Miracle-dz/UniFAR-FTUs huggingface dataset:
Chronic rhinosinusitis and bacterial biofilms

Purpose of reviewRecently, there has been increased interest in bacterial biofilms as a major factor in chronic infections. Chronic rhinosinusitis is one of the most common chronic infections seen by physicians. The purpose of this review is to summarize the literature available on chronic rhinosinusitis and biofilms. Recent findingsOnly very few articles are available about the relationship between biofilms and chronic rhinosinusitis. Three separate authors reported on finding biofilms in samples obtained from patients with chronic rhinosinusitis. One article demonstrated biofilms on samples obtained from animals that were inoculated with bacteria. The major breakthrough was noted when the majority of samples from patients with chronic rhinosinusitis had biofilms in them but none were found on similar samples obtained on controls. SummaryEven though only a few reports are available about the role of biofilms and chronic rhinosinusitis, the evidence seems to be convincing that such a role exists. We still have a long way to go, however, before we know the exact relationship of biofilms and chronic rhinosinusitis. Why do some patients form biofilms, what triggers biofilm formation and how can we prevent them from forming are questions that need to be answered.
FlexStem: improving predictions of RNA secondary structures with pseudoknots by reducing the search space

MOTIVATION RNA secondary structures with pseudoknots are often predicted by minimizing free energy, which is proved to be NP-hard. Due to kinetic reasons the real RNA secondary structure often has local instead of global minimum free energy. This implies that we may improve the performance of RNA secondary structure prediction by taking kinetics into account and minimize free energy in a local area. RESULT we propose a novel algorithm named FlexStem to predict RNA secondary structures with pseudoknots. Still based on MFE criterion, FlexStem adopts comprehensive energy models that allow complex pseudoknots. Unlike classical thermodynamic methods, our approach aims to simulate the RNA folding process by successive addition of maximal stems, reducing the search space while maintaining or even improving the prediction accuracy. This reduced space is constructed by our maximal stem strategy and stem-adding rule induced from elaborate statistical experiments on real RNA secondary structures. The strategy and the rule also reflect the folding characteristic of RNA from a new angle and help compensate for the deficiency of merely relying on MFE in RNA structure prediction. We validate FlexStem by applying it to tRNAs, 5SrRNAs and a large number of pseudoknotted structures and compare it with the well-known algorithms such as RNAfold, PKNOTS, PknotsRG, HotKnots and ILM according to their overall sensitivities and specificities, as well as positive and negative controls on pseudoknots. The results show that FlexStem significantly increases the prediction accuracy through its local search strategy. AVAILABILITY Software is available at http://pfind.ict. ac.cn/FlexStem/. SUPPLEMENTARY INFORMATION Supplementary data are available at Bioinformatics online.
Morphological Processing in a Second Language: Behavioral and Event-related Brain Potential Evidence for Storage and Decomposition

This study reports the results of two behavioral and two event-related brain potential experiments examining the processing of inflected words in second-language (L2) learners with Russian as their native language. Two different subsystems of German inflection were studied, participial inflection and noun plurals. For participial forms, L2 learners were found to widely generalize the -t suffixation rule in a nonce-word elicitation task, and in the event-related brain potential experiment, they showed an anterior negativity followed by a P600-both results resembling previous findings from native speakers of German on the same materials. For plural formation, the L2 learners displayed different preference patterns for regular and irregular forms in an off-line plural judgment task. Regular and irregular plural forms also differed clearly with regard to their brain responses. Whereas overapplications of the -s plural rule produced a P600 component, overapplications of irregular patterns elicited an N400. In contrast to native speakers of German, however, the L2 learners did not show an anterior negativity for -s plural overapplications. Taken together, the results show clear dissociations between regular and irregular inflection for both morphological subsystems. We argue that the two processing routes posited by dual-mechanism models of inflection (lexical storage and morphological decomposition) are also employed by L2 learners.
Role of angiogenesis in chronic lymphocytic leukemia

Angiogenesis is a physiologic process of new blood vessels formation mediated by various cytokines called angiogenic and angiostatic factors. Although its potential pathophysiologic role in solid tumors has been extensively studied for more than 3 decades, enhancement of angiogenesis in chronic lymphocytic leukemia (CLL) and other malignant hematological disorders has been recognized more recently. An increased level of angiogenesis has been documented by various experimental methods both in bone marrow and lymph nodes of patients with CLL. Although the role of angiogenesis in the pathophysiology of this disease remains to be fully elucidated, experimental data suggest that several angiogenic factors play a role in the disease progression. Biologic markers of angiogenesis were also shown to be of prognostic relevance in CLL. The current findings provide the rationale for investigating antiangiogenic agents in CLL. In the current review angiogenesis in CLL is discussed and its potential diagnostic and therapeutic applications. Cancer 2006. © 2006 American Cancer Society.
ALK Signaling and Target Therapy in Anaplastic Large Cell Lymphoma

The discovery by Morris et al. (1994) of the genes contributing to the t(2;5)(p23;q35) translocation has laid the foundation for a molecular based recognition of anaplastic large cell lymphoma and highlighted the need for a further stratification of T-cell neoplasia. Likewise the detection of anaplastic lymphoma kinase (ALK) genetic lesions among many human cancers has defined unique subsets of cancer patients, providing new opportunities for innovative therapeutic interventions. The objective of this review is to appraise the molecular mechanisms driving ALK-mediated transformation, and to maintain the neoplastic phenotype. The understanding of these events will allow the design and implementation of novel tailored strategies for a well-defined subset of cancer patients.
Racial Differences in Prostate Cancer Treatment Outcomes: A Systematic Review

Although differences in prostate cancer incidence and mortality between black and white men are widely accepted, the existence of racial differences in treatment outcomes remains controversial. We conducted a systematic review of racial differences in prostate cancer treatment outcomes. Systematic review of literature from 1992–2002 was conducted. Database searches were performed using the terms: “prostate cancer” (keyword) or “prostate neoplasm” (subject heading) + “blacks” (subject heading) or “blacks” (keyword) + “African-Americans” (subject heading or “African-Americans” (keyword). Two hundred fifty-eight relevant articles were identified; 29 fit the inclusion criteria. All but 3 were retrospective. Seven (24%) studies were conducted at Veterans Affairs medical centers. Treatment included radical prostatectomy (15 studies), hormonal therapy (5 studies), and radiotherapy (12 studies). Three studies included more than 1 treatment. Twenty-three (79%) studies, observed no significant difference in treatment outcomes between races. The remainder found worse outcomes among black men, including worse 5-year survival (HR range, 2.35–96.74) and higher rates of PSA failure (OR range, 1.15–1.69). Most studies investigating racial differences in prostate cancer treatment outcomes over the past 10 years found no difference between races after controlling for tumor and patient characteristics. Efforts to narrow the gap between black and white prostate cancer mortality should focus on ensuring that all patients receive optimal treatment and that all patients become informed about the use of screening for early cancer detection. Research should focus on interventions to reduce advanced presentation of the disease and disease-related mortality among black men.
Dispersal capacity and diet breadth modify the response of wild bees to habitat loss

Habitat loss poses a major threat to biodiversity, and species-specific extinction risks are inextricably linked to life-history characteristics. This relationship is still poorly documented for many functionally important taxa, and at larger continental scales. With data from five replicated field studies from three countries, we examined how species richness of wild bees varies with habitat patch size. We hypothesized that the form of this relationship is affected by body size, degree of host plant specialization and sociality. Across all species, we found a positive species–area slope (z = 0.19), and species traits modified this relationship. Large-bodied generalists had a lower z value than small generalists. Contrary to predictions, small specialists had similar or slightly lower z value compared with large specialists, and small generalists also tended to be more strongly affected by habitat loss as compared with small specialists. Social bees were negatively affected by habitat loss (z = 0.11) irrespective of body size. We conclude that habitat loss leads to clear shifts in the species composition of wild bee communities.
Synthesizing static vowels and dynamic sounds using a 3D vocal tract model

The KTH 3D Vocal Tract project aims at multimodal synthesis, producing both visual and acoustic output from an articulatory model. The intra-oral visual synthesis has been developped over the last couple of years combing measurements from Magnetic Resonance Imaging, Electromagnetic articulography and Electropalatography. This paper presents the first acoustic evaluation of the model. Nine static vowels have been synthesized with fairly good correspondence between the reference subject’s target and the model’s formants. The synthesis is based on the area function calculated directly from the vocal tract model, sampling the cross-sectional area at 23 semi-polar planes. The generation of the vocal tract walls, modeled on one reference subject, the algorithms for collision handling and cross-sectional contour extraction and the results of the acoustic synthesis are presented.
Co-Training for Cross-Lingual Sentiment Classification

The lack of Chinese sentiment corpora limits the research progress on Chinese sentiment classification. However, there are many freely available English sentiment corpora on the Web. This paper focuses on the problem of cross-lingual sentiment classification, which leverages an available English corpus for Chinese sentiment classification by using the English corpus as training data. Machine translation services are used for eliminating the language gap between the training set and test set, and English features and Chinese features are considered as two independent views of the classification problem. We propose a cotraining approach to making use of unlabeled Chinese data. Experimental results show the effectiveness of the proposed approach, which can outperform the standard inductive classifiers and the transductive classifiers.
Antiepileptic Drug Monotherapy: The Initial Approach in Epilepsy Management

Antiepileptic drug (AED) monotherapy is the preferred initial management approach in epilepsy care, since most patients may be successfully managed with the first or second monotherapy utilized. This article reviews the rationale and evidence supporting preferential use of monotherapy when possible and guidelines for initiating and successfully employing AED monotherapy. Suggested approaches to consider when patients fail monotherapy include substituting a new AED monotherapy, initiating chronic maintenance AED polytherapy, or pursuit of non-pharmacologic treatments such as epilepsy surgery or vagus nerve stimulation. Reducing AED polytherapy to monotherapy frequently reduces the burden of adverse effects and may also improve seizure control. AED monotherapy remains the optimal approach for managing most patients with epilepsy.
Non-Sexual Transmission of Trichomonas vaginalis in Adolescent Girls Attending School in Ndola, Zambia

Objectives To identify risk factors for trichomoniasis among young women in Ndola, Zambia. Method The study was a cross-sectional study among adolescent girls aged 13-16 years in Ndola, Zambia. Study participants were recruited from schools in selected administrative areas that represented the different socio-economic strata in town. Consenting participants were interviewed about their socio-demographic characteristics; sexual behaviour; and hygiene practices. Self-administered vaginal swabs were tested for Trichomonas vaginalis. HSV-2 antibodies were determined on serum to validate the self-reported sexual activity. Results A total of 460 girls participated in the study. The overall prevalence of trichomoniasis was 27.1%, 33.9% among girls who reported that they had ever had sex and 24.7% among virgins. In multivariate analysis the only statistically significant risk factor for trichomoniasis was inconsistent use of soap. For the virgins, none of the risk factors was significantly associated with trichomoniasis, but the association with use of soap (not always versus always) and type of toilet used (pit latrine/bush versus flush toilet) was of borderline significance. Conclusion We found a high prevalence of trichomoniasis in girls in Ndola who reported that they had never had sex. We postulate that the high prevalence of trichomoniasis in virgins in Ndola is due to non-sexual transmission of trichomoniasis via shared bathing water and inconsistent use of soap.
Sex Disparities in the Quality of Diabetes Care: Biological and Cultural Factors May Play a Different Role for Different Outcomes

OBJECTIVE To investigate the quality of type 2 diabetes care according to sex. RESEARCH DESIGN AND METHODS Clinical data collected during the year 2009 were extracted from electronic medical records; quality-of-care indicators were evaluated. Multilevel logistic regression analysis was applied to estimate the likelihood of women versus men to be monitored for selected parameters, to reach clinical outcomes, and to be treated with specific classes of drugs. The intercenter variability in the proportion of men and women achieving the targets was also investigated. RESULTS Overall, 415,294 patients from 236 diabetes outpatient centers were evaluated, of whom 188,125 (45.3%) were women and 227,169 (54.7%) were men. Women were 14% more likely than men to have HbA1c >9.0% in spite of insulin treatment (odds ratio 1.14 [95% CI 1.10–1.17]), 42% more likely to have LDL cholesterol (LDL-C) ≥130 mg/dL (1.42 [1.38–1.46]) in spite of lipid-lowering treatment, and 50% more likely to have BMI ≥30 kg/m2 (1.50 [1.50–1.54]). Women were less likely to be monitored for foot and eye complications. In 99% of centers, the percentage of men reaching the LDL-C target was higher than in women, the proportion of patients reaching the HbA1c target was in favor of men in 80% of the centers, and no differences emerged for blood pressure. CONCLUSIONS Women show a poorer quality of diabetes care than men. The attainment of the LDL-C target seems to be mainly related to pathophysiological factors, whereas patient and physician attitudes can play an important role in other process measures and outcomes.
A randomized controlled study of accelerated versus standard hepatitis B vaccination in HIV-positive patients.

BACKGROUND In human immunodeficiency virus (HIV)-infected patients, the immunogenicity of hepatitis B vaccines is impaired. The primary and secondary aims of our study were to investigate the effectiveness and compliance of 2 different vaccination regimen in an HIV-infected population. METHODS A noninferiority trial with a 10% response margin was designed. Included were patients ≥ 18 years old, with negative HBsAg/anti-HBc serology, and not previously vaccinated against hepatitis B. Patients were stratified according to CD4(+) cell count: <200, 200-500, >500. Participants received 10 μg HBvaxPRO intramuscularly according to a 0-1-3 week schedule or the standard 0-4-24 week schedule. Anti-HBs levels were measured at week 28, considered protective ≥ 10 IU/L. RESULTS Modified intention to treat analysis in 761 patients was performed. Overall response difference was 50%(standard arm) versus 38.7% (accelerated arm) =11.3% (95% confidence interval [CI], [4.3, 18.3]), close to the 10% response margin. In CD4(+) cell count group 200-500 cells/mm(3,) the response difference was 20.8% (95% CI [10.9, 30.7]). However, the response difference in CD4(+)cell count group >500 cells/mm(3) was -1.8% (95% CI [-13.4,+9.7]). Compliance was significantly superior with the accelerated schedule, 91.8% versus 82.7% (P ≤ .001). CONCLUSION In HIV-infected patients, compliance with an accelerated hepatitis B vaccination schedule is significantly better. The efficacy of an accelerated schedule proved to be non-inferior in CD4(+) cell count group >500 cells/mm(3). CLINICAL TRIALS REGISTRATION CT00230061.
Survey on geometric group theory

This article is a survey article on geometric group theory from the point of view of a non-expert who likes geometric group theory and uses it in his own research. The sections are: classical examples, basics about quasiisometry,properties and invariants of groups invariant under quasiisometry, rigidity, hyperbolic spaces and CAT(k)-spaces, the boundary of a hyperbolic space, hyperbolic groups, CAT(0)-groups, classifying spaces for proper actions, measurable group theory, some open problems.
Numerical Simulation of Mixed-Mode Progressive Delamination in Composite Materials

A new decohesion element with the capability of dealing with crack propagation under mixed-mode loading is proposed and demonstrated. The element is used at the interface between solid finite elements to model the initiation and non-self-similar growth of delaminations in composite materials. A single relative displacement-based damage parameter is applied in a softening law to track the damage state of the interface and to prevent the restoration of the cohesive state during unloading. The softening law is applied in the three-parameter Benzeggagh-Kenane mode interaction criterion to predict mixed-mode delamination propagation. To demonstrate the accuracy of the predictions, steady-state delamination growth is simulated for quasi-static loading of various single mode and mixed-mode delamination test specimens and the results are compared with experimental data.
Target Cell-Dependent Normalization of Transmitter Release at Neocortical Synapses

The efficacy and short-term modification of neocortical synaptic connections vary with the type of target neuron. We investigated presynaptic Ca2+ and release probability at single synaptic contacts between pairs of neurons in layer 2/3 of the rat neocortex. The amplitude of Ca2+ signals in boutons of pyramids contacting bitufted or multipolar interneurons or other pyramids was dependent on the target cell type. Optical quantal analysis at single synaptic contacts suggested that release probabilities are also target cell-specific. Both the Ca2+ signal and the release probability of different boutons of a pyramid contacting the same target cell varied little. We propose that the mechanisms that regulate the functional properties of boutons of a pyramid normalize the presynaptic Ca2+ influx and release probability for all those boutons that innervate the same target cell.
Extravasation injury in a paediatric population

Extravasation occurs when a drug is inadvertently administered outside of the vein. Depending on the substance involved, this may lead to tissue necrosis with significant long‐term morbidity. Children, particularly neonates, are particularly susceptible to extravasation with up to 70% of children in neonatal intensive care unit having some form of extravasation injury. These injuries are commonly referred to plastic surgeons for ongoing management.
UltraDense Networks: The New Wireless Frontier for Enabling 5G Access

The extreme traffic load that future wireless networks are expected to accommodate requires a rethinking of the system design. The initial estimations indicate that, unlike the evolutionary path of previous cellular generations that was based on spectral efficiency improvements, the most substantial amount of future system performance gains will be obtained by means of network infrastructure densification. By increasing the density of operator-deployed infrastructure elements along with incorporation of user-deployed access nodes (ANs) and mobile user devices acting as infrastructure prosumers, having one or more ANs exclusively dedicated to each user is expected to become feasible, introducing the ultradense network (UDN) paradigm. Although it is clear that UDNs are able to take advantage of the significant benefits provided by proximal transmissions and increased spatial reuse of system resources, large node density and irregular deployment introduce new challenges, mainly due to the interference environment characteristics that are vastly different from previous cellular deployments. This article attempts to provide insights on fundamental issues related to UDN deployment, such as determining the infrastructure density required to support the given traffic load requirements and the benefits of network-wise coordination, demonstrating the potential of UDNs for fifth-generation (5G) wireless networks.
Signal Transduction at the Domain Interface of Prokaryotic Pentameric Ligand-Gated Ion Channels

Pentameric ligand-gated ion channels are activated by the binding of agonists to a site distant from the ion conduction path. These membrane proteins consist of distinct ligand-binding and pore domains that interact via an extended interface. Here, we have investigated the role of residues at this interface for channel activation to define critical interactions that couple conformational changes between the two structural units. By characterizing point mutants of the prokaryotic channels ELIC and GLIC by electrophysiology, X-ray crystallography and isothermal titration calorimetry, we have identified conserved residues that, upon mutation, apparently prevent activation but not ligand binding. The positions of nonactivating mutants cluster at a loop within the extracellular domain connecting β-strands 6 and 7 and at a loop joining the pore-forming helix M2 with M3 where they contribute to a densely packed core of the protein. An ionic interaction in the extracellular domain between the turn connecting β-strands 1 and 2 and a residue at the end of β-strand 10 stabilizes a state of the receptor with high affinity for agonists, whereas contacts of this turn to a conserved proline residue in the M2-M3 loop appear to be less important than previously anticipated. When mapping residues with strong functional phenotype on different channel structures, mutual distances are closer in conducting than in nonconducting conformations, consistent with a potential role of contacts in the stabilization of the open state. Our study has revealed a pattern of interactions that are crucial for the relay of conformational changes from the extracellular domain to the pore region of prokaryotic pentameric ligand-gated ion channels. Due to the strong conservation of the interface, these results are relevant for the entire family.