Miracle-dz/UniFAR-FTUs huggingface dataset:
WdChs4p, a Homolog of Chitin Synthase 3 in Saccharomyces cerevisiae, Alone Cannot Support Growth of Wangiella(Exophiala) dermatitidis at the Temperature of Infection

ABSTRACT By using improved transformation methods for Wangiella dermatitidis, and a cloned fragment of its chitin synthase 4 structural gene (WdCHS4) as a marking sequence, the full-length gene was rescued from the genome of this human pathogenic fungus. The encoded chitin synthase product (WdChs4p) showed high homology with Chs3p of Saccharomyces cerevisiae and other class IV chitin synthases, and Northern blotting showed thatWdCHS4 was expressed at constitutive levels under all conditions tested. Reduced chitin content, abnormal yeast clumpiness and budding kinetics, and increased melanin secretion resulted from the disruption of WdCHS4 suggesting that WdChs4p influences cell wall structure, cellular reproduction, and melanin deposition, respectively. However, no significant loss of virulence was detected when the wdchs4Δ strain was tested in an acute mouse model. Using a wdchs1Δ wdchs2Δ wdchs3Δ triple mutant of W. dermatitidis, which grew poorly but adequately at 25°C, we assayed WdChs4p activity in the absence of activities contributed by its three other WdChs proteins. Maximal activity required trypsin activation, suggesting a zymogenic nature. The activity also had a pH optimum of 7.5, was most stimulated by Mg2+, and was more inhibited by polyoxin D than by nikkomycin Z. Although the WdChs4p activity had a broad temperature optimum between 30 to 45°C in vitro, this activity alone did not support the growth of the wdchs1Δ wdchs2Δ wdchs3Δtriple mutant at 37°C, a temperature commensurate with infection.
Rheumatoid Arthritis-Associated MicroRNA-155 Targets SOCS1 and Upregulates TNF-α and IL-1β in PBMCs

miR-155 plays a crucial role in proinflammatory activation. This study was carried out to assess the association of abnormal expression of miR-155 in peripheral blood of patients with Rheumatoid arthritis with the expression of TNF-α and IL-1β. Release of TNF-α and IL-1β, and expression of miR-155 were determined in RA peripheral blood or peripheral blood macrophages, followed by correlation analysis of the cytokines release and miR-155 expression. Furthermore, in vitro studies indicate that miR-155 inhibited the expression of SOCS1. Our results suggest that there is a correlation between the high-level expression of miR-155 and the enhanced expression of TNF-α and IL-1β. miR-155 targets and suppresses the expression of SOCS1, and the decrease of SOCS1 may lead to the upregulation of TNF-α and IL-1β.
Genetic associations of body composition, flexibility and injury risk with ACE, ACTN3 and COL5A1 polymorphisms in Korean ballerinas

[Purpose] The purpose of this study was to exam the association of body composition, flexibility, and injury risk to genetic polymorphisms including ACE ID, ACTN3 RX, and COL5A1 polymorphisms in ballet dancers in Korea. [Methods] For the purpose of this study, elite ballerinas (n = 97) and normal female adults (n = 203) aged 18 to 39 were recruited and these participants were tested for body weight, height, body fat, fat free mass, flexibility, injury risks on the joints and gene polymorphisms (ACE, ACTN3, COL5A1 polymorphism). [Results] As results, the ACE DD genotype in ballerinas was associated with higher body fat and percentage of body fat than the ACE II and ID genotypes (p < 0.05). In the study on the ACTN3 polymorphism and ballerinas, the XX genotype in ballerinas had lower body weight and lower fat-free mass than the RR and RX genotype (p < 0.005). Also, the means of sit and reach test for flexibility was lower in the ACTN3 XX genotype of ballerinas than the RR and RX genotype of ballerinas (p < 0.05). Among the sports injuries, the ankle injury of the XX-genotyped ballerinas was in significantly more prevalence than the RR and XX-genotyped ballerinas (p < 0.05). According to the odd ratio analysis, XX-genotyped ballerinas have the injury risk on the ankle about 4.7 (95% CI: 1.6~13.4, p < 0.05) times more than the RR and RX-genotyped ballerinas. Meanwhile, the COL5A1 polymorphism in ballerinas has no association with any factors including flexibility and injury risks. [Conclusion] In conclusion, ACE polymorphism and ACTN3 polymorphism were associated with ballerinas' performance capacity; COL5A1 was not associated with any factors of performance of Ballerinas. The results suggested that the ACE DD genotype is associated with high body fat, the ACTN3 XX genotype is associated with low fat-free mass, low flexibility, and higher risk of ankle-joint injury.
Low-complexity energy-efficient broadcasting in wireless ad-hoc networks using network coding

Energy efficiency, i.e., the amount of battery energy consumed to transmit bits across a wireless link, is a critical design parameter for wireless ad-hoc networks. We examine the problem of broadcasting information to all nodes in an ad-hoc network, when a large percentage of the nodes act as sources. We theoretically quantify the energy savings that network coding can offer for the cases of two regular topologies. We then propose low-complexity distributed algorithms, and demonstrate through simulation that for random networks, network coding can in fact offer significant benefits in terms of energy consumption.
Boundary layer dissipation and the nonlinear interaction of equatorial baroclinic and barotropic rossby waves

Two-layer equatorial primitive equations for the free troposphere in the presence of a thin atmospheric boundary layer and thermal dissipation are developed here. An asymptotic theory for the resonant nonlinear interaction of long equatorial baroclinic and barotropic Rossby waves is derived in the presence of such dissipation. In this model, a self-consistent asymptotic derivation establishes that boundary layer flows are generated by meridional pressure gradients in the lower troposphere and give rise to degenerate equatorial Ekman friction. That is to say, the asymptotic model has the property that the dissipation matrix has one eigenvalue which is nearly zero: therefore the dynamics rapidly dissipates flows with pressure at the base of the troposphere and creates barotropic/baroclinic spin up/spin down. The simplified asymptotic equations for the amplitudes of the dissipative equatorial barotropic and baroclinic waves are studied by linear theory and integrated numerically. The results indicate that although the dissipation slightly weakens the tropics to midlatitude connection, strong localized wave packets are nonetheless able to exchange energy between barotropic and baroclinic waves on intraseasonal timescales in the presence of baroclinic mean shear. Interesting dissipation balanced wave-mean flow states are discovered through numerical simulations. In general, the boundary layer dissipation is very efficient for flows in which the barotropic and baroclinic components are of the same sign at the base of the free troposphere whereas the boundary layer dissipation is less efficient for flows whose barotropic and baroclinic components are of opposite sign at the base of the free troposphere.
Pesticide-Induced Release from Competition Among Competing Aedes aegypti and Aedes albopictus (Diptera: Culicidae)

ABSTRACT Competitive interactions between mosquitoes Aedes aegypti (L.) and Aedes albopictus (Skuse) may depend on environmental conditions. Pesticides may alleviate density-dependent competition for limited food, and a differential species response to sublethal concentrations may modify interspecific competition. We tested the hypothesis that exposure to malathion alters interspecific resource competition between these two species. In the absence of malathion, Ae. aegypti survivorship and per capita rate of population change were negatively affected by increasing densities of Ae. albopictus. However, the asymmetrical negative effect of Ae. albopictus on Ae. aegypti was eliminated in the presence of malathion. In addition, the presence of malathion resulted in shorter development time compared with the controls. The relative importance of pesticide-mediated coexistence in nature has not been evaluated, so its role in mediating coexistence is unclear; however, these findings underscore the potential of environmental concentrations of malathion, and perhaps other pesticides to facilitate coexistence between species.
Elicited Beliefs and Social Information in Modified Dictator Games: What Do Dictators Believe Other Dictators Do?

We use subjects’ actions in modified dictator games to perform a within-subject classification of individuals into four different types of interdependent preferences: Selfish, Social Welfare maximizers, Inequity Averse and Competitive. We elicit beliefs about other subjects’ actions in the same modified dictator games to test how much of the existent heterogeneity in others’ actions is known by subjects. We find that subjects with different interdependent preferences in fact have different beliefs about others’ actions. In particular, Selfish individuals cannot conceive others being non-Selfish while Social Welfare maximizers are closest to the actual distribution of others’ actions. We finally provide subjects with information on other subjects’ actions and re-classify individuals according to their (new) actions in the same modified dictator games. We find that social information does not affect Selfish individuals, but that individuals with interdependent preferences are more likely to change their behavior and tend to behave more selfishly.
Deficit Difference, and Bicultural Models of Afro-American Behavior

The author presents arguments against the prevailing models for describing and analyzing Afro-American culture. He rejects not only the biological and culturaldeficit models, but also presents evidence against the more recent cultural difference and culture-of-poverty models. He sees the latter models as incorrect, and also as harmful if used as a basis for new educational policies and programs. In their place, as a result of on-going field study and his several previous research projects in this area, Mr. Valentine proposes a bicultural educational model, recognizing that many blacks are simultaneously committed to both Black culture and mainstream culture, and that the two are not mutually exclusive as generally assumed.
Sox2 expression defines a heterogeneous population of neurosphere‐forming cells in the adult murine brain

The identification of neural stem cells (NSCs) in situ has been prevented by the inability to identify a marker consistently expressed in all adult NSCs and is thus generally accomplished using the in vitro neurosphere‐forming assay. The high‐mobility group transcription factor Sox2 is expressed in embryonic neural epithelial stem cells; because these cells are thought to give rise to the adult NSC population, we hypothesized that Sox2 may continue to be expressed in adult NSCs. Using Sox2:EGFP transgenic mice, we show that Sox2 is expressed in neurogenic regions along the rostral–caudal axis of the central nervous system throughout life. Furthermore, all neurospheres derived from these neurogenic regions express Sox2, suggesting that Sox2 is indeed expressed in adult NSCs. We demonstrate that NSCs are heterogeneous within the adult brain, with differing capacities for cell production. In vitro, all neurospheres express Sox2, but the expression of markers common to early progenitor cells within individual neurospheres varies; this heterogeneity of NSCs is mirrored in vivo. For example, both glial fibrillary acidic protein and NG2 are expressed within individual neurospheres, but their expression is mutually exclusive; likewise, these two markers show distinct staining patterns within the Sox2+ regions of the brain's neurogenic regions. Thus, we propose that the expression of Sox2 is a unifying characteristic of NSCs in the adult brain, but that not all NSCs maintain the ability to form all neural cell types in vivo.
Some Critical Aspects of Molecular Interactions Between Drugs and Receptors

Protonation states are sometimes crucial for free energy calculations to predict binding ability of molecules to receptors, a main subject for drug design. This mini-review seeks to identify the importance of knowing the influence of pH in such studies to better achieve correct predictions for drug candidates. Protonation states, for both proteins and drugs, need to be considered in docking studies although they have been usually neglected.
Preconditioning of Linear Least Squares by Robust Incomplete Factorization for Implicitly Held Normal Equations

The efficient solution of the normal equations corresponding to a large sparse linear least squares problem can be extremely challenging. Robust incomplete factorization (RIF) preconditioners represent one approach that has the important feature of computing an incomplete $LL^T$ factorization of the normal equations matrix without having to form the normal matrix itself. The right-looking implementation of Benzi and Tůma has been used in a number of studies but experience has shown that in some cases it can be computationally slow and its memory requirements are not known a priori. Here a new left-looking variant is presented that employs a symbolic preprocessing step to replace the potentially expensive searching through entries of the normal matrix. This involves a directed acyclic graph (DAG) that is computed as the computation proceeds. An inexpensive but effective pruning algorithm is proposed to limit the number of edges in the DAG. Problems arising from practical applications are used to compare th.
High expression of PALB2 predicts poor prognosis in patients with advanced breast cancer

PALB2 mutation is associated with increased breast cancer risk; however, PALB2 mutation is rare in sporadic breast cancer cases and little is known about PALB2 expression in breast cancer. Here, we evaluated the prognostic effects of PALB2 with tissue microarray specimens of 117 female breast cancer patients, and determined the potential underlying mechanisms in cell models. In immunohistochemical analysis, we found increased expression of PALB2 in breast cancer tissues compared with the adjacent normal ductal epithelium (P < 0.001). Higher PALB2 scores were positively associated with histological grade and higher PALB2 expression was found in patients that were Her‐2 negative compared with those that were positive (P < 0.05). Interestingly, higher expression of PALB2 was significantly associated with poorer overall survival (P < 0.01) in patients with stage III or nearby lymph node metastasis (N1, N2 or N3). In vitro studies found that PALB2 may promote the migration and invasion of MDA‐MB‐231 cells through E‐cadherin suppression and NF‐κB activation. In conclusion, these results suggest that PALB2 expression levels may serve as a novel prognostic factor for breast cancer patients.
Blood Component Therapy and Coagulopathy in Trauma: A Systematic Review of the Literature from the Trauma Update Group

Background Traumatic coagulopathy is thought to increase mortality and its treatment to reduce preventable deaths. However, there is still uncertainty in this field, and available literature results may have been overestimated. Methods We searched the MEDLINE database using the PubMed platform. We formulated four queries investigating the prognostic weight of traumatic coagulopathy defined according to conventional laboratory testing, and the effectiveness in reducing mortality of three different treatments aimed at contrasting coagulopathy (high fresh frozen plasma/packed red blood cells ratios, fibrinogen, and tranexamic acid administration). Randomized controlled trials were selected along with observational studies that used a multivariable approach to adjust for confounding. Strict criteria were adopted for quality assessment based on a two-step approach. First, we rated quality of evidence according to the Grading of Recommendations Assessment, Development and Evaluation (GRADE) criteria. Then, this rating was downgraded if other three criteria were not met: high reporting quality according to shared standards, absence of internal methodological and statistical issues not detailed by the GRADE system, and absence of external validity issues. Results With few exceptions, the GRADE rating, reporting and methodological quality of observational studies was “very low”, with frequent external validity issues. The only two randomized trials retrieved were, instead, of high quality. Only weak evidence was found for a relation between coagulopathy and mortality. Very weak evidence was found supporting the use of fibrinogen administration to reduce mortality in trauma. On the other hand, we found high evidence that the use of 1:1 vs. 1:2 high fresh frozen plasma/packed red blood cells ratios failed to obtain a 12% mortality reduction. This does not exclude lower mortality rates, which have not been investigated. The use of tranexamic acid in trauma was supported by “high” quality evidence according to the GRADE classification but was downgraded to “moderate” for external validity issues. Conclusions Tranexamic acid is effective in reducing mortality in trauma. The other transfusion practices we investigated have been inadequately studied in the literature, as well as the independent association between mortality and coagulopathy measured with traditional laboratory testing. Overall, in this field of research literature quality is poor.
Relationship of Emotional Exhaustion and Turnover Intentions Mediating Effect of Organizational Commitment among the Faculty of Universities

Environment, organizational culture, development/promotion policies, facilities, compensation and political issues are some of the causes of reduction in the organizational commitment and increase in the level of emotional exhaustion and development of turnover intention among faculty of universities. The occupational psychology of faculty is influenced by diverse elements and specifically, there are various factors that play crucial role in overall organizational commitment emotional exhaustion and turnover intention. The faculty plays a vital role in ensuring the students and society for the quality education. For this study, the faculty members of various departments of selected universities in Sindh were the target population. The population for this study comprised faculty members of higher education institutions employing approximately 100 or more than 100 faculty members. The results shows that all the study variables are significantly related with each other. The mediation results show that organizational commitment partially mediate between the emotional exhaustion and turnover intentions among the faculty of higher education institutions in Sindh.
Rate-equation-based VCSEL thermal model and simulation

In this paper, we present a simple thermal model of Vertical-Cavity Surface-Emitting Laser (VCSEL) light-current (LI) characteristics based on the rate-equation. The model can be implemented in conventional SPICE-like circuit simulators, including HSPICE, and be used to simulate the key features of VCSEL. The results compare favorably with experimental data from a device reported in the literature. The simple empirical model is especially suitable for Computer Aided Design (CAD), and greatly simplifies the design of optical communication systems.
Sedentary Behavior and Health Outcomes: An Overview of Systematic Reviews

Objective 1) To synthesize the current observational evidence for the association between sedentary behavior and health outcomes using information from systematic reviews. 2) To assess the methodological quality of the systematic reviews found. Methodology/Principal Findings Medline; Excerpta Medica (Embase); PsycINFO; and Web of Science were searched for reviews published up to September 2013. Additional publications were provided by Sedentary Behaviour Research Network members. The methodological quality of the systematic reviews was evaluated using recommended standard criteria from AMSTAR. For each review, improper use of causal language in the description of their main results/conclusion was evaluated. Altogether, 1,044 review titles were identified, 144 were read in their entirety, and 27 were included. Based on the systematic reviews with the best methodological quality, we found in children and adolescents, strong evidence of a relationship between time spent in sedentary behavior and obesity. Moreover, moderate evidence was observed for blood pressure and total cholesterol, self-esteem, social behavior problems, physical fitness and academic achievement. In adults, we found strong evidence of a relationship between sedentary behavior and all-cause mortality, fatal and non-fatal cardiovascular disease, type 2 diabetes and metabolic syndrome. In addition, there is moderate evidence for incidence rates of ovarian, colon and endometrial cancers. Conclusions This overview based on the best available systematics reviews, shows that sedentary behavior may be an important determinant of health, independently of physical activity. However, the relationship is complex because it depends on the type of sedentary behavior and the age group studied. The relationship between sedentary behavior and many health outcomes remains uncertain; thus, further studies are warranted.
Generalization in Decision Trees and DNF: Does Size Matter?

Recent theoretical results for pattern classification with thresholded real-valued functions (such as support vector machines, sigmoid networks, and boosting) give bounds on misclassification probability that do not depend on the size of the classifier, and hence can be considerably smaller than the bounds that follow from the VC theory. In this paper, we show that these techniques can be more widely applied, by representing other boolean functions as two-layer neural networks (thresholded convex combinations of boolean functions). For example, we show that with high probability any decision tree of depth no more than d that is consistent with m training examples has misclassification probability no more than O((1/m(Neff VCdim(U) log2 m log d))1/2), where U is the class of node decision functions, and Neff ≤ N can be thought of as the effective number of leaves (it becomes small as the distribution on the leaves induced by the training data gets far from uniform). This bound is qualitatively different from the VC bound and can be considerably smaller. We use the same technique to give similar results for DNF formulae.