Miracle-dz/UniFAR-FTUs huggingface dataset:
Genome-Scale Modeling of Light-Driven Reductant Partitioning and Carbon Fluxes in Diazotrophic Unicellular Cyanobacterium Cyanothece sp. ATCC 51142

Genome-scale metabolic models have proven useful for answering fundamental questions about metabolic capabilities of a variety of microorganisms, as well as informing their metabolic engineering. However, only a few models are available for oxygenic photosynthetic microorganisms, particularly in cyanobacteria in which photosynthetic and respiratory electron transport chains (ETC) share components. We addressed the complexity of cyanobacterial ETC by developing a genome-scale model for the diazotrophic cyanobacterium, Cyanothece sp. ATCC 51142. The resulting metabolic reconstruction, iCce806, consists of 806 genes associated with 667 metabolic reactions and includes a detailed representation of the ETC and a biomass equation based on experimental measurements. Both computational and experimental approaches were used to investigate light-driven metabolism in Cyanothece sp. ATCC 51142, with a particular focus on reductant production and partitioning within the ETC. The simulation results suggest that growth and metabolic flux distributions are substantially impacted by the relative amounts of light going into the individual photosystems. When growth is limited by the flux through photosystem I, terminal respiratory oxidases are predicted to be an important mechanism for removing excess reductant. Similarly, under photosystem II flux limitation, excess electron carriers must be removed via cyclic electron transport. Furthermore, in silico calculations were in good quantitative agreement with the measured growth rates whereas predictions of reaction usage were qualitatively consistent with protein and mRNA expression data, which we used to further improve the resolution of intracellular flux values.
A mesh aggregation scheme for call admission control

The continuously growing research to establish the quality of service (QoS) enabled multi-service network architecture has identified several essential mechanisms, among which call admission control (CAC) is assuredly one of the most important ones. This mechanism is responsible for keeping the number of ongoing sessions at the appropriate level in the network to meet the QoS requirements. Due to high call admission request rates, often being the case in core networks, it is essential to study and develop fast and scalable admission control functions. In this paper, we propose a new call admission control scheme based on topology aggregation. We use simulations to evaluate the performance of this scheme versus a traditional parameter-based admission control model. The results show that our CAC scheme achieves very good performances in terms of accuracy and scalability.
Finding apparent horizons in dynamic 3D numerical spacetimes

We have developed a general method for finding apparent horizons in 3D numerical relativity. Instead of solving for the partial differential equation describing the location of the apparent horizons, we expand the closed 2D surfaces in terms of symmetric trace–free tensors and solve for the expansion coefficients using a minimization procedure. Our methodis applied to a number of different spacetimes, including numerically constructed spacetimes containing highly distorted axisymmetric black holes in spherical coordinates, and 3D rotating, and colliding black holes in Cartesian coordinates.
The nature of epistemic climates in elementary classrooms

The Nature of Epistemic Climates in Elementary Classrooms by Florian C. Feucht Drs. Lisa D. Bendixen and LeAnn Putney, Examination Committee Co-Chairs Associate Professors o f Educational Psychology University o f Nevada, Las Vegas This study explored the nature o f three epistemic climates in a fourth-grade classroom (i.e., a science and a reading lesson) and a sixth-grade classroom (i.e., a reading lesson). An epistemic climate is defined as the nature o f knowledge and knowing emerging from the personal epistemologies of: (1) students, and (2) teachers, as well as from the epistemological underpinnings o f (3) knowledge representations (e.g., curricula and textbooks), (4) instruction, and (5) their reciprocal relations. An epistemic climate is unique to individual classrooms and subject to change. A variety o f qualitative methods were applied to tap the five data points o f each epistemic climate, and a 12-Cell Matrix interlacing epistemic dimensions and developmental levels was developed to analyze, triangulate, and integrate these different data points. The results showed that despite the more absolutistic nature o f the three epistemic climates overall, certain variations could be identified within the epistemic patterns o f learners’ personal epistemology, teachers’ personal epistemology, epistemic instruction, epistemic knowledge representations, and the reciprocal relations among them. Results indicated (1) an epistemic development in elementary school students from absolutistic thinking towards more multiplistic thinking, (2) domain-general and domain-specific aspects o f epistemic climates, (3) an influence o f ill teachers’ personal epistemology and epistemic knowledge representations on epistemic instruction (i.e., mixed messages and instructional monocultures), (4) the influence of epistemic instruction on learners’ personal epistemology, and (5) the ability o f elementary school students to develop a positive or negative attitude towards the epistemology o f a school subject. General issues are discussed, which focus on the developmental potential o f epistemic climates on learners’ personal epistemology, the need o f addressing teachers’ and students’ personal epistemology in teacher preand inservice training, and their acknowledgement and influence in the development of curricula, school books, and other educational materials. Furthermore, detailed methodological and theoretical implications are provided along with recommendations for future research.
Designing Search and Rescue Robots towards Realistic User Requirements

In the event of a large crisis (think about typhoon Haiyan or the Tohoku earthquake and tsunami in Japan), a primordial task of the rescue services is the search for human survivors on the incident site. This is a complex and dangerous task, which often leads to loss of lives among the human crisis managers themselves. The introduction of unmanned search and rescue devices can offer a valuable tool to save human lives and to speed up the search and rescue process. In this context, the EU-FP7-ICARUS project [1] concentrates on the development of unmanned search and rescue technologies for detecting, locating and rescuing humans.A main factor which explains why there is so little robotic technology applied on the terrain in real-life search and rescue operations, is that the complex nature and difficult operating conditions of search and rescue operations pose heavy constraints on the mechanical design of the unmanned platforms. In this paper, we discuss the different user requirements which have an impact of the design of the mechanical systems (air, ground and marine robots). We show how these user requirements are obtained, how they are validated, how they lead to design specifications for operational prototypes which are tested in realistic operational conditions and we show how the final mechanical design specifications are derived from these different steps. An important aspect of all these design steps which is emphasized in this paper is to always keep the end-users (in this case the search and rescue workers) in the loop in order to come to realistic requirements and mechanical design specifications, ensuring the practical deployability [2] of the developed platforms.
Annual Danish Informative Inventory Report to UNECE: Emission inventories from the base year of the protocols to year 2017

This report is a documentation report on the emission inventories for Denmark as reported to the UNECE Secretariat under the Convention on Long Range Transboundary Air Pollution due by 15 February 2019. The report contains information on Denmark’s emission inventories regarding emissions of (1) SOX for the years 1980-2017, (2) NOX, CO, NMVOC and NH3 for the years 1985-2017, (3) Particulate matter: TSP, PM10, PM2.5 for the years 1990-2017, (4) Heavy Metals: Pb, Cd, Hg, As, Cr, Cu, Ni, Se and Zn for the years 1990-2017, (5) Polyaromatic hydrocarbons (PAH): Benzo(a)pyrene, benzo(b)fluoranthene, benzo(k)fluoranthene and indeno(1,2,3-cd)pyrene, PCDD/F and HCB for the years 1990-2017. Further, the report contains information on background data for emissions inventory
First Studies of the Influence of Single Gene Perturbations on the Inference of Genetic Networks

Inferring the network structure from time series data is a hard problem, especially if the time series is short and noisy. DNA microarray is a technology allowing to monitor the mRNA concentration of thousands of genes simultaneously that produces data of these characteristics. In this study we try to investigate the influence of the experimental design on the quality of the result. More precisely, we investigate the influence of two different types of random single gene perturbations on the inference of genetic networks from time series data. To obtain an objective quality measure for this influence we simulate gene expression values with a biologically plausible model of a known network structure. Within this framework we study the influence of single gene knock-outs in opposite to linearly controlled expression for single genes on the quality of the infered network structure.
Effective Lagrangian for low-scale technicolor

We present an effective Lagrangian for low-scale technicolor. It describes the interactions at energies < or approx. M{sub {rho}{sub T}} of the lowest-lying bound states of the lightest technifermion doublet--the spin-one {rho}{sub T}, {omega}{sub T}, a{sub T}, f{sub T}, and the corresponding technipions {pi}{sub T}. This Lagrangian is intended to put on firmer ground the technicolor straw man phenomenology used for collider searches of low-scale technicolor. The technivectors are described using the hidden local symmetry (HLS) formalism of Bando, et al. The Lagrangian is based on SU(2) x U(1) x U(2){sub L} x U(2){sub R}, where SU(2) x U(1) is the electroweak gauge group and U(2){sub L} x U(2){sub R} is the HLS gauge group. Special attention is paid to the higher-derivative standard HLS and Wess-Zumino-Witten interactions needed to describe radiative and other decays of a{sub T} and {rho}{sub T}/{omega}{sub T}, respectively.
TEN1 Is Essential for CDC13-Mediated Telomere Capping

Telomere binding proteins protect chromosome ends from degradation and mask chromosome termini from checkpoint surveillance. In Saccharomyces cerevisiae, Cdc13 binds single-stranded G-rich telomere repeats, maintaining telomere integrity and length. Two additional proteins, Ten1 and Stn1, interact with Cdc13 but their contributions to telomere integrity are not well defined. Ten1 is known to prevent accumulation of aberrant single-stranded telomere DNA; whether this results from defective end protection or defective telomere replication is unclear. Here we report our analysis of a new group of ten1 temperature-sensitive (ts) mutants. At permissive temperatures, ten1-ts strains display greatly elongated telomeres. After shift to nonpermissive conditions, however, ten1-ts mutants accumulate extensive telomeric single-stranded DNA. Cdk1 activity is required to generate these single-stranded regions, and deleting the EXO1 nuclease partially suppresses ten1-ts growth defects. This is similar to cdc13-1 mutants, suggesting ten1-ts strains are defective for end protection. Moreover, like Cdc13, our analysis reveals Ten1 promotes de novo telomere addition. Interestingly, in ten1-ts strains at high temperatures, telomeric single-stranded DNA and Rad52-YFP repair foci are strongly induced despite Cdc13 remaining associated with telomeres, revealing Cdc13 telomere binding is not sufficient for end protection. Finally, unlike cdc13-1 mutants, ten1-ts strains display strong synthetic interactions with mutations in the POLα complex. These results emphasize that Cdc13 relies on Ten1 to execute its essential function, but leave open the possibility that Ten1 has a Cdc13-independent role in DNA replication.
The Formation of Disk Galaxies

We present a scenario for the formation of disks that explains not only the properties of normal galaxies but also the properties of the population of low surface brightness galaxies (LSBs) as well. We use a gravitationally self-consistent model for disk collapse to calculate the observable properties of disk galaxies as a function of mass and angular momentum of the initial protogalaxy. The model naturally produces both smooth, asymptotically flat rotation curves and exponential surface brightness profiles over many disk scale lengths. In this scenario, low-mass and/or high angular momentum halos naturally form low baryonic surface density disks, which will tend to be low surface brightness. Theoretical and numerical calculations suggest galaxy halos should form with a wide range of mass and angular momenta, and thus, the disks that form within these halos should have a wide range of surface brightnesses and scale lengths. We use theoretical predictions for the distribution of halo masses and angular momenta to calculate explicitly the expected number density of disk galaxies as a function of central surface brightness and disk scale length. The resulting distribution is compared to the observed properties of galactic disks and is shown to explain the range of observed disk properties, including the cutoff in the maximum disk scale length as a function of surface brightness. We also show that disk instabilities explain the observed lack of high surface density disks. The calculated distribution of disk properties also suggests that there are large numbers of galaxies that remain undetected owing to biases against galaxies with either low surface brightness or small scale length. We quantify this by calculating the difference between the intrinsic luminosity function and the luminosity function that would be measured in a galaxy survey with a given limiting surface brightness. We show that current measurements of the galaxy luminosity function may be missing more than half of all L* galaxies, and an even larger fraction of faint galaxies, given the correlation between mass and surface brightness. The likely underestimate of the luminosity density is also expected to be large. We discuss how this affects observations of the “faint blue galaxy” population. We also investigate the dynamics of galaxies as a function of surface brightness. We show that, in the absence of any systematic change in the ratio of disk mass to disk luminosity, galaxies of all surface brightnesses should lie on the same Tully-Fisher relation. Our models also show systematic changes in the shape of the rotation curve as a function of angular momentum, which leads to LSBs having slowly rising rotation curves. Furthermore, because high angular momentum LSB disks have their baryonic mass spread over a larger area than normal galaxies of comparable mass, LSB disks contribute very little to the observed dynamics of the galaxy. Thus, LSBs provide a very effective tracer of the shape and mass profile of the dark matter halo, out to proportionally larger radii than is possible to observe with normal galaxy rotation curves.
Decimation flows in constraint satisfaction problems

We study hard constraint satisfaction problems with a decimation approach based on message passing algorithms. Decimation induces a renormalization flow in the space of problems, and we exploit the fact that this flow transforms some of the constraints into linear constraints over GF(2). In particular, when the flow hits the subspace of linear problems, one can stop the decimation and use Gaussian elimination. We introduce a new decimation algorithm which uses this linear structure and shows a strongly improved performance with respect to the usual decimation methods for some of the hardest locked occupation problems.
Grounding and ground fault protection of multiple generator installations on medium-voltage industrial and commercial power systems - Part 4: Conclusion and Bibliography Working Group Report

This paper discusses typical grounding practices and ground fault protection methods for medium-voltage generator stators, highlighting their merits and drawbacks. Particular attention is given to applications of multiple generators connected to a single bus. The paper also provides an overview of the generator damage mechanism during stator ground faults. Problem areas associated with each type of grounding are identified and solutions are discussed. The paper also provides a list of references on the topic. The paper is intended as a guide to aid engineers in selecting adequate grounding and ground fault protection schemes for medium-voltage industrial and commercial generators for new installations, for evaluating existing systems, and for future expansion of facilities, to minimize generator damage from stator ground faults. These topics are presented in four separate parts, Parts 1-4. Part 1 covers scope, introduction, user examples of stator ground failure, and theoretical basis for the problem. Part 2 discusses various grounding methods used in industrial applications. Part 3 describes protection methods for the various types of grounding and Part 4 provides a conclusion and bibliography of additional resource material.
Holocaust Survivors and the Crisis of Aging

The author discusses aging as an especially traumatic crisis for survivors of the Nazi Holocaust. Survivor guilt, unresolved mourning, and strained relations with the next generation are prominent among this group. Treatment difficulties are examined. Although this article focuses on Holocaust survivors, some of the suggestions offered are relevant to other groups that have survived massive psychic trauma.
Location based multicast routing algorithms for wireless sensor networks

LOCATION BASED MULTICAST ROUTING ALGORITHMS FOR WIRELESS SENSOR NETWORKS Hakkı BAĞCI M.S. in Computer Engineering Supervisor: Asst. Prof. Dr. İbrahim Körpeoğlu August, 2007 Multicast routing protocols in wireless sensor networks are required for sending the same message to multiple different destination nodes. Since most of the time it is not convenient to identify the sensors in a network by a unique id, using the location information to identify the nodes and sending messages to the target locations seems to be a better approach. In this thesis we propose two different distributed algorithms for multicast routing in wireless sensor networks which make use of location information of sensor nodes. Our first algorithm groups the destination nodes according to their angular positions and sends a message toward each group in order to reduce the number of total branches in multicast tree which also reduces the number of messages transmitted. Our second algorithm calculates an Euclidean minimum spanning tree at the source node by using the positions of the target nodes. According to the calculated MST, multicast message is forwarded to destination nodes. This helps reducing the total energy consumed for delivering the message to all target nodes since it tries to minimize the number of transmissions. We compare these two algorithms with each other and also against another location based multicast routing protocol called PBM according to success ratio in delivery, number of total transmissions, traffic overhead and average end to end delay metrics. The results show that algorithms we propose are more scalable and energy efficient, so they are good candidates to be used for multicasting in wireless sensor networks.
Positive association of common variants in CD36 with neovascular age-related macular degeneration

Age-related macular degeneration (AMD) is a leading cause of legal blindness among older individuals of industrialized countries. In neovascular AMD, which is an advanced stage of AMD, choroidal neovascularization develops underneath the macula and destroys central vision. Oxidative stress is a hypothesized pathway for the pathophysiology of AMD. CD36 was chosen as a candidate gene for neovascular AMD because the protein plays an important role in this pathway as well as in angiogenesis and in maintaining chorioretinal homeostasis. We tested 19 tag single nucleotide polymorphisms (SNPs) across CD36 for their association with the disease in a Japanese population comprising 109 neovascular AMD subjects and 182 unrelated controls. Five of the 19 SNPs demonstrated a nominally significant association with neovascular AMD (P < 0.05), of which two (rs3173798 and rs3211883) withstood Bonferroni correction for multiple testing (rs3173798, nominal P = 9.96 x 10-4, allele-specific odds ratio = 0.55; rs3211883, nominal P = 2.09 x 10-4, allele-specific odds ratio = 0.50). Population structure analyses excluded stratification artifacts in our study cohort. This study supports the candidacy of CD36 as a novel susceptibility gene for neovascular AMD. Replication of our results in other populations will provide further convincing evidence for the genetic association.
Cluster Analysis of Prominent Features for Determining Stress Levels in Thai Speech

Software testing is an important activity in software development process. Testers have to generate test cases to test a system. At least, test cases consist of test input values and expected results. In functional testing or black-box testing, test designers can generate test cases from a requirements specification document which includes diagrams such as UML Diagrams. In this research, we consider UML use case diagrams and propose an approach for generating test cases from use cases based on a limited entries decision table. These test cases cover all success and alternative scenarios in a use case as well as all events that contain include and extend relationship.