Miracle-dz/UniFAR-FTUs huggingface dataset:
High content of proteins containing 21st and 22nd amino acids, selenocysteine and pyrrolysine, in a symbiotic deltaproteobacterium of gutless worm Olavius algarvensis

Selenocysteine (Sec) and pyrrolysine (Pyl) are rare amino acids that are cotranslationally inserted into proteins and known as the 21st and 22nd amino acids in the genetic code. Sec and Pyl are encoded by UGA and UAG codons, respectively, which normally serve as stop signals. Herein, we report on unusually large selenoproteomes and pyrroproteomes in a symbiont metagenomic dataset of a marine gutless worm, Olavius algarvensis. We identified 99 selenoprotein genes that clustered into 30 families, including 17 new selenoprotein genes that belong to six families. In addition, several Pyl-containing proteins were identified in this dataset. Most selenoproteins and Pyl-containing proteins were present in a single deltaproteobacterium, δ1 symbiont, which contained the largest number of both selenoproteins and Pyl-containing proteins of any organism reported to date. Our data contrast with the previous observations that symbionts and host-associated bacteria either lose Sec utilization or possess a limited number of selenoproteins, and suggest that the environment in the gutless worm promotes Sec and Pyl utilization. Anaerobic conditions and consistent selenium supply might be the factors that support the use of amino acids that extend the genetic code.
Pneumococcal adaptive responses to changing host environments.

Despite being an exclusive human pathogen, Streptococcus pneumoniae (the pneumococcus) is highly adaptable to the various host niches it encounters. It is foremost an exceptional colonizer of the human nasopharynx, where it has developed an array of strategies to adjust to both host factors and other microbial flora that reside there. Upon changes in this environment, often associated with virus infection, pneumococci may leave this environment and enter otherwise sterile sites such as the sinuses, middle ears, and lungs, from where they can disseminate further to reach the bloodstream and the meninges to cause septicemia and meningitis, respectively. The mechanisms and molecules involved in the transition and dissemination to different host environments and the adaptation required to persist in these very different host niches is not entirely clear. In a study in this issue of The Journal of Infectious Diseases [1], a group from the Karolinska Institute, led by Dr Henriques-Normark, elegantly presents us with a novel mechanism explaining how pneumococci adapt to improve their survival during invasive pneumococcal disease (IPD). The authors observed that when serotype 1 strains of 2 clonal complexes were used to infect animals, large colony variants were observed from blood cultures. Similar large colony variants could be cultured from blood of patients with IPD with pneumococcal serotype 1 strains. After sequencing the strains obtained, all large colony variants contained diverse mutations in the spxB gene, encoding pyruvate oxidase that converts pyruvate to acetyl-phosphate while using oxygen to produce hydrogen peroxide. The authors further showed that the large colony variants lacking SpxB activity were more virulent when injected intraperitoneally into mice than wild-type organisms, and that this was related to a decreased early clearance of the bacteria from the bloodstream. In contrast, the lack of SpxB made these strains less able to cause nasopharyngeal colonization. The role of SpxB deficiency was not as clear-cut when the authors used
DATA MINING BY ADOPTING PARTICLE SWARM OPTIMIZATION

The complexity of many existing data mining algorithms is exponential with respect to the number of dimensions. With increasing dimensionality, these algorithms soon become computationally intractable and therefore inapplicable in many real applications. Secondly, the specificity of similarities between points in a high dimensional space diminishes. Continuous improvement processes based on the principles of total quality management that including customer orientation, quality orientation and affairs implementation as shape of team is always from interest principle of dynamic and successful organizations. PSO is a stochastic, population-based evolutionary algorithm particularly suitable for solving multivariable optimization problems. It embeds a kind of swarm intelligence that is based on socio-psychological principles and provides insights into social behavior contributing to engineering applications.
Optimum Voltage and Harmonic Control PWM Techniques for Three-Phase Static UPS Systems

Pulsewidth modulation (PWM) is frequently employed with static ac power supplies to control the amplitude and harmonic content of load voltage. However, published work on the subject of PWM techniques has mainly dealt with variable-speed ac drive applications. Consequently, PWM techniques compatible with constant frequency and constant (load) voltage applications, such as uninterruptible power supply (UPS) systems, have been largely ignored. Several known and novel PWM techniques suitable for three-phase static UPS systems are analyzed, and attempts are made to evaluate them. Optimum techniques are subsequently selected on the basis of the low-order harmonic attenuation obtained with each technique and the number of thyristor commutations (per cycle) required to implement each technique.
TUDY OF VARIOUS FACTORS AFFECTING PERFORMANCE OF MULTI-CORE P ROCESSORS

Advances in Integrated Circuit processing allow for more microprocessor design options. As Chip Multiprocessor system (CMP) become the predominant topology for leading microprocessors, critical components of the system are now integrated on a single chip. This enables sharing of computation resources that was not previously possible. In addition the virtualization of these computation resources exposes the system to a mix of diverse and competing workloads. On chip Cache memory is a resource of primary concern as it can be dominant in controlling overall throughput. This Paper presents analysis of various parameters affecting the performance of Multi-core Architectures like varying the number of cores, changes L2 cache size, further we have varied directory size from 64 to 2048 entries on a 4 node, 8 node 16 node and 64 node Chip multiprocessor which in turn presents an open area of research on multicore processors with private/shared last level cache as the future trend seems to be towards tiled architecture executing multiple parallel applications with optimized silicon area utilization and excellent performance.
Desynchronizing Plasmodium Cell Cycle Increases Chloroquine Protection at Suboptimal Doses

We have previously shown that in vivo and in vitro the hormone melatonin is responsible for the synchronous development of Plasmodia. Melatonin can also mobilize calcium from internal stores in these parasites and this response is abolished by luzindole, a melatonin antagonist. We here demonstrate that in vivo alteration of parasite synchronous de- velopment, using luzindole, partially improves survival of infected mice and dramatically increases the antimalarial ac- tivity of chloroquine. The data presented may lead to a conceptually new paradigm for malaria infection therapy and pro- vide novel evidence suggesting that the malaria parasite uses the cell cycle synchrony as one of the strategies to evade the host immune system.
Availability improvement of free-space optical and microwave communications links — A diversity system

Free-space optical (FSO) and microwave telecommunication links have considerably adverse propagation characteristics. For radio waves that are operating in the millimeter wavelength one of the most harmful circumstantial factors is the attenuation caused by precipitation, especially by rain. However, for FSO links the main adverse effect is fog, being most responsible for the unavailability of FSO links. These adverse propagation characteristics allow good efficiency for a site diversity system that consists of parallel FSO and millimeterwave links. In order to study the propagation characteristics of these types of links a measurement system is operating at Budapest University of Technology and Economics, Department of Broadband Infocommunicatons and Electromagnetic Theory (BME-HVT). In this paper the efficiency of a parallel FSO-microwave site diversity system is presented on the basis of the results of the measurement system. The outage probabilities of the FSO and microwave links are compared to the outage probability of the diversity system. Moreover, the possibility of microwave transmitter power reduction is investigated as well in case of the application of the hybrid diversity system.
Dynamical symmetry breaking of λ φ 4 theory in the two loop effective potential

The two loop effective potential of massless $\ensuremath{\lambda}{\ensuremath{\varphi}}^{4}$ theory is presented in several regularization and renormalization prescriptions and the dynamical symmetry breaking solution is obtained in the strong-coupling situation in several prescriptions except the Coleman-Weinberg prescription. The beta function in the broken phase becomes negative and the UV fixed point turns out to be a strong-coupling one, and its numeric value varies with the renormalization prescriptions, a detail which is different from the asymptotic-free solution in the one loop case. The symmetry-breaking phase is shown to be an entirely strong-coupling phase. The reason for the relevance of the renormalization prescriptions is shown to be due to the nonperturbative nature of the effective potential. We also reanalyze the two loop effective potential by adopting a differential equation approach based on the understanding that all the quantum field theories are ill-defined formulations of the ``low-energy'' effective theories of a complete underlying theory. The relevance of the prescriptions of fixing the local ambiguities to physical properties such as symmetry breaking is further emphasized. We also tentatively propose a rescaling insensitivity argument for fixing the quadratic ambiguities. Some detailed properties of the strongly coupled broken phase and related issues are discussed.
The pre-assessment learning effects of consequential assessment: modelling how the examination game is played

Exams can drive students to learn in undesirable ways, like memorising rather than trying to understand work. While this phenomenon has been researched extensively, research has not yet yielded a validated model to explain this behaviour. This dissertation proposes, and starts the process of validation of, a model that describes and explains students’ reactions to assessment. Validation is crucial because it allows the model to be used with greater confidence in a range of settings. These findings could help lecturers who develop assessments to understand how different assessment methods, and the way they are used, influence student learning. They could also enhance research about assessment as a tool to augment learning.
Human telesupervision of a fleet of autonomous robots for safe and efficient space exploration

In January 2004, NASA began a bold enterprise to return to the Moon, and with the technologies and expertise gained, press on to Mars. The underlying Vision for Space Exploration calls for a sustained and affordable human and robotic program to explore the solar system and beyond; to conduct human expeditions to Mars after successfully demonstrating sustained human exploration missions on the Moon. The approach is to "send human and robotic explorers as partners, leveraging the capabilities of each where most useful. " Human-robot interfacing technologies for this approach are required at readiness levels above any available today. In this paper, we describe the HRI aspects of a robot supervision architecture we are developing under NASA's auspices, based on the authors' extensive experience with field deployment of ground, underwater, lighter-than-air, and inspection autonomous and semi-autonomous robotic vehicles and systems.
The Community College Baccalaureate.

The purpose of this investigation is to identify rationales and justifications for baccalaureate degree programming at community colleges and to determine if the traditional community college mission of access is giving way to market forces. This investigation examines the legal and formal foundations of baccalaureate degree institutionalization, which include state legislation and bills leading to legislation as well as institutional policies. These sources are examined through the lenses of both globalization and neo-institutionalism, specifically the community college access mission. Current development of the community college contradicts those understandings that cast the institution in a narrow identity, such as a site of social reproduction or as a second chance postsecondary educational institution. The establishment of baccalaureate degree programs at community colleges challenges not only specific understandings of community colleges but also fixed ideological positions that pigeon-hole the institution.
Developable Mesh Surface Approximation by Normal-Guided Deformation

This paper presents a new algorithm to improve the developability (i.e., make Gaussian Curvature close to zero) of a mesh surface by normal guided deformation. It takes advantage of discrete normal image to convert originally highly non-linear problem into a linear problem which can be solved efficiently. Also, the mesh surface can be deformed with position constraints or within user-preset tolerance. The initial experimental tests have shown some promising aspects in improving mesh surface’s developability.
Protective effect of recombinant Trichinella 53-kDa protein in sepsis and the effect on macrophages

The survival rate of the recombinant Trichinella 53-kDa protein infected by the cecal ligation and puncture (CLP) model of sepsis in rats and the expression difference of macrophages were analyzed. Eighteen clean SD rats were selected for the present study. The rats were divided into the sham operation (n=5), control (n=5) and experimental (n=8) groups. The rats in the sham operation group underwent cecum division and suture with routine therapy for cure. The rats in the control and experimental groups were placed in the CLP model of sepsis in rats. The experimental group was administered recombinant Trichinella 53-kDa protein in advance, and the control group was administered the same dose of placebo. The survival rate of the rats within 6 and 12 h, the macrophage expression ratio, and the differences of the expression levels Th1-type cytokines IFN-γ and tumor necrosis factor (TNF)-α, and the Th2 type cytokines interleukin-4 (IL-4) and IL-13 were analyzed. The survival rate of rats in the experimental group was higher than that of the control group with a statistically significant difference (P<0.05). The expression ratio of the macrophages received from the different handling methods of the rats in the experimental group was higher than that of the control group. The difference was statistically significant (P<0.05). The expression levels of the Th1-type cytokines IFN-γ and TNF-α of the rats in the experimental group was higher than that of the control group, while the expression level of the Th2-type cytokines IL-4 and IL-13 was higher than that of the control group. The difference was statistically significant (P<0.05). In conclusion, recombinant Trichinella 53-kDa protein can increase the survival rate following infection with CLP sepsis, which may be associated with the improvement of the macrophages and the adjustment of the expression of Th2 cytokines.
Quantitative Trait Locus Mapping and Candidate Gene Analysis for Plant Architecture Traits Using Whole Genome Re-Sequencing in Rice

Plant breeders have focused on improving plant architecture as an effective means to increase crop yield. Here, we identify the main-effect quantitative trait loci (QTLs) for plant shape-related traits in rice (Oryza sativa) and find candidate genes by applying whole genome re-sequencing of two parental cultivars using next-generation sequencing. To identify QTLs influencing plant shape, we analyzed six traits: plant height, tiller number, panicle diameter, panicle length, flag leaf length, and flag leaf width. We performed QTL analysis with 178 F7 recombinant in-bred lines (RILs) from a cross of japonica rice line ‘SNUSG1’ and indica rice line ‘Milyang23’. Using 131 molecular markers, including 28 insertion/deletion markers, we identified 11 main- and 16 minor-effect QTLs for the six traits with a threshold LOD value > 2.8. Our sequence analysis identified fifty-four candidate genes for the main-effect QTLs. By further comparison of coding sequences and meta-expression profiles between japonica and indica rice varieties, we finally chose 15 strong candidate genes for the 11 main-effect QTLs. Our study shows that the whole-genome sequence data substantially enhanced the efficiency of polymorphic marker development for QTL fine-mapping and the identification of possible candidate genes. This yields useful genetic resources for breeding high-yielding rice cultivars with improved plant architecture.
A Case Study for Evaluating IEEE 802.15.4 Wireless Sensor Network Formation with Mobile Sinks

Wireless Sensor Networks are traditionally composed of a multiplicity of sensor nodes that sense given phenomena and deliver the sensed data to specific sink nodes. In the most of the application scenarios, sensor nodes have been considered motionless. On the contrary, interesting possibilities arise if some sensors are embedded in devices carried by mobile agents as people, cars, animals, etc. If sinks move within the considered sensor field, they are able to provide both sparse sensing and collecting of data measured by static sensors placed at fixed locations. The main goal of this work is to evaluate, through simulations, the impact of sinks' mobility in a wireless sensor network created by using the topology formation mechanism provided by the IEEE 802.15. 4 Standard. To this aim, as a practical case study, we consider a wireless sensor network deployed in a museum used to monitor the presence, the localization and other parameters of artworks exposed in it. In this context, we analyze how sinks' mobility affects connectivity and energy consumption for network formation and re-configuration.
A new Transmitted-Reference Automotive UWB Radar using Unequaled Amplitude

This paper analyzes the detection performance of new Transmitted-Reference (TR) automotive UWB radar using unequaled amplitude for vehicles. To improve the detection performance of a traditional TR-UWB system, the amplitude of a reference pulse can be changed to increase the energy-to-noise ratio. Finally, the characteristics of the proposed TR-UWB radar are evaluated by simulation. And the performances of the proposed radar are compared with a coherent matched filter and a traditional TR-UWB system. For special case when SNR=3dB and  =6, we can assert that the detection probability of the proposed TR receiver is approximately a 19% increase compared with that of the conventional TR receiver when the probability of false alarm is 0.5.
Quo Vadis of the Organizational Restructuring of Local Government

Abstract. The research aims to describe the profile andrestructuring process of organizational structure of Maros District government. The research uses the theory of organization, concept of local bureaucracy and local government to enrich the study. Through the method of qualitative research and the data analysis technique of interactive model, the research finds that the organizational restructuring of local government was conducted through new formation, merging, division, and removal, either in the structural position, or regional working unit itself. The study also shows the presence of several structural positions and working units that have more than one function. This indicates that the restructuring and functioning of local government organizations has not reflected the rationality of local bureaucracy and shows the complexity of the functions inherent in the organizational structure of local government. Keywords: local bureaucracy, local government, organizational restructuring Abstrak. Penelitian ini bertujuan mendeskripsikan proses restruktrurisasi dan profil struktur organisasi pemerintahan daerah Kabupaten Maros. Penelitian menggunakan teori organisasi, konsep birokrasi pemerintah daerah (local bureaucracy), konsep pemerintahan daerah (local government) dan perspektif mengenai local bureaucracy untuk memperkaya kajian ini. Melalui metode penelitian kualitatif dan teknik analisis data model interaktif, penelitian ini menemukan bahwa restrukturisasi organisasi pemerinatah daerah dilaksanakan dengan cara pembentukan baru, penggabungan, pemisahan, dan penghapusan, baik pada jabatan struktural maupun satuan perangkat daerah itu sendiri. Hasil kajian menunjukan pula adanya beberapa jabatan dalam struktur dan satuan perangkat daerah yang memiliki lebih dari satu fungsi. Hal ini menandakan bahwa pembangunan struktur dan fungsi organisasi pemerintahan daerah belum mencerminkan rasionalitas birokrasi lokal serta menunjukkan adanya kompleksitas fungsi yang melekat pada suatu struktur organisasi pemerintah daerah. Kata kunci: birokrasi lokal, pemerintahan daerah, restrukturisasi organisasi
TAP-SNS – A Test Platform for Secure Communication in Wireless Sensor Networks for Logistic Applications

In this paper we present a new methodology for the integration of security provisions into protocols for wireless sensor networks. There is an ever growing demand for security in communications in general. As wireless sensor networks (WSN) face real-world applications the authenticity of the retrieved data has to be guaranteed. To facilitate integration of security provisions into WSNs the platform TAP-SNS (Testing Algorithms and Protocols for Sensor Network Security) enables the co-design of secure communication protocols between an x86-architecture and an embedded sensor node platform. Due to the co-design feature of the proposed platform, the use of freely available ANSI C implementations of cryptographic algorithms is made possible. As the system is OSI-model-based, it offers the exchange of whole layers (e.g. serial comport PHY to RF-Link PHY) without the need to adapt the software for the upper layers. The usage of this platform is demonstrated by means of the design of an authenticated broadcast protocol for an application of WSNs in logistics.
Generating inductive verification proofs for Isabelle using the partial evaluator Ecce

Ecce is a partial deduction system which can be used to automatically generate abstractions for the model checking of many infinite state systems. We show that to verify the abstractions generated by Ecce we may employ the proof assistant Isabelle. Thereby Ecce is used to generate the specification, hypotheses and proof script in Isabelle's theory format. Then, in many cases, Isabelle can automatically execute these proof scripts and thereby verify the soundness of Ecce's abstraction. In this work we focus on the specification and verification of Petri nets.
Enhanced Word-Based Block-Sorting Text Compression

The Block Sorting process of Burrows and Wheeler can be applied to any sequence in which symbols are (or might be) conditioned upon each other. In particular, it is possible to parse text into a stream of words, and then employ block sorting to identify and so exploit any conditioning relationships between words. In this paper we build upon the previous work of two of the authors, describing several further recency rank transformations, and considering also the role of the entropy coder. By combining the best of the new recency transformations with an entropy coder that conditions ranks upon gross characteristics of previous ones, we are able to obtain improved compression on typical text files.