Miracle-dz/UniFAR-FTUs huggingface dataset:
Tomographic evidence for continuous turnover of Golgi cisternae in Pichia pastoris.

The budding yeast Pichia pastoris contains ordered Golgi stacks next to discrete transitional endoplasmic reticulum (tER) sites, making this organism ideal for structure-function studies of the secretory pathway. Here, we have used P. pastoris to test various models for Golgi trafficking. The experimental approach was to analyze P. pastoris tER-Golgi units by using cryofixed and freeze-substituted cells for electron microscope tomography, immunoelectron microscopy, and serial thin section analysis of entire cells. We find that tER sites and the adjacent Golgi stacks are enclosed in a ribosome-excluding "matrix. " Each stack contains three to four cisternae, which can be classified as cis, medial, trans, or trans-Golgi network (TGN). No membrane continuities between compartments were detected. This work provides three major new insights. First, two types of transport vesicles accumulate at the tER-Golgi interface. Morphological analysis indicates that the center of the tER-Golgi interface contains COPII vesicles, whereas the periphery contains COPI vesicles. Second, fenestrae are absent from cis cisternae, but are present in medial through TGN cisternae. The number and distribution of the fenestrae suggest that they form at the edges of the medial cisternae and then migrate inward. Third, intact TGN cisternae apparently peel off from the Golgi stacks and persist for some time in the cytosol, and these "free-floating" TGN cisternae produce clathrin-coated vesicles. These observations are most readily explained by assuming that Golgi cisternae form at the cis face of the stack, progressively mature, and ultimately dissociate from the trans face of the stack.
Team Zadeat 2010 --- Application for Participation

As in the years 2008 and 2009, team ZaDeAt is herewith committing itself to participate in the RoboCup 2010 competition of the Standard Platform League, if selected for participation. Our research groups have a strong interest in continuing our work on the Nao. The RoboCup 2010 is an excellent opportunity to keep in touch with the Nao community. Furthermore does a participation support our several research and community activities, as laid out below. Our general commitment to the SPL is substantiated by the fact that two of the authors served as RoboCup 2009 General Chair and SPL Local Chair, respectively.
Biomarkers, a Useful Correction for Respondent Error in Survey Research

One long standing limitation of survey research is the issue of respondent error. Until present there have been no research methods able to correct for this problem. In this study we present two approaches to correct for respondent error. In the first approach, we demonstrate how a valid instrument can be used, and the second approach requires two additional indicators. One is used to measure the response error and the second is used to correct for endogeneity. The second half of this study presents possible sources for valid indicators to correct for respondent error and make consistent estimation possible.
The Vibration Noise Characters Analysis and Control for SINS in Vehicle

For the measure precision influence of the SINS because of the vibration noise in the vehicle, the vibration noise was analyzed, measured and controlled in this environment importantly. Firstly, the reason and mechanism of the SINS vibration noise were analyzed in the vehicle environment, then the vibration noise was measured through the vehicle experiment, lastly, the vibration noise was controlled through the wavelet filter. Analyzed and controlled the vibration noise in the vehicle environment, which provides theory basis for the controlling the vibration noise effectively and the techniques for the better using of SINS in every field.
hnRNP A1-mediated translational regulation of the G quadruplex-containing RON receptor tyrosine kinase mRNA linked to tumor progression

The expression and role of RNA binding proteins (RBPs) controlling mRNA translation during tumor progression remains largely uncharacterized. Analysis by immunohistochemistry of the expression of hnRNP A1, hnRNPH, RBM9/FOX2, SRSF1/ASF/SF2, SRSF2/SC35, SRSF3/SRp20, SRSF7/9G8 in breast tumors shows that the expression of hnRNP A1, but not the other tested RBPs, is associated with metastatic relapse. Strikingly, hnRNP A1, a nuclear splicing regulator, is also present in the cytoplasm of tumor cells of a subset of patients displaying exceedingly worse prognosis. Expression of a cytoplasmic mutant of hnRNP A1 leads to increased translation of the mRNA encoding the tyrosine kinase receptor RON/MTS1R, known for its function in tumor dissemination, and increases cell migration in vitro. hnRNP A1 directly binds to the 5′ untranslated region of the RON mRNA and activates its translation through G-quadruplex RNA secondary structures. The correlation between hnRNP A1 and RON tumoral expression suggests that these findings hold clinical relevance.
SemaDroid: A Privacy-Aware Sensor Management Framework for Smartphones

While mobile sensing applications are booming, the sensor management mechanisms in current smartphone operating systems are left behind -- they are incomprehensive and coarse-grained, exposing a huge attack surface for malicious or aggressive third party apps to steal user's private information through mobile sensors. In this paper, we propose a privacy-aware sensor management framework, called SemaDroid, which extends the existing sensor management framework on Android to provide comprehensive and fine-grained access control over onboard sensors. SemaDroid allows the user to monitor the sensor usage of installed apps, and to control the disclosure of sensing information while not affecting the app's usability. Furthermore, SemaDroid supports context-aware and quality-of-sensing based access control policies. The enforcement and update of the policies are in real-time. Detailed design and implementation of SemaDroid on Android are presented to show that SemaDroid works compatible with the existing Android security framework. Demonstrations are also given to show the capability of SemaDroid on sensor management and on defeating emerging sensor-based attacks. Finally, we show the high efficiency and security of SemaDroid.
Whatever happened to qualitative description?

The general view of descriptive research as a lower level form of inquiry has influenced some researchers conducting qualitative research to claim methods they are really not using and not to claim the method they are using: namely, qualitative description. Qualitative descriptive studies have as their goal a comprehensive summary of events in the everyday terms of those events. Researchers conducting qualitative descriptive studies stay close to their data and to the surface of words and events. Qualitative descriptive designs typically are an eclectic but reasonable combination of sampling, and data collection, analysis, and re-presentation techniques. Qualitative descriptive study is the method of choice when straight descriptions of phenomena are desired.
Consensus Building in Multi-vehicle Systems with Information Feedback

In this paper, we study the problem of consensus building in multi-vehicle systems with information feedback. We show how information feedback can be incorporated into the consensus building process so as to improve the robustness and situational awareness of the whole team. We detail the strategies of introducing feedback to the consensus building process through information flow, external feedback terms, state-dependent weighting factors, and reference states. Application examples are also given to illustrate the information feedback strategies
Comparative analysis of low power high performance flip–flops in the 0.13µm technology

In this paper, a comparative analysis of existing architecture for flip-flops along with proposed designs is made. Flip-flops are the most essential element in the design of sequential circuits. Due to continuing increase in integration of transistors and growing needs of portable equipments, low power design with high performance is of prime importance. The proposed designs have better power delay product than the existing architectures and also occupy lesser area. Simulation has been done in the IBM 130nm technology using TSpice.
Binary LUM smoothing

In this letter, valuable simplification and analysis related to Boolean lower-upper middle (LUM) smoothers are provided. Thus, a class of nonlinear order-statistic LUM smoothers can be implemented as stack filters fast and effectively. An acquisition of the proposed method lies in the simple determination of the binary output according to the configuration of binary samples inside the filter window, where the proposed method takes advantage of the previously developed conversion algorithm between LUM smoothers and positive Boolean functions. Besides the important theoretical aspect, the proposed analysis allows to implement the LUM smoothers in small-area chips that can be successfully used in real image and video applications.
H-Channels Affect Frequency, Power and Amplitude Fluctuations of Neuronal Network Oscillations

Oscillations in network activity are ubiquitous in the brain and are involved in diverse cognitive functions. Oscillation characteristics, such as power, frequency, and temporal structure, depend on both network connectivity and intrinsic cellular properties, such as ion channel composition. An important class of channels, with key roles in regulating cell excitability, are h-channels. The h-current (Ih) is a slow, hyperpolarization-activated, depolarizing current that contributes to neuronal resonance and membrane potential. The impact of Ih on network oscillations, however, remains poorly understood. To elucidate the network effects of Ih, we used a computational model of a generic oscillatory neuronal network consisting of inhibitory and excitatory cells that were externally driven by excitatory action potentials and sustained depolarizing currents. We found that Ih increased the oscillation frequency and, in combination with external action potentials, representing input from areas outside the network, strongly decreased the synchrony of firing. As a consequence, the oscillation power and the duration of episodes during which the network exhibited high-amplitude oscillations were greatly reduced in the presence of Ih. Our results suggest that modulation of Ih or impaired expression of h-channels, as observed in epilepsy, could, by affecting oscillation dynamics, markedly alter network-level activity and potentially influence oscillation-dependent cognitive processes such as learning, memory and attention.
An Experiment in Integrating Internet Information Sources

The number of online information sources is growing rapidly. Though much of this information is unstructured (e.g., text, images) the number of structured information sources (e.g., databases) is also increasing. The advantage of structured information sources is that we can actually query their contents and use them to answer queries, perhaps in combination with other structured sources, rather than just viewing the whole information source. Given the variability in the information sources available, it is impractical for a user to interact with each source using its specific terminology. As a consequence, several systems (such as Nomenclator [Ordille and Miller, 1993b; Ordille, 1994], The Information Manifold [Kirk et al., 1995], TSIMMIS [Chawathe et al., 1994], SIMS [Arens et al., 1994]) have been developed based on the notion of a mediator [Wiederhold, 1992]. The key idea behind a mediator is that a user interacts with one uniform model of the domain, and the mediator translates between queries posed in the domain model, and the ontologies of the specific information sources. In order to do so, the mediator needs descriptions of the specific information sources that relate their contents to the domain model seen by the user. A major open issue which is crucial to the success of applying the notion of a mediator to large numbers of networked information sources is the ability to obtain accurate descriptions of the sources. The difficulty lies in problems such as sources using different attribute names to refer to the same intended attribute, or using the same attribute name to refer to different intended attributes. Further complications arise when the format of the attributes differs, even if they mean the same thing. An important characteristic of many networked information sources is that they fall into classes that model very similar domains. For example, a large class of information sources describe data about people in an organization, such as their addresses, phones, and email addresses. Similarly, many information sources contain bibliographic citations, or product and price listings. This paper describes an approach to the problem of obtaining descriptions of information sources that is well suited for networked information sources of this type, and the first large scale experiment that we are currently conducting, aimed at obtaining such descriptions in a real world environment. Our approach is based on the assumption that obtaining descriptions of information sources is a task that will inherently involve the managers of the information sources themselves, and the key to the solution of the problem is to find ways in which they can provide the most accurate description of their sources with minimal effort.
FINITE GROUPS OF LIE TYPE OF SMALL RANK

One of the key problems in the representation theory of finite groups is to represent a given finite group G in a suitable way. To do so, invariants which classify G up to isomorphisms are determined. One of the questions derived in this context is the so-called Isomorphism Problem (IP), which asks whether the existence of an isomorphism between the integral group algebras ZG and ZH implies that G and H are isomorphic. In the seventies, Zassenhaus conjectured a stronger version of (IP) describing the structure of the group of units V (ZG) of ZG with augmentation 1:
Experimental Evaluation of FAST TCP Performance and Fairness in DOCSIS Cable Modem Networks

In this paper we present experimental results evaluating the performance and fairness of FAST TCP in a series of tests involving realistic low rate network access scenarios. Links both using the DOCSIS cable modem medium access control (MAC) cable modem and simple low rate links were investigated. We seek to compare our expectations from theory with the behavior of an actual access network implementation. Index Terms— TCP Congestion control, Evaluation of FAST TCP, Low-speed networks. I. I NTRODUCTION
Development and Evaluation of a System for Educational Debate

: This paper reports research concerning issues involved in adopting a computational dialectics approach to develop a computerised system for educational debate. In particular, we consider the construction and usability evaluation of a human computer debating system. The system has been fully implemented and an initial usability evaluation has been undertaken, from which the results are essentially favourable. It is anticipated that this work will contribute to the development of human-computer dialogue in general and of computer-based educational dialogue in particular.
Time Series Models for Semantic Music Annotation

Many state-of-the-art systems for automatic music tagging model music based on bag-of-features representations which give little or no account of temporal dynamics, a key characteristic of the audio signal. We describe a novel approach to automatic music annotation and retrieval that captures temporal (e.g., rhythmical) aspects as well as timbral content. The proposed approach leverages a recently proposed song model that is based on a generative time series model of the musical content-the dynamic texture mixture (DTM) model-that treats fragments of audio as the output of a linear dynamical system. To model characteristic temporal dynamics and timbral content at the tag level, a novel, efficient, and hierarchical expectation-maximization (EM) algorithm for DTM (HEM-DTM) is used to summarize the common information shared by DTMs modeling individual songs associated with a tag. Experiments show learning the semantics of music benefits from modeling temporal dynamics.
Contextualization of learning models in subak system for vocational education

Subak is a traditional institution in Bali in charge of regulating irrigation systems for agricultural purposes. Management of irrigation systems includes maintenance of water sources, water drainage techniques, and water distribution. Subak has been passed down for generations since hundreds of years ago. The existing learning model in subak has been able to inherit technical skills and management ability to maintain the existence of subak. Considering these conditions, it is necessary to contextualize the learning model in the subak system to be applied in vocational education that emphasizes the mastery of skills. This study found that the learning model in the subak system was dominated by shared activities. The learning model is contextualized in vocational education into a model of shared cooperative learning. The learning model has been tested in the real class. The validity of the devaluation model by experts, while the practicality of the model is evaluated by teachers and students with user acceptance testing. Experts who evaluate the learning model provide recommendations that the learning model is relevant for vocational education. Meanwhile user acceptance testing for teacher and student shows that the learning model is quite relevan for vocational education. Student competency test results show that the learning model developed is quite effective. In addition to efficient in time and energy, the learning model gives more opportunities for students to show their potential to innovate.
gem5-gpu: A Heterogeneous CPU-GPU Simulator

gem5-gpu is a new simulator that models tightly integrated CPU-GPU systems. It builds on gem5, a modular full-system CPU simulator, and GPGPUSim, a detailed GPGPU simulator. gem5-gpu routes most memory accesses through Ruby, which is a highly configurable memory system in gem5. By doing this, it is able to simulate many system configurations, ranging from a system with coherent caches and a single virtual address space across the CPU and GPU to a system that maintains separate GPU and CPU physical address spaces. gem5gpu can run most unmodified CUDA 3.2 source code. Applications can launch non-blocking kernels, allowing the CPU and GPU to execute simultaneously. We present gem5-gpu's software architecture and a brief performance validation. We also discuss possible extensions to the simulator. gem5-gpu is open source and available at gem5-gpu.cs. wisc.edu.
Screening of candidate G-quadruplex ligands for the human c-KIT promotorial region and their effects in multiple in-vitro models

Stabilization of G-quadruplex (G4) structures in promoters is a novel promising strategy to regulate gene expression at transcriptional and translational levels. c-KIT proto-oncogene encodes for a tyrosine kinase receptor. It is involved in several physiological processes, but it is also dysregulated in many diseases, including cancer. Two G-rich sequences able to fold into G4, have been identified in c-KIT proximal promoter, thus representing suitable targets for anticancer intervention. Herein, we screened an “in house” library of compounds for the recognition of these G4 elements and we identified three promising ligands. Their G4-binding properties were analyzed and related to their antiproliferative, transcriptional and post-transcriptional effects in MCF7 and HGC27 cell lines. Besides c-KIT, the transcriptional analysis covered a panel of oncogenes known to possess G4 in their promoters. From these studies, an anthraquinone derivative (AQ1) was found to efficiently downregulate c-KIT mRNA and protein in both cell lines. The targeted activity of AQ1 was confirmed using c-KIT–dependent cell lines that present either c-KIT mutations or promoter engineered (i.e., α155, HMC1.2 and ROSA cells). Present results indicate AQ1 as a promising compound for the target therapy of c-KIT-dependent tumors, worth of further and in depth molecular investigations.
Recurrent Neural Network-based Tuple Sequence Model for Machine Translation

In this paper, we propose a recurrent neural network-based tuple sequence model (RNNTSM) that can help phrase-based translation model overcome the phrasal independence assumption. Our RNNTSM can potentially capture arbitrary long contextual information during estimating probabilities of tuples in continuous space. It, however, has severe data sparsity problem due to the large tuple vocabulary coupled with the limited bilingual training data. To tackle this problem, we propose two improvements. The first is to factorize bilingual tuples of RNNTSM into source and target sides, we call factorized RNNTSM. The second is to decompose phrasal bilingual tuples to word bilingual tuples for providing fine-grained tuple model. Our extensive experimental results on the IWSLT2012 test sets 1 showed that the proposed approach essentially improved the translation quality over state-of-the-art phrase-based translation systems (baselines) and recurrent neural network language models (RNNLMs). Compared with the baselines, the BLEU scores on English-French and English-German tasks were greatly enhanced by 2.1%2.6% and 1.8%-2.1%, respectively.
Identification of metabolically stable 5′-phosphate analogs that support single-stranded siRNA activity

The ss-siRNA activity in vivo requires a metabolically stable 5′-phosphate analog. In this report we used crystal structure of the 5′-phosphate binding pocket of Ago-2 bound with guide strand to design and synthesize ss-siRNAs containing various 5′-phosphate analogs. Our results indicate that the electronic and spatial orientation of the 5′-phosphate analog was critical for ss-siRNA activity. Chemically modified ss-siRNA targeting human apoC III mRNA demonstrated good potency for inhibiting ApoC III mRNA and protein in transgenic mice. Moreover, ApoC III ss-siRNAs were able to reduce the triglyceride and LDL cholesterol in transgenic mice demonstrating pharmacological effect of ss-siRNA. Our study provides guidance to develop surrogate phosphate analog for ss-siRNA and demonstrates that ss-siRNA provides an alternative strategy for therapeutic gene silencing.
Timescale of interest in traffic measurement for link bandwidth allocation design

Consider the link bandwidth allocation for transport of correlated traffic through a queueing system under a maximum allowable delay constraint d/sub max/. We decomposed the traffic into three frequency regions: low-frequency traffic in 0<|/spl omega/|/spl les//spl omega//sub L/, high-frequency traffic in |/spl omega/|/spl ges//spl omega//sub H/ and mid-frequency traffic in /spl omega//sub L/<|/spl omega/|</spl omega//sub H/. The zero-frequency component (DC term) of the traffic provides the average input rate which corresponds to the minimum link bandwidth requirement. Subject to delay constraint d/sub max/, we identify /spl omega//sub /spl lambda//=0.01/spl pi//d/sub max/ and /spl omega//sub H/=2/spl pi//d/sub max/. Hence, the transport of low-frequency traffic exceeds the limit of d/sub max/-constrained buffer capacity; its link bandwidth is essentially captured by its peak rate. In contrast, for the transport of high-frequency traffic the d/sub max/-constrained buffering is most effective and no additional link bandwidth is required. Essentially, the solution of /spl omega//sub L/ and /spl omega//sub H/ plays a role as "sampling theory" in traffic measurement for buffer capacity design and link bandwidth allocation. Equivalently in the time domain, the timescale of the low-frequency traffic is longer than or equal to 200d/sub max/; the timescale of high-frequency traffic is shorter than or equal to d/sub max/. Since the link bandwidth allocation of low- and high-frequency traffic requires no measurement of second-order statistics, the timescale of interest for traffic measurement must be identified in [d/sub max/, 200d/sub max/].