaviour, and other potential reasons for change (e.g., practice effects, spontaneous recovery, Hawthorne effects, and placebo effects). We have suggested that, depending on the conditions and question to be addressed, this can be achieved using a combination of design features. These may include: multiple pre-treatment baselines, treated and untreated (or subsequently treated) items/processes/tasks, control tasks (not predicted to be affected by treatment even when generalisation is expected), and a cross-over phase (replication across items/tasks). In addition, the outcome of treatment should be evaluated statistically. We note that generalisation, which is clinically desirable, can lead to particular difficulties in attributing change to intervention unless appropriate controls have been included, and that when items are selected on the basis of poor pre-treatment performance, apparent treatment-related gains may in fact be due to regression to the mean and discuss the implications of this for future research.
Detecting of Hidden Anomalies in DNS Communication

The aim of this paper is to implement a profile-based anomaly detection methodology for extracting hidden anomalies in network traffic published by G. Dewaele et al. and to examine its usability for detecting DNS communication anomalies. The used methodology does not require any previous knowledge about the analysed traffic. Even though the method does not require any additional reputation information it is able to detect anomalies with very low intensities. To make it more efficient several modifications to the method with respect to specific characteristics of DNS communication were introduced. As a result a tool capable of detecting hidden anomalies in DNS traffic has been made publicly available.
A Class of Finite-Volume Models for Atmospheric Flows Across Scales

The paper examines recent advancements in the class of Nonoscillatory Forward-in-Time (NFT) schemes that exploit the implicit LES (ILES) properties of Multidimensional Positive Definite Advection Transport Algorithm (MPDATA). The reported developments address both global and limited area models spanning a range of atmospheric flows, from the hydrostatic regime at planetary scale, down to mesoscale and microscale where flows are inherently nonhydrostatic. All models operate on fully unstructured (and hybrid) meshes and utilize a median dual mesh finite volume discretisation. High performance computations for global flows employ a bespoke hybrid MPI-OpenMP approach and utilise the ATLAS library. Simulations across scales—from a global baroclinic instability epitomising evolution of weather systems down to stratified orographic flows rich in turbulent phenomena due to gravity-wave breaking in dispersive media, verify the computational advancements and demonstrate the efficacy of ILES both in regularizing large scale flows at the scale of the mesh resolution and taking a role of a subgrid-scale turbulence model in simulation of turbulent flows in the LES regime.
Characterization of solar panels for powering sensor applications

Devices installed in remote places require continuously energy supply for their functionality or communication requirements. For these applications, conventional energy supply is very expensive, or unreliable, and batteries dependence is not a good solution for long-term installations. Energy harvesting can be a good solution, to increase the availability of energy. Regenerative energy sources like thermoelectric, magnetic, piezoelectric, and/or renewable sources such as photovoltaic, wind, among others, allowed the development of different powering solutions for sensor units. The purpose of this work is to characterize three photovoltaic solar panels for different power consumption sensor applications. The study is carried out taking into account the intensity of light and angle of incidence over the photovoltaic panels versus voltage generated. The energy is stored in an association of supercapacitors. This association together with the solar panel itself forms the two possible sources to supply the sensor application.