Miracle-dz/UniFAR-FTUs huggingface dataset:
Subtropics-Related Interannual Sea Surface Temperature Variability in the Central Equatorial Pacific

Abstract Interannual sea surface temperature (SST) variability in the central equatorial Pacific consists of a component related to eastern Pacific SST variations (called Type-1 SST variability) and a component not related to them (called Type-2 SST variability). Lead–lagged regression and ocean surface-layer temperature balance analyses were performed to contrast their control mechanisms. Type-1 variability is part of the canonical, which is characterized by SST anomalies extending from the South American coast to the central Pacific, is coupled with the Southern Oscillation, and is associated with basinwide subsurface ocean variations. This type of variability is dominated by a major 4–5-yr periodicity and a minor biennial (2–2.5 yr) periodicity. In contrast, Type-2 variability is dominated by a biennial periodicity, is associated with local air–sea interactions, and lacks a basinwide anomaly structure. In addition, Type-2 SST variability exhibits a strong connection to the subtropics of both hemisphere.
Linear and nonlinear relations between psychosocial job characteristics, subjective outcomes, and sickness absence: baseline results from SMASH. Study on Musculoskeletal Disorders, Absenteeism, Stress, and Health.

This study investigates the demand-control-support (DCS) model by (a) using a more focused measure of job control, (b) testing for interactive and nonlinear relationships, and (c) further extending the model to the prediction of an objective outcome measure (i.e., company-administrated sickness absence). Hypotheses were tested in a heterogeneous sample of 1,739 employees from a 3-year prospective cohort study called SMASH (Study on Musculoskeletal Disorders, Absenteeism, Stress, and Health). Baseline results showed that a linear additive model was superior for job satisfaction, psychosomatic health complaints, and sickness absence, whereas a curvilinear model was superior for emotional exhaustion and depression. It is concluded that, first, there was no evidence of interactive effects. Second, it seems sensible to pay more attention to curvilinear relationships in future research. Finally, the DCS model was not supported using a more objective outcome measure.
MUC4 expression is a novel prognostic factor in patients with invasive ductal carcinoma of the pancreas

Background: Many patients with invasive ductal carcinoma of the pancreas (IDC) have a poor outcome. MUC4 expression has been implicated as a marker for diagnosis and progression of IDC, but there are no studies of the relation between MUC4 expression and patient prognosis in IDC. Aims: To investigate the prognostic significance of MUC4 expression in IDC. Methods: The expression profiles of MUC4, ErbB2, p27, and MUC1 were investigated in IDC tissues from 135 patients by means of immunohistochemistry. Results: MUC4 was expressed in 43 of the 135 patients with IDC (31.9%). The survival of 21 patients with high MUC4 expression (>20% of neoplastic cells stained) was significantly worse than that of the 114 patients with low MUC4 expression (<20% of neoplastic cells stained) (p = 0.0043). Univariate analysis showed that high MUC4 expression (p = 0.0061), large primary tumour status (>T2) (p = 0.0436), distant metastasis (p = 0.0383), lymphatic invasion (p = 0.0243), and surgical margins (p = 0.0333) were significant risk factors affecting the outcome of patients with IDC. Backward stepwise multivariate analysis showed that MUC4 expression (p = 0.0121), lymph node metastasis (p = 0.0245), and lymphatic invasion (p = 0.0239) were significant independent risk factors. ErbB2, p27, and MUC1 were not independent risk factors. Conclusions: This study shows that MUC4 expression in IDC is a new independent factor for poor prognosis and predicts the outcome of patients with IDC.
Ciliary Neurotrophic Factor Activates Astrocytes, Redistributes Their Glutamate Transporters GLAST and GLT-1 to Raft Microdomains, and Improves Glutamate Handling In Vivo

To study the functional role of activated astrocytes in glutamate homeostasis in vivo, we used a model of sustained astrocytic activation in the rat striatum through lentiviral-mediated gene delivery of ciliary neurotrophic factor (CNTF). CNTF-activated astrocytes were hypertrophic, expressed immature intermediate filament proteins and highly glycosylated forms of their glutamate transporters GLAST and GLT-1. CNTF overexpression produced a redistribution of GLAST and GLT-1 into raft functional membrane microdomains, which are important for glutamate uptake. In contrast, CNTF had no detectable effect on the expression of a number of neuronal proteins and on the spontaneous glutamatergic transmission recorded from striatal medium spiny neurons. These results were replicated in vitro by application of recombinant CNTF on a mixed neuron/astrocyte striatal culture. Using microdialysis in the rat striatum, we found that the accumulation of extracellular glutamate induced by quinolinate (QA) was reduced threefold with CNTF. In line with this result, CNTF significantly increased QA-induced [18F]-fluoro-2-deoxyglucose uptake, an indirect index of glutamate uptake by astrocytes. Together, these data demonstrate that CNTF activation of astrocytes in vivo is associated with marked phenotypic and molecular changes leading to a better handling of increased levels of extracellular glutamate. Activated astrocytes may therefore be important prosurvival agents in pathological conditions involving defects in glutamate homeostasis.
Molecular Systems Biology Peer Review Process File Systems Analysis of Eleven Rodent Disease Models Reveals an Inflammatome Signature and Key Drivers Transaction Report

(Note: With the exception of the correction of typographical or spelling errors that could be a source of ambiguity, letters and reports are not edited. The original formatting of letters and referee reports may not be reflected in this compilation.) Thank you again for submitting your work to Molecular Systems Biology. We have now heard back from the three referees whom we asked to evaluate your manuscript. As you will see from the reports below, the referees raise substantial concerns on your work, which, I am afraid to say, preclude its publication. The most substantial concerns were raised by the second reviewer who clearly indicated that they were not convinced that this work currently presented a decisive advance in our understanding of gene expression patterns associated with inflammation, and the overlap and novelty of this inflammatome expression signature compared to previous works remained to be rigorously demonstrated. The other two reviewers had more specific, but important concerns, regarding the manner in which consensus networks were constructed and key aspects of the expression profiling methodologies. These two reviewers both rated the validity of the conclusions reached in this work and its suitability for publication as "medium," indicating that they felt that these concerns were important enough to cast some doubt on the conclusions reached in these work. Given these concerns, we feel we have no choice but to return this manuscript with the message that we cannot offer to publish it. Nevertheless, the reviewers expressed interest in the subject matter, and they make constructive
Rapid, Noninvasive Diagnosis of Visceral Leishmaniasis in India: Comparison of Two Immunochromatographic Strip Tests for Detection of Anti-K39 Antibody

ABSTRACT Used with blood or serum, a new anti-K39 antibody immunochromatographic strip test (IT-Leish; DiaMed AG) proved sensitive (range, 99 to 100%) and specific (range, 95 to 100%) for the noninvasive serodiagnosis of visceral leishmaniasis in India. Used with serum, the IT-Leish test and the existing Kalazar Detect test (InBios International, Inc.) yielded comparable results for symptomatic infection and identified apparent subclinical infection in 15 to 32% of healthy residents in a region where visceral leishmaniasis is highly endemic.
Biology and significance of the JAK/STAT signalling pathways

Since its discovery two decades ago, the activation of the Janus kinase/signal transducers and activators of transcription (JAK/STAT) pathway by numerous cytokines and growth factors has resulted in it becoming one of the most well-studied intracellular signalling networks. The field has progressed from the identification of the individual components to high-resolution crystal structures of both JAK and STAT, and an understanding of the complexities of the molecular activation and deactivation cycle which results in a diverse, yet highly specific and regulated pattern of transcriptional responses. While there is still more to learn, we now appreciate how disruption and deregulation of this pathway can result in clinical disease and look forward to adoption of the next generation of JAK inhibitors in routine clinical treatment.
Structural origins of gentamicin antibiotic action

Aminoglycoside antibiotics that bind to the ribosomal A site cause misreading of the genetic code and inhibit translocation. The clinically important aminoglycoside, gentamicin C, is a mixture of three components. Binding of each gentamicin component to the ribosome and to a model RNA oligonucleotide was studied biochemically and the structure of the RNA complexed to gentamicin C1a was solved using magnetic resonance nuclear spectroscopy. Gentamicin C1a binds in the major groove of the RNA. Rings I and II of gentamicin direct specific RNA‐drug interactions. Ring III of gentamicin, which distinguishes this subclass of aminoglycosides, also directs specific RNA interactions with conserved base pairs. The structure leads to a general model for specific ribosome recognition by aminoglycoside antibiotics and a possible mechanism for translational inhibition and miscoding. This study provides a structural rationale for chemical synthesis of novel aminoglycosides.
Nuclear targeting of the tegument protein pp65 (UL83) of human cytomegalovirus: an unusual bipartite nuclear localization signal functions with other portions of the protein to mediate its efficient nuclear transport

Large amounts of pp65 (UL83) of human cytomegalovirus are translocated to the cell nucleus during the first minutes after uptake of the tegument protein from infecting viral particles. Two stretches of basic amino acids which resembled nuclear localization signals (NLS) of both the simian virus 40 type and the bipartite type were found in the primary structure of pp65. Deletion of these sequences significantly impaired nuclear localization of the truncated proteins after transient expression. The results indicated that both elements contributed to the nuclear localization of the protein. When fused to the bacterial beta-galactosidase, only one of the two basic elements was sufficient to mediate nuclear translocation. This element consisted of two clusters of basic amino acids (boxes C and D), which were separated by a short spacer sequence. In contrast to other bipartite NLS of animal cells, both basic boxes C and D functioned independently in nuclear transport, thus resembling simian virus 40-type NLS. Yet, complete translocation of beta-galactosidase was only found in the bipartite configuration. When both boxes C and D were fused, thereby deleting the intervening sequences, the nuclear transport of beta-galactosidase was reduced to levels seen with constructs in which only one of the boxes was present. Appropriate spacing, therefore, was important but not absolutely required. This was in contrast with results for other bipartite NLS, in which spacer deletions led to complete cytoplasmic retention. The presented results demonstrate that efficient nuclear transport of pp65 is mediated by one dominant NLS and additional targeting sequences. The major NLS of pp65 is an unusual signal sequence composed of two weak NLS which function together as one strong bipartite nuclear targeting signal.
Physical Properties and Clinical Characteristics of Ceramic Brackets: A Comprehensive Review

The popularity and clinical uses of ceramic bracket is increasing in the contemporary orthodontics. This article provides the clinician an up-to-date knowledge on the physical properties and clinical characteristics of ceramic brackets. It critically discusses the various aspects of ceramic brackets with regards to the composition, types, base characteristic, physical properties, enamel and bracket fracture, frictional resistance, bond strength, debonding methods, bracket recycling and potential clinical problems and their managements.
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Comparison of GaInNAs and GaInNAsSb solar cells grown by plasma-assisted molecular beam epitaxy

We compare dilute nitride GaInNAs and GaInNAsSb solar cells grown by molecular beam epitaxy. Single junction p-i-n diode solar cells were fabricated to test the dilute nitride and antimonide material fabrication process. Triple-junction solar cells were fabricated to test the behavior of single GaInNAs(Sb) junctions in multi-junction configuration. When nitrogen was added to the growth of GaInNAs, good crystal quality was maintained up to 4% of nitrogen at the used growth conditions. Short circuit current densities of the devices could be increased by adding Sb to the growth but at the same time the open circuit voltages decreased due to bandgap shrinkage induced by Sb. In multijunction configuration, the samples with Sb showed inferior properties to ones without it. Lower currents and voltages of Sb-containing cells may be linked to segregation of Sb and transfer to the upper junctions.
Morphophonemics and the lexicon : a case study from Turkish

A large body of recent work has focused on statistical properties of the lexicon and their possible consequences for the grammar (e.g., Luce 1986, Content et al. 1990, Baayen 1993, Plag et al. 1999, Hay and Baayen 2002, Ernestus and Baayen 2003). The basic idea of this line of research is that every word can be meaningfully characterized by way of its relationship to other words in the same lexicon. Individual words are therefore not isolated entities; instead, their grammatical behavior can best be understood by considering lexicon variables such as frequency, neighborhood density, and cohort size. For example, Rhodes (1992) claims that flapping in American English tends to occur in frequent words like winter but not in infrequent words like banter. Frequent words are produced with more gestural overlap and hence greater tendency for reduction, so the lexical statistics approach offers a plausible explanation for this gradient alternation. It is less clear what the approach offers for semi-regular alternations, where a majority of words undergo a categorical change but others do not. Consider stem-final alternations in Turkish nouns, in which coda /p, t, t! , k/ alternate with onset /b, d, d", g/. Most nouns undergo the alternation (1a), but some resist it (1b).
A context-free markup language for semi-structured text

An ad hoc data format is any nonstandard, semi-structured data format for which robust data processing tools are not easily available. In this paper, we present ANNE, a new kind of markup language designed to help users generate documentation and data processing tools for ad hoc text data. More specifically, given a new ad hoc data source, an ANNE programmer edits the document to add a number of simple annotations, which serve to specify its syntactic structure. Annotations include elements that specify constants, optional data, alternatives, enumerations, sequences, tabular data, and recursive patterns. The ANNE system uses a combination of user annotations and the raw data itself to extract a context-free grammar from the document. This context-free grammar can then be used to parse the data and transform it into an XML parse tree, which may be viewed through a browser for analysis or debugging purposes. In addition, the ANNE system generates a PADS/ML description, which may be saved as lasting documentation of the data format or compiled into a host of useful data processing tools. In addition to designing and implementing ANNE, we have devised a semantic theory for the core elements of the language. This semantic theory describes the editing process, which translates a raw, unannotated text document into an annotated document, and the grammar extraction process, which generates a context-free grammar from an annotated document. We also present an alternative characterization of system behavior by drawing upon ideas from the field of relevance logic. This secondary characterization, which we call relevance analysis, specifies a direct relationship between unannotated documents and the context-free grammars that our system can generate from them. Relevance analysis allows us to prove important theorems concerning the expressiveness and utility of our system.
Developing a Text Messaging Risk Reduction Intervention for Methamphetamine-Using MSM: Research Note

Men who have sex with men (MSM) who use methamphetamine experience high risks for HIV infection due to sexual transmission behaviors often engaged in when under the influence of methamphetamine. Methamphetamine-using MSM use various forms of information technology (IT) communication such as instant messaging, social networking sites, and websites to facilitate a sexual and/or drug “hook up. ” Given the acceptability of IT communication in their daily lives, an IT intervention represents an appropriate strategy to reach and intervene with out-of-treatment, methamphetamine-using MSM. The aim of this study was to conduct formative work to develop a text messaging intervention to reduce methamphetamine use and high-risk sexual behaviors among out-of-treatment MSM, which involved conducting focus groups, community partners’ meetings, and a pre-test intervention. These activities culminated in the development of a two-week, text-messaging intervention that delivered real-time electronic correspondence based on the behavioral change theories of Social Support Theory, Health Belief Model, and Social Cognitive Theory. The focus groups, community meetings, and pre-test were used to identify the IT communication device, the text messages that best support risk reduction and healthier behavioral choices, and logo, flyer and website development. The input and feedback from the target population and community partners were critical to the successful development of a culturally appropriate intervention. The knowledge gleaned from the formative work of this study will be vitally helpful in designing future IT studies.
A Single-Stage Microinverter Without Using Eletrolytic Capacitors

This paper presents a new microinverter topology that is intended for single-phase grid-connected PV systems. The proposed microinverter topology is based on a flyback converter, where an extra switch is added to separate the decoupling capacitor from the PV Module, which allows for a high voltage and voltage ripples across its terminals. This results in reducing the power decoupling required capacitance. In this manner, long life-time low power density film capacitors can be used instead of life-time limited high power density electrolytic capacitors, resulting in remarkable increase of microinverter's lifespan. The main advantages of the proposed topology are summarized as: 1) eliminating the double-frequency power ripple using a small film capacitor; 2) using long lifetime film capacitors, which will improve the reliability of the inverter; and 3) requiring no additional circuitry to manage the transformer leakage energy. A 100-W microinverter prototype was built to verify the proposed topology. Experimental results show that the proposed topology and its control scheme can realize the power decoupling, while maintaining very good conversion efficiency numbers.
Effect of protracted treatment with rosiglitazone, a PPARγ agonist, in patients with Cushing's disease

Objective Cushing's disease, hypercortisolism due to a pituitary ACTH‐secreting tumour, is a highly morbid illness as yet without effective medical therapy. Recent studies have demonstrated that peroxisome proliferator‐activated receptor gamma (PPARγ) agonists effectively suppress ACTH secretion in a murine tumoral corticotroph cell line, but the few studies conducted so far in patients with ACTH‐secreting pituitary adenomas have yielded variable results.
Time-Dependent Changes in the Luminal Surface and Mass of the Rat Colon during Prolonged Systemic Treatment with Epidermal Growth Factor

BACKGROUND Systemic treatment with epidermal growth factor (EGF) for 4 weeks increases the colonic mucosal weight and surface area. The present study was initiated to describe the time-dependent colonic changes during prolonged treatment with EGF. METHODS Forty-eight female Wistar rats were allocated into five groups receiving subcutaneous EGF treatment (150 microg/kg/day) for 0 (controls), 1, 2, 3, or 4 weeks. EGF was administered in the weeks before they were killed. By means of modern stereologic techniques (point counting and vertical sections), the weights of the colonic wall layers and the luminal surface area were measured on histologic sections. The colon was subdivided into proximal and distal parts. RESULTS The weight of the total colon increased relatively more than the total body weight. After 1 week of treatment with EGF the surface area and wet weight of the total colon increased by 47% and 10%, and after 4 weeks by 62% and 37%, respectively. After 4 weeks the weight increase was mainly due to increased mucosal weight (by 65%, P < 0.01) and less prominently the submucosa (by 45%, P < 0.01) and the muscularis propria (by 32%, P < 0.01). On the basis of the wet weight increase, the proximal colon was more responsive to EGF treatment than the distal colon. CONCLUSIONS Systemic treatment with EGF for 1 week increased the luminal surface area relatively more than the mass of the colon. Treatment with EGF for more than 1 week caused only a minor further surface area increase, whereas the colonic mass continued to increase in a time-dependent manner.