Miracle-dz/UniFAR-FTUs huggingface dataset:
The Polyadenylation Factor Subunit CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR30: A Key Factor of Programmed Cell Death and a Regulator of Immunity in Arabidopsis1[W]

A mutation in the Arabidopsis mRNA polyadenylation factor suppresses the cell death associated with the immunity response mediated by salicylic acid and defective myoinositol biosynthesis. Programmed cell death (PCD) is essential for several aspects of plant life, including development and stress responses. Indeed, incompatible plant-pathogen interactions are well known to induce the hypersensitive response, a localized cell death. Mutational analyses have identified several key PCD components, and we recently identified the mips1 mutant of Arabidopsis (Arabidopsis thaliana), which is deficient for the key enzyme catalyzing the limiting step of myoinositol synthesis. One of the most striking features of mips1 is the light-dependent formation of lesions on leaves due to salicylic acid (SA)-dependent PCD, revealing roles for myoinositol or inositol derivatives in the regulation of PCD. Here, we identified a regulator of plant PCD by screening for mutants that display transcriptomic profiles opposing that of the mips1 mutant. Our screen identified the oxt6 mutant, which has been described previously as being tolerant to oxidative stress. In the oxt6 mutant, a transfer DNA is inserted in the CLEAVAGE AND POLYADENYLATION SPECIFICITY FACTOR30 (CPSF30) gene, which encodes a polyadenylation factor subunit homolog. We show that CPSF30 is required for lesion formation in mips1 via SA-dependent signaling, that the prodeath function of CPSF30 is not mediated by changes in the glutathione status, and that CPSF30 activity is required for Pseudomonas syringae resistance. We also show that the oxt6 mutation suppresses cell death in other lesion-mimic mutants, including lesion-simulating disease1, mitogen-activated protein kinase4, constitutive expressor of pathogenesis-related genes5, and catalase2, suggesting that CPSF30 and, thus, the control of messenger RNA 3′ end processing, through the regulation of SA production, is a key component of plant immune responses.
Evaluating maize yield variability and gaps in two agroecologies in northern Ghana using a crop simulation model

The yield gap and variability in maize under smallholder systems in two agroecologies in northern Ghana were evaluated using a decision support system for agrotechnology transfer (DSSAT). The model was used to assess (1) the potential yield of maize (YPOT), (2) water-limited exploitable maize yield (YWEX), (3) nitrogen-limited yield (YNI), (4) farmer practice maize yield (YCFP) and (5) proposed enhanced nutrient use yield (enhanced farmer practice; YEFP). Effect of supplementary irrigation was also assessed on YCFP and YEFP conditions. Yield gaps were determined as the difference between YPOT and YCFP or YEFP on the one hand, and between YWEX and YCFP or YEFP on the other hand. The yield gap based on potential yield ranged from 59% to 75% under CFP and narrowed to between 29% and 59% under EFP. With water-limited exploitable yields, the yield gap ranged from 53% to 65% under CFP, reducing to between 22% and 42% under EFP. The use of supplementary irrigation further reduced the yield gap. Improved fertiliser use and supplementary irrigation have the potential to increase yield and hence reduce the yield gap if effective policies and institutional structures are in place to provide farmers with credit facilities and farm inputs.
Phage therapy of Cronobacter-induced urinary tract infection in mice.

BACKGROUND Cronobacter spp. is an opportunistic pathogen causing rare but dangerous cases of meningitis, sepsis and urinary tract infection. Phage therapy overcomes antibiotic resistance and represents an alternative approach to standard antimicrobial treatment. There are no published studies on the use of phages against Cronobacter spp. in vivo. The aim of our study was to prove the effects of isolated Cronobacter-specific phages on renal colonization in a model of urinary tract infection in mice. MATERIAL/METHODS Urinary tract infection was induced by transurethral application of Cronobacter turicensis (1011 CFU/ml). Simultaneously, isolated Cronobacter-specific phages were administered intraperitoneally (1011 PFU/ml). After 24 hours, kidneys and bladder were collected and used for cultivation and analysis of gene expression and oxidative stress markers. RESULTS Phage therapy reduced the number of Cronobacter colonies in the kidney by 70%. Higher levels of malondialdehyde were reduced by phage therapy without affecting the antioxidant status. The expression of pro-inflammatory cytokines tumor necrosis factor-alpha and monocyte chemoattractant protein-1 increased by the infection and was attenuated by phage therapy. CONCLUSIONS Phage therapy proved effective in the prevention of ascending renal infection in a murine model of urinary tract infection. Long-term effects and safety of the treatment are currently unknown. Further studies should test phage therapy in other Cronobacter infection models.
Effects of Online Cognitive Treatment for Problematic Anger: A Randomized Controlled Trial

Problematic anger, which is common, has been associated with a wide range of negative interpersonal and intrapersonal consequences, including violent behaviour, relationship damage, health problems and low self-esteem. This article reports the results of the first randomized controlled trial of brief online cognitive treatment for anger. The sample included 75 adults who were randomly assigned to cognitive treatment or a waiting list control. The analyses with the 59 participants who completed the post-intervention assessment at four weeks after the beginning of the intervention showed that individuals who received the intervention reported significantly lower anger levels than the control group at post-assessment. The treatment group showed a substantial decrease in anger from pre to post. The results suggest that brief online cognitive treatment can be effective for reducing problematic anger in adults. These findings provide an initial support for the development of internet-based cognitive treatment for problematic anger.
Flow tones in a pipeline-cavity system:effect of pipe asymmetry

Flow tones in a pipeline-cavity system are characterized in terms of unsteady pressure within the cavity and along the pipe. The reference case corresponds to equal lengths of pipe connected to the inlet and outlet ends of the cavity. Varying degrees of asymmetry of this pipe arrangement are investigated. The asymmetry is achieved by an extension of variable length, which is added to the pipe at the cavity outlet. An extension length as small as a few percent of the acoustic wavelength of the resonant mode can yield a substantial reduction in the pressure amplitude of the flow tone. This amplitude decrease occurs in a similar fashion within both the cavity and the pipe resonator, which indicates that it is a global phenomenon. Furthermore, the decrease of pressure amplitude is closely correlated with a decrease of the Q (quality)-factor of the predominant spectral component of pressure. At a sufficiently large value of extension length, however, the overall form of the pressure spectrum recovers to the form that exists at zero length of the extension. Further insight is provided by variation of the inflow velocity at selected values of extension length. Irrespective of its value, both the magnitude and frequency ofmore » the peak pressure exhibit a sequence of resonant-like states. moreover, the maximum attainable magnitude of the peak pressure decreases with increasing extension length. « less
Circumventing d-to-1 for Approximation Resistance of Satisfiable Predicates Strictly Containing Parity of Width at Least Four

Combinatorial optimization include such tasks as finding the quickest route to work, scheduling jobs to specialists, and placing bus stops so as to minimize commuter times. We consider problems where one is given a collection of constraints with the objective of finding an assignment satisfying as many constraints as possible, also known as Constraint Satisfaction Problems (CSPs). Most CSPs are NP-hard to solve optimally and we turn to approximations - a solution is said to be a factor-c approximation if its satisfies at least c times the optimal number of constraints. This thesis presents new results on the approximation limits of CSPs in various settings.In ordering CSPs, one is given constraints which specify the relative order of items, and the objective is order the items so as to satisfy as many constraints as possible. We give improved approximation hardness results for two classical problems: it is NP-hard to approximate Maximum Acyclic Subgraph with a factor better than 14/15 and Maximum Betweenness with a factor better than 1/2. We present ordering problems which are NP-hard to approximate better than random assignments, and that there are ordering problems arbitrarily hard to approximate.Next, Gaussian elimination can efficiently find exact solutions for satisfiable collections of so-called parity constraints. We show that whenever constraints accept at least one assignment in addition to a parity, then the problem is NP-hard to approximate better than random assignments. Finally, we study the uselessness property which basically states that if one is given a collection where almost all constraints are simultaneously satisfiable and one is permitted to relax the constraints to accept or reject additional assignments, then it is still NP-hard to find solutions noticeably better than random assignments. We consider the setting where all variables appear unnegated and provide the first examples of non-trivially useless predicates assuming only P ! = NP.
Minimal resolutions, Chow forms and Ulrich bundles on K3 surfaces

The Minimal Resolution Conjecture (MRC) for points on a projective variety X predicts that the Betti numbers of general sets of points in X are as small as the geometry (Hilbert function) of X allows. To a large extent, we settle this conjecture for a curve C with general moduli. We show that, independently of the genus, MRC holds for a general linear system of degree d and dimension r on C if and only if d>2r-1. We then proceed to find a full solution to the Ideal Generation Conjecture for curves with general moduli. In a different direction, we prove that K3 surfaces admit Ulrich bundles of every rank. We apply this to describe a pfaffian equation for the Chow form of a K3 surface.
Double-Peaked Oxygen Lines Are Not Rare in Nebular Spectra of Core-Collapse Supernovae

Double-peaked oxygen lines in the nebular spectra of two peculiar Type Ib/c supernovae (SNe Ib/c) have been interpreted as off-axis views of a GRB jet or unipolar blob ejections. Here we present late-time spectra of eight SNe IIb, Ib, and Ic and show that this phenomenon is common and should not be so firmly linked to extraordinary explosion physics. The line profiles are most likely caused by ejecta expanding with a torus- or disk-like geometry. Double-peaked oxygen profiles are not necessarily the indicator of a misdirected GRB jet.
Rare earth-based quaternary Heusler compounds MCoVZ (M = Lu, Y; Z = Si, Ge) with tunable band characteristics for potential spintronic applications

Under uniform strain, there are natural physical transitions from spin-filter magnetic semiconductor (MS) to spin-gapless semiconductor (SGS) to half-metal (HM) for rare earth-based equiatomic quaternary Heusler (EQH) compounds with the formula LuCoVZ, and from HM → SGS → MS → SGS → HM for EQH compounds with the formula YCoVZ.
[Accidental home deliveries in southern São Paulo, Brazil].

OBJECTIVE To identify the frequency, risks of fetal and early neonatal mortality and the determinants of accidental home deliveries. METHODS A population-based case control study of fetal and early neonatal deaths was carried out in the southern area of São Paulo, Brazil. Data were collected through home interviews and hospital record reviews. The reasons reported by the mothers were obtained from interviews and risk factors for home delivery were obtained comparing home to hospital deliveries. Data were analyzed separately for fetal and early neonatal deaths and survivors. Odds ratios, 95% confidence intervals and Fisher's exact test were used in estimating risk factors and mortality risk. RESULTS The 0.2% frequency of home deliveries was underestimated in the live births information system. After adjustment, it reached 0.4%, comparable to other urban areas in Europe. All home deliveries identified were accidental and were associated to an increased fetal and early neonatal mortality. Mothers' social conditions and pregnancy characteristics were associated to accidental home deliveries and these factors are different outcomes studied (fetal losses, early neonatal deaths and survivors). In 30%, mothers reported lack of available transportation to the hospital as a reason for home delivery. Failure of health services in identifying labor women and non-availability of emergency care contributed to accidental home deliveries. CONCLUSIONS Though rare events in urban areas, accidental home deliveries should be of special concern to health services because they seem to be avoidable and imply in increased risk of death.
ActiveRDF: object-oriented semantic web programming

Object-oriented programming is the current mainstream programming paradigm but existing RDF APIs are mostly triple-oriented. Traditional techniques for bridging a similar gap between relational databases and object-oriented programs cannot be applied directly given the different nature of Semantic Web data, for example in the semantics of class membership, inheritance relations, and object conformance to schemas. We present ActiveRDF, an object-oriented API for managing RDF data that offers full manipulation and querying of RDF data, does not rely on a schema and fully conforms to RDF(S) semantics. ActiveRDF can be used with different RDF data stores: adapters have been implemented to generic SPARQL endpoints, Sesame, Jena, Redland and YARS and new adapters can be added easily. In addition, integration with the popular Ruby on Rails framework enables rapid development of Semantic Web applications.
Mobile Phone Apps to Promote Weight Loss and Increase Physical Activity: A Systematic Review and Meta-Analysis

Background To our knowledge, no meta-analysis to date has assessed the efficacy of mobile phone apps to promote weight loss and increase physical activity. Objective To perform a systematic review and meta-analysis of studies to compare the efficacy of mobile phone apps compared with other approaches to promote weight loss and increase physical activity. Methods We conducted a systematic review and meta-analysis of relevant studies identified by a search of PubMed, the Cumulative Index to Nursing and Allied Health Literature (CINAHL), and Scopus from their inception through to August 2015. Two members of the study team (EG-F, GF-M) independently screened studies for inclusion criteria and extracted data. We included all controlled studies that assessed a mobile phone app intervention with weight-related health measures (ie, body weight, body mass index, or waist circumference) or physical activity outcomes. Net change estimates comparing the intervention group with the control group were pooled across studies using random-effects models. Results We included 12 articles in this systematic review and meta-analysis. Compared with the control group, use of a mobile phone app was associated with significant changes in body weight (kg) and body mass index (kg/m2) of -1.04 kg (95% CI -1.75 to -0.34; I2 = 41%) and -0.43 kg/m2 (95% CI -0.74 to -0.13; I2 = 50%), respectively. Moreover, a nonsignificant difference in physical activity was observed between the two groups (standardized mean difference 0.40, 95% CI -0.07 to 0.87; I2 = 93%). These findings were remarkably robust in the sensitivity analysis. No publication bias was shown. Conclusions Evidence from this study shows that mobile phone app-based interventions may be useful tools for weight loss.
Architectural support for cilk computations on many-core architectures

Future generations of high performance processors have the potential to integrate tens to hundreds of processing cores in a single chip. In recent years, many-core architectures [1] have been proposed as a promising platform to exploit massive parallelism. Although previous works have demonstrated encouraging performance potential, there is still limited consensus on how to program many-core architectures. In this work, we propose architectural support for Cilk computations [3, 4] on Godson-T V3 architecture [2]. Our design has two hardware components. One component includes necessary cache control mechanisms to support ScC based multi-threaded programming. We choose ScC model in order to design more scalable cache consistency protocols. In addition, we propose coherence vector, a hardware structure and related programming interfaces to further improve the programmability of ScC. With this architectural support, we port the sequential consistency based multi-threaded Cilk runtime system (Cilk-5.4.6) smoothly onto our many core architecture model, which implements ScC. The other component is the architectural support for DAG consistency. This is important to relieve application programmers from worrying about cache consistency issues themselves. We make two contributions: (1) we propose a set of architecture mechanisms to support Cilk programming model. We show that it is possible to achieve a balance between two conflicting goals: programmability and scalable cache consistency protocols, which is important for MCA. (2) Experimental results reveal two fundamental reasons which limit the performance scalability of MCA: the unbalanced on chip network bandwidth usage and limited memory bandwidth. 2. Architectural Support for Programmability
Neural Activity in the Macaque Putamen Associated with Saccades and Behavioral Outcome

It is now widely accepted that the basal ganglia nuclei form segregated, parallel loops with neocortical areas. The prevalent view is that the putamen is part of the motor loop, which receives inputs from sensorimotor areas, whereas the caudate, which receives inputs from frontal cortical eye fields and projects via the substantia nigra pars reticulata to the superior colliculus, belongs to the oculomotor loop. Tracer studies in monkeys and functional neuroimaging studies in human subjects, however, also suggest a potential role for the putamen in oculomotor control. To investigate the role of the putamen in saccadic eye movements, we recorded single neuron activity in the caudal putamen of two rhesus monkeys while they alternated between short blocks of pro- and anti-saccades. In each trial, the instruction cue was provided after the onset of the peripheral stimulus, thus the monkeys could either generate an immediate response to the stimulus based on the internal representation of the rule from the previous trial, or alternatively, could await the visual rule-instruction cue to guide their saccadic response. We found that a subset of putamen neurons showed saccade-related activity, that the preparatory mode (internally- versus externally-cued) influenced the expression of task-selectivity in roughly one third of the task-modulated neurons, and further that a large proportion of neurons encoded the outcome of the saccade. These results suggest that the caudal putamen may be part of the neural network for goal-directed saccades, wherein the monitoring of saccadic eye movements, context and performance feedback may be processed together to ensure optimal behavioural performance and outcomes are achieved during ongoing behaviour.
Evidence for depressed humoral immunity to Pneumocystis carinii in homosexual males, commercial plasma donors, and patients with acquired immunodeficiency syndrome

Heterosexual controls were found to have significantly higher titers of immunoglobulin G antibody to Pneumocystis carinii than did patients with the acquired immunodeficiency syndrome (AIDS) and P. carinii pneumonitis, human immunodeficiency virus (HIV) antibody-positive or -negative homosexual male "gay bar" patrons, and HIV antibody-positive or -negative commercial plasma donors. The T-helper/T-suppressor lymphocyte ratios of HIV antibody-negative homosexual male gay bar patrons were slightly depressed (mean = 1.31 +/- 0.54) compared with those of heterosexual controls (mean = 1.79 +/- 0.32). In addition to other recognized factors, preexisting humoral as well as cell-mediated immune deficits before infection with HIV may help to explain the prevalence of and morbidity and mortality associated with P. carinii pneumonitis in AIDS patients.
Language-adaptive persian speech recognition

Development of robust spoken language technology ideally relies on the availability of large amounts of data preferably in the target domain and language. However, more often than not, speech developers need to cope with very little or no data, typically obtained from a different target domain. This paper focuses on developing techniques towards addressing this challenge. Specically we consider the case of developing a Persian language speech recognizer with sparse amounts of data. For language modeling, there are several potential sources of text data, e.g., available on the Internet, to help bootstrap initial models; however, acoustic data can be obtained only by tedious data collection efforts. The drawback of limited Persian acoustic data can be partially overcome by making use of acoustic data from languages that have vast resources such as English (and other languages, if available). The phoneme sets especially for diverse languages such as English and Persian differ considerably. However by incorporating knowledge-based as well as data-driven phoneme mappings, reliable Persian acoustic models can be trained using well-trained English models and small amounts of Persian re-training data. In our experiments Persian models re-trained from seed models created by data-driven phoneme mappings of English models resulted in a phoneme error rate of 19.80% as compared to a phoneme error rate of 20.35% when the Persian models were re-trained from seed models created by sparse Persian data.
Regulation of Cytokine Receptors by Golgi N-Glycan Processing and Endocytosis

The Golgi enzyme β1,6 N-acetylglucosaminyltransferase V (Mgat5) is up-regulated in carcinomas and promotes the substitution of N-glycan with poly N-acetyllactosamine, the preferred ligand for galectin-3 (Gal-3). Here, we report that expression of Mgat5 sensitized mouse cells to multiple cytokines. Gal-3 cross-linked Mgat5-modified N-glycans on epidermal growth factor and transforming growth factor–β receptors at the cell surface and delayed their removal by constitutive endocytosis. Mgat5 expression in mammary carcinoma was rate limiting for cytokine signaling and consequently for epithelial-mesenchymal transition, cell motility, and tumor metastasis. Mgat5 also promoted cytokine-mediated leukocyte signaling, phagocytosis, and extravasation in vivo. Thus, conditional regulation of N-glycan processing drives synchronous modification of cytokine receptors, which balances their surface retention against loss via endocytosis.
Approaches to Online Learning and Concept Drift for User Identification in Computer Security

The task in the computer security domain of anomaly detection is to characterize the behaviors of a computer user (the 'valid' , or 'normal' user) so that unusual occurrences can be detected by comparison of the current input stream to the valid user's profile. This task requires an online learning system that can respond to concept drift and handle discrete non-metric time sequence data. We present an architecture for online learning in the anomaly detection domain and address the issues of incremental updating of system parameters and instance selection. We demonstrate a method for measuring direction and magnitude of concept drift in the classification space and present and evaluate approaches to the above stated issues which make use of the drift measurement.