Miracle-dz/UniFAR-FTUs huggingface dataset:
Analysis of the Requirement for Glycoprotein M in Herpes Simplex Virus Type 1 Morphogenesis

ABSTRACT A mutant of herpes simplex virus type 1 lacking both glycoprotein M and glycoprotein E was marginally compromised in terms of its in vitro growth characteristics. This finding is in marked contrast to a similar mutant of the related alphaherpesvirus, pseudorabies virus (A. R. Brack, J. M. Dijkstra, H. Granzow, B. G. Klupp, and T. C. Mettenleiter, J. Virol. 73:5364-5372, 1999), and suggests that the glycoprotein requirements for virion assembly may vary among different members of this family of viruses.
OPTIMAL INVESTMENT IN SOCIAL SIGNALS

This study is an attempt to determine how much individuals should invest in social communication, depending on the type of relationships they may form. Two simple models of social relationships are considered. In both models, individuals emit costly signals to advertise their “quality” as potential friends. Relationships are asymmetrical or symmetrical. In the asymmetrical condition (first model), we observe that low‐quality individuals are discouraged from signaling. In the symmetrical condition (second model), all individuals invest in communication. In both models, high‐quality individuals (elite) do not compete and signal uniformly. The level of this uniform signal and the size of the “elite” turn out to be controlled by the accuracy of signals. The two models may be relevant to several aspects of animal and human social communication.
Analysis of the Research Trends of the Korean Journal of Educational Research Using Network Text Analysis

This study is an analysis of the research trends of the Korean Journal of Educational Research, the leading journal in the study of Korean education. In this paper, the semantic network analysis method that applies to social network analysis was used to measure the frequency of certain types of research themes in order to examine their connection centrality and network diagram. This paper examined 355 theses published from 2006 to 2015. The results of the analysis revealed that the keyword "academic achievement" appeared most frequently (34 times), followed by “self-efficacy,” (24) “learner,” (17) “curriculum,” (16) “education,” (14) “teaching and learning,” (13) and “multicultural education. ” (13) In the network diagram, the keywords of “learner,” “sense of efficacy,” “private education,” “academic achievement,” “assessment,” and “curriculum” demonstrated high centrality. Among these keywords, a network was formed centering around words such as “learner,” “assessment,” “academic achievement,” “sense of efficacy,” and “curriculum. ” In other words, this indicates that these keywords are often associated with the research process. In this study, moreover, a network text cluster map with a wide variety was formed. This demonstrated that the Korean Journal of Educational Research covers a range of study contents of subcategories within the field of education. This paper examines the core themes of education, their connectivity and connection centrality, and a map of network clusters.
Keeping momentum with a mouthful of water: behavior and kinematics of humpback whale lunge feeding

SUMMARY Rorqual baleen whales lunge feed by engulfment of tons of prey-laden water in a large and expandable buccal pouch. According to prior interpretations, feeding rorquals are brought to a near-halt at the end of each lunge by drag forces primarily generated by the open mouth. Accelerating the body from a standstill is energetically costly and is purported to be the key factor determining oxygen consumption in lunge-feeding rorquals, explaining the shorter dive times than expected given their sizes. Here, we use multi-sensor archival tags (DTAGs) sampling at high rates in a fine-scale kinematic study of lunge feeding to examine the sequence of events within lunges and how energy may be expended and conserved in the process of prey capture. Analysis of 479 lunges from five humpback whales reveals that the whales accelerate as they acquire prey, opening their gape in synchrony with strong fluke strokes. The high forward speed (mean depth rate: 2.0±0.32 m s−1) during engulfment serves both to corral active prey and to expand the ventral margin of the buccal pouch and so maximize the engulfed water volume. Deceleration begins after mouth opening when the pouch nears full expansion and momentum starts to be transferred to the engulfed water. Lunge-feeding humpback whales time fluke strokes throughout the lunge to impart momentum to the engulfed water mass and so avoid a near or complete stop, but instead continue to glide at ~1–1.5 m s−1 after the lunge has ended. Subsequent filtration and prey handling appear to take an average of 46 s and are performed in parallel with re-positioning for the next lunge.
Molecular Mechanisms Underlying the Synergistic Interaction of Erlotinib, an Epidermal Growth Factor Receptor Tyrosine Kinase Inhibitor, with the Multitargeted Antifolate Pemetrexed in Non-Small-Cell Lung Cancer Cells

Because the epidermal growth factor receptor (EGFR) tyrosine kinase inhibitor erlotinib and the multitargeted antifolate pemetrexed are registered in the treatment of second-line non-small-cell lung cancer (NSCLC), empirical combinations of these drugs are being tested. This study investigated molecular mechanisms underlying their combination in six NSCLC cell lines. Cells were characterized by heterogeneous expression of pemetrexed determinants, including thymidylate synthase (TS) and dihydrofolate reductase (DHFR), and mutations potentially affecting chemosensitivity. Pharmacological interaction was studied using the combination index (CI) method, whereas cell cycle, apoptosis induction, and EGFR, extracellular signal-regulated kinases 1 and 2, and Akt phosphorylation were studied by flow cytometry, fluorescence microscopy, and enzyme-linked immunosorbent assays. Reverse-transcriptase polymerase chain reaction (RT-PCR), Western blot, and activity assays were performed to assess whether erlotinib influenced TS. 3-(4,5-Dimethylthiazol-2-yl)-2,5-diphenyltetrazolium assays demonstrated that EGFR and k-Ras mutations were related to erlotinib sensitivity, whereas TS and DHFR expression were related to pemetrexed sensitivity. Synergistic cytotoxicity was found in all cells, most pronounced with pemetrexed + erlotinib (24 h) → erlotinib (48 h) sequence (CI, 0.09-0.40), which was associated with a significant induction of apoptosis. Pemetrexed increased EGFR phosphorylation and reduced Akt phosphorylation, which was additionally reduced by drug combination (-70.6% in H1650). Erlotinib significantly reduced TS expression and activity, possibly via E2F-1 reduction, as detected by RT-PCR and Western blot, and the combination decreased TS in situ activity in all cells. Erlotinib and pemetrexed showed a strong synergism in NSCLC cells, regardless of their genetic characteristics. Induction of apoptosis, modulation of EGFR and Akt phosphorylation, and changes in the expression of critical genes involved in pemetrexed activity contribute to this synergistic interaction and support the clinical investigation of these markers.
Death Domain CD120a to Lipid Rafts: A Novel Role for the Restricted Localization of the TNF Receptor

Vincent Cottin, Joyce E. S. Doan and David W. H. Richeshttp://www.jimmunol.org/content/168/8/4095J Immunol€2002; 168:4095-4102; ;Referenceshttp://www.jimmunol.org/content/168/8/4095.full#ref-list-1This article cites 42 articles, 20 of which you can access for free at: Subscriptionshttp://jimmunol.org/subscriptionsInformation about subscribing to The Journal of Immunology is online at: Permissionshttp://www.aai. org/ji/copyright.htmlSubmit copyright permission requests at: Email Alertshttp://jimmunol.org/cgi/alerts/etocReceive free email-alerts when new articles cite this article. Sign up at:
Automata Minimization: a Functorial Approach

In this paper we regard languages and their acceptors - such as deterministic or weighted automata, transducers, or monoids - as functors from input categories that specify the type of the languages and of the machines to categories that specify the type of outputs. Our results are as follows: A) We provide sufficient conditions on the output category so that minimization of the corresponding automata is guaranteed. B) We show how to lift adjunctions between the categories for output values to adjunctions between categories of automata. C) We show how this framework can be instantiated to unify several phenomena in automata theory, starting with determinization, minimization and syntactic algebras. We provide explanations of Choffrut's minimization algorithm for subsequential transducers and of Brzozowski's minimization algorithm in this setting.
Protective Effect of Bacoside-A against Morphine-Induced Oxidative Stress in Rats

In the present study, we investigated the protective effect of bacoside-A the active principle isolated from the plant Bacopa monniera against oxidative damage induced by morphine in rat brain. Morphine intoxicated rats received 10-160 mg/kg b.w. of morphine hydrochloride intraperitoneally for 21 days. Bacoside-A pretreated rats were administered with bacoside-A (10 mg/kg b.w/day) orally, 2 h before the injection of morphine for 21 days. Pretreatment with bacoside-A has shown to possess a significant protective role against morphine induced brain oxidative damage in the antioxidant status (total reduced glutathione, superoxide dismutase, catalase, glutathione peroxidase and lipid peroxidation) and membrane bound ATP-ases(Na+/K+ATPase. Ca2+ and Mg2+ ATPases) activities in rat. The results of the present study indicate that bacoside-A protects the brain from oxidative stress induced by morphine.
Effects of prolonged strenuous exercise (marathon running) on biochemical and haematological markers used in the investigation of patients in the emergency department

Objectives: To investigate the effects of strenuous exercise on commonly used biochemical and haematological variables in subjects running the 2002 London marathon. Methods: 34 healthy volunteers (7 female, 27 male) were recruited for the study. Blood was taken before the start (at registration) and immediately after completion of the marathon. Samples were analysed for urea and electrolytes, liver function tests, creatine kinase (CK), CK-MB isoenzyme, myoglobin, troponin I, full blood count, a clotting screen, and D-dimers. The results before and after exercise were compared. Pearson’s correlation coefficients were calculated for all variables. Results: Significant increases were found in CK, CK-MB, aspartate aminotransferase (AST), lactate dehydrogenase (LDH), and myoglobin following the marathon. However, there was no significant change in the level of troponin I. There was also evidence of activation of the coagulation and fibrinolytic cascades following the marathon, with a reduction in activated partial thromboplastin time, a reduction in fibrinogen, and an increase in D-dimers. Conclusions: The results confirm previous individual studies on marathon running and the biochemical and haematological tests routinely carried out in hospital. These are affected by prolonged exercise, and “abnormal” results in these tests may be normal after prolonged exercise and therefore not diagnostic of a disease process. The results of investigations in patients who have been exercising should be interpreted with caution.
Noninvasive electrical characterization of materials at microwave frequencies using an open-ended coaxial line: test of an improved calibration technique

Dielectric measurements using a probe consisting of a coaxial transmission line with an open-circuit end placed against the sample are discussed. For the 2.99- or 3.6-mm (OD) probes considered, a simple lumped parameter model shows errors above 1 GHz that increase greatly with frequency. An approximate model based on measured probe impedances from 1 to 18 GHz with samples consisting of water, methanol, and dioxane-water mixtures is evaluated. This model is more accurate than the lumped-parameter model and is better suited for calibration of the automatic network analyzer (ANA). The errors introduced in dielectric measurements by the use of approximate models for the probe are discussed. The technique succeeds because of partial cancellation of errors in modeling the probe in ANA-based measurements. >
Unsupervised question answering data acquisition from local corpora

Data-driven approaches in question answering (QA) are increasingly common. Since availability of training data for such approaches is very limited, we propose an unsupervised algorithm that generates high quality question-answer pairs from local corpora. The algorithm is ontology independent, requiring very small seed data as its starting point. Two alternating views of the data make learning possible: 1) question types are viewed as relations between entities and 2) question types are described by their corresponding question-answer pairs. These two aspects of the data allow us to construct an unsupervised algorithm that acquires high precision question-answer pairs. We show the quality of the acquired data for different question types and perform a task-based evaluation. With each iteration, pairs acquired by the unsupervised algorithm are used as training data to a simple QA system. Performance increases with the number of question-answer pairs acquired confirming the robustness of the unsupervised algorithm. We introduce the notion of <i>semantic drift</i> and show that it is a desirable quality in training data for question answering systems.
Stabilizing Communication Protocols

A communication protocol is stabilizing if and only if starting from any unsafe state (i.e. one that violates the intended invariant of the protocol), the protocol is guaranteed to converge to a safe state within a finite number of state transitions. Stabilization allows the processes in a protocol to reestablish coordination between one another whenever coordination is lost due to some failure. The authors identify some important characteristics of stabilizing protocols; they show in particular that a stabilizing protocol is nonterminating, has an infinite number of safe states, and has timeout actions. They also propose a formal method for proving protocol stabilization: in order to prove that a given protocol is stabilizing, it is sufficient (and necessary) to exhibit and verify what is called a 'convergence stair' for the protocol. Finally, they discuss how to redesign a number of well-known protocols to make them stabilizing; these include the sliding-window protocol and the two-way handshake. >
Insidious Changes in Stromal Matrix Fuel Cancer Progression

Reciprocal interactions between tumor and stromal cells propel cancer progression and metastasis. A complete understanding of the complex contributions of the tumor stroma to cancer progression necessitates a careful examination of the extracellular matrix (ECM), which is largely synthesized and modulated by cancer-associated fibroblasts. This structurally supportive meshwork serves as a signaling scaffold for a myriad of biologic processes and responses favoring tumor progression. The ECM is a repository for growth factors and cytokines that promote tumor growth, proliferation, and metastasis through diverse interactions with soluble and insoluble ECM components. Growth factors activated by proteases are involved in the initiation of cell signaling pathways essential to invasion and survival. Various transmembrane proteins produced by the cancer stroma bind the collagen and fibronectin-rich matrix to induce proliferation, adhesion, and migration of cancer cells, as well as protease activation. Integrins are critical liaisons between tumor cells and the surrounding stroma, and with their mechano-sensing ability, induce cell signaling pathways associated with contractility and migration. Proteoglycans also bind and interact with various matrix proteins in the tumor microenvironment to promote cancer progression. Together, these components function to mediate cross-talk between tumor cells and fibroblasts ultimately to promote tumor survival and metastasis. These stromal factors, which may be expressed differentially according to cancer stage, have prognostic utility and potential. This review examines changes in the ECM of cancer-associated fibroblasts induced through carcinogenesis, and the impact of these changes on cancer progression. The implication is that cancer progression, even in epithelial cancers, may be based in large part on changes in signaling from cancer-associated stromal cells. These changes may provide early prognostic indicators to further stratify patients during treatment or alter the timing of their follow-up visits and observations. Visual Overview: http://mcr.aacrjournals. org/content/12/3/297/F1.large. jpg. Mol Cancer Res; 12(3); 297–312. ©2014 AACR. Visual Overview
Influence of Water Quality on Cholesterol-Induced Tau Pathology: Preliminary Data

The studies employed the cholesterol-fed rabbit model of Alzheimer's disease (AD) to investigate the relationship between AD-like neurofibrillary tangle (NFT) neuropathology and tau protein levels as the main component of NFT. We measured brain and plasma tau levels and semiquantified NFT-like neuropathology in cholesterol-fed rabbits administered drinking water of varying quality (distilled, tap, and distilled+copper) compared to animals receiving normal chow and local tap water. Total tau levels in plasma were increased in all cholesterol-fed rabbits compared to animals on normal chow, regardless of quality of water. In contrast, increased tau in brain and increased AT8 immunoreactive NFT-like lesions were greatest in cholesterol-fed rabbits administered distilled water. A substantial decrease in brain tau and incidence and density of AT8 immunoreactive NFT-like lesions occurred in cholesterol-fed rabbits administered copper water, and an even greater decrease was observed in cholesterol-fed animals on local tap water. These studies suggest the possibility that circulating tau could be the source of the tau accumulating in the brain.
An update on the etiology of abdominal aortic aneurysms: implications for future diagnostic testing

Abdominal aortic aneurysm (AAA) disease is multifactorial with both environmental and genetic risk factors. The current research in AAA revolves around genetic profiles and expression studies in both human and animal models. Variants in genes involved in extracellular matrix degradation, inflammation, the renin–angiotensin system, cell growth and proliferation and lipid metabolism have been associated with AAA using a variety of study designs. However, the results have been inconsistent and without a standard animal model for validation. Thus, despite the growing body of knowledge, the specific variants responsible for AAA development, progression and rupture have yet to be determined. This review explores some of the more significant genetic studies to provide an overview of past studies that have influenced the current understanding of AAA etiology. Expanding our understanding of disease pathogenesis will inform research into novel diagnostics and therapeutics and ultimately to improve outcomes for patients with AAA.
The ballistic FET: design, capacitance and speed limit

In this paper we present a design methodology for the ballistic FET (BFET) which illuminates many topics currently under discussion such as the injection velocity, the role of the contacts, and the meaning of the capacitance and mobility. Both InGaAs/InAlAs in the 20-30 nm gate length range, and Si/SiO/sub 2/ FETs in the 10-20 nm range are simulated using Monte Carlo techniques, where the InGaAs FETs are almost purely ballistic, whereas the Si FETs were not. Expressions for the BFET drain current are derived in the extreme quantum limit and for zero thickness gate insulator, where the importance of the degeneracy capacitance is emphasized. An ultimate speed limit for the BFET is derived.
Surveillance for neuraminidase-inhibitor-resistant influenza viruses in Japan, 1996–2007

Background High usage of the neuraminidase inhibitor (NAI) oseltamivir in Japan since 2003 led the Neuraminidase Inhibitor Susceptibility Network to assess the susceptibility of community isolates of influenza viruses to oseltamivir and zanamivir. Methods Isolates were tested by the enzyme inhibition assay and by neuraminidase (NA) sequence analysis. Results Among 1,141 A(H3N2) viruses and 171 type B viruses collected in Japan during the 2003–2004 season, 3 (0.3%) A(H3N2) isolates showed high 50% inhibitory concentrations (IC50) to oseltamivir. Each possessed a known resistance NA mutation at R292K or E119V. During the 2004–2005 season, no resistance was found among 567 influenza A(H3N2) or 60 A(H1N1) isolates, but 1 of 58 influenza B isolates had an NAI resistance mutation (D197N). Sequence analysis found that 4 (3%) of 132 A(H1N1) viruses from 2005–2006 had known NA resistance mutations (all H274Y), but no additional resistant isolates were detected from that or the subsequent 2006–2007 season. Concurrent testing of a selection of 500 influenza B viruses from 2000 to 2006 showed significant variations between seasons in both oseltamivir and zanamivir IC50 values, but no persistent increases over this period. Conclusions Our findings suggested possible low-level transmission of resistant variants from oseltamivir-treated patients in several seasons in Japan but no sustained reductions in NAI susceptibility or consistently increased frequency of detecting resistant variants for any strain or subtype, despite high levels of drug use. In particular, although oseltamivir-resistant A(H1N1) viruses with the H274Y mutation spread globally in 2007–2008, we found little evidence for increasing levels of resistant A(H1N1) variants in Japan in preceding years.
Outage probability of SC receiver over exponentially correlated K fading channels

A mathematical expression for the outage probability of a selection combining diversity receiver with an arbitrary number of input branches is presented for exponentially correlated K fading channels. Numerical and simulation results are plotted and the effect of correlation, number of diversity branches and fading parameter on the outage performance of the receiver is studied. Results suggest that a correlation coefficient less than 0.5 may be used in practice.
Effect of pollen and resource limitation on reproduction of Zygophyllum xanthoxylum in fragmented habitats

Abstract Limitations on pollen and resources may significantly affect plant reproduction in fragmented habitats. In this study, phenology and pollinator frequency and activity were investigated to estimate the role of pollinators in Zygophyllum xanthoxylum reproduction, and this species is ecologically important in northwest China. In addition, the relative impact of restrictive amounts of pollen and resources on the seed set per flower was evaluated. It was found that adding pollen boosted the size of the seed set per flower, but had no significant effect on the number of flowers. By contrast, the addition of resources increased flower numbers as well as had a slight impact on the seed set per flower. These results indicate the amount of available pollen is a limiting factor for reproductive success. Moreover, Apis mellifera was identified as the most effective pollinator of Z. xanthoxylum, and there were more overall pollinators and visitations in the control than in the fragmented habitats. Furthermore, the limitations in pollen were more restrictive in the fragmented area than in the control. This was due to increased pollinator visitations in the control that could ameliorate the effects of lower pollen levels. When there is a limited availability of suitable pollinators, self‐pollination is critical in fragmented habitats. Z. xanthoxylum has reproductive strategies that aid in adapting to harsh environments, including protogyny and delayed selfing.