Miracle-dz/UniFAR-FTUs huggingface dataset:
Allergen-specific immunoglobulin E in the skin and nasal mucosa of symptomatic and asymptomatic children sensitized to aeroallergens.

BACKGROUND Asymptomatic sensitization is confirmed by a positive response to skin prick tests (SPT) with allergens in the absence of clinical symptoms of allergy. This is a common observation for which no convincing explanation has been provided.We investigated the extent to which the presence of specific immunoglobulin (Ig) E in the nasal mucosa accounts for the occurrence of symptoms. METHODS The study population comprised 192 patients with positive SPT results to aeroallergens: 111 had symptomatic allergic rhinitis and 81 were totally asymptomatic. All patients underwent measurement of nasal specific IgE using a validated technique (nasal IgE test). RESULTS A family history of atopy was significantly more frequent in symptomatic patients than in asymptomatic patients (P<.0001). The result of the nasal IgE test was positive in 77.5% of symptomatic patients and in only 13.6% of asymptomatic patients (P<.0001). With regard to individual allergens, there was no association between clinical symptoms and a positive response to SPT, although there was a strong association between symptoms and individual allergens tested for nasal IgE. In symptomatic patients, there was only a slight correlation between SPT and nasal tests with allergens. CONCLUSION These findings suggest that the absence of specific IgE in the nasal mucosa may explain the absence of symptoms in most sensitized subjects and pave the way for further study of the behavior of mucosal IgE in asymptomatic and symptomatic subjects.
The effects of particle charge on the performance of a filtering facepiece.

This study quantitatively determined the effect of electrostatic charge on the performance of an electret filtering facepiece. Monodisperse challenge corn oil aerosols with uniform charges were generated using a modified vibrating orifice monodisperse aerosol generator. The aerosol size distributions and concentrations upstream and downstream of an electret filter were measured using an aerodynamic particle sizer, an Aerosizer, and a scanning mobility particle sizer. The aerosol charge was measured by using an aerosol electrometer. The tested electret filter had a packing density of about 0.08, fiber size of 3 microns, and thickness of 0.75 mm. As expected, the primary filtration mechanisms for the micrometer-sized particles are interception and impaction, especially at high face velocities, while electrostatic attraction and diffusion are the filtration mechanisms for submicrometer-sized aerosol particles. The fiber charge density was estimated to be 1.35 x 10(-5) coulomb per square meter. After treatment with isopropanol, most of fiber charges were removed, causing the 0.3-micron aerosol penetration to increase from 36 to 68%. The air resistance of the filter increased slightly after immersion in the isopropanol, probably due to the coating of impurities in isopropanol. The aerosol penetration decreased with increasing aerosol charge. The most penetrating aerosol size became larger as the aerosol charge increased, e.g., from 0.32 to 1.3 microns when the aerosol charge increased from 0 to 500 elementary charges.
Global Map of Martian Fluvial Systems: Age and Total Eroded Volume Estimations

The study of the fluvial systems present on the Martian surface is a key in the investigation of the paleoclimate of the planet: Various indications suggest that these features could have formed under climatic conditions very different from the present one. For this reason, it seems necessary to update the previous maps of Martian valleys using newer mosaics and data at higher resolution. In this work we present a detailed global map of Martian valleys classified according to their morphology. Our data set includes all the valleys longer than 20 km mapped within the QGIS (Quantum Geographic Information System) software. With respect to previous global maps, the coupling of topographic information with data of higher image quality allowed us a better mapping of these structures at a fine scale: New small valleys and more tributaries for several systems have been observed. We mapped valleys of various typologies for a global total length of 773,559 km. The mapped valley networks cover the 69% of this total length. Moreover, a rough estimation of the valleys' age spatial distribution was performed. We found that the 94% of the mapped valleys have a maximum age consistent with an origin in the Noachian period; the 4% have a Hesperian maximum age, while the remaining 2% have a maximum age consistent with an origin in the Amazonian period. Finally, we also estimated the total eroded volume of the mapped valley networks finding a value in the order of 3 × 1014 m3 in good agreement with what found in literature.
Clinical and Exploratory Biomarker Study of Dacomitinib in Patients with Recurrent and / or Metastatic Squamous Cell Carcinoma of Head and Neck

Purpose: The goals of this study were to investigate the clinical activity, safety, and biomarkers of dacomitinib, an irreversible tyrosine kinase inhibitor of EGFR, HER2, and HER4, in recurrent and/or metastatic squamous cell carcinoma of the head and neck (R/M-SCCHN). ExperimentalDesign:Patientswere eligible if thediseaseswere not amenable to curative treatment and had progressed on platinum-based chemotherapy, and were treated with dacomitinib 45mg/day. The primary endpoint was objective response rate byRECISTv1.1. Exploratory analysis included the characterization of somatic mutation, gene copy number, gene expression, p16 expression by IHC, and investigation of their relationship with clinical outcomes. Results: Forty-eight patients were evaluable for efficacy and toxicity. Ten patients (20.8%) had partial responses and 31 patients (65%) had stable diseases. The median progressionfree survival (PFS) and overall survival (OS) were 3.9 months [95% confidence interval (CI), 2.9–5.0] and 6.6 months (95% CI, 5.4–10.3). Adverse events were mostly grade 1–2. Mutations in the PI3K pathway (PIK3CA, PTEN) and high expression of inflammatory cytokines (IL6, IL8, IL1A, IL1B, IL4, and TNF) were significantly associated with shorter PFS (2.9 vs. 4.9 months without mutations, P 1⁄4 0.013; 2.8 vs. 9.9 months with low expression, P 1⁄4 0.004). Those harboring PI3K pathway mutations or high inflammatory cytokine expression had shorter median OS (6.1 vs. 12.5 months lacking PI3K pathway mutations and with low inflammatory cytokine expression, P 1⁄4 0.005). Conclusions: Dacomitinib demonstrated clinical efficacy with manageable toxicity in platinum-failed R/M-SCCHN patients. Screening of PI3K pathway mutation and inflammatory cytokine expression may help identify which R/M-SCCHN patients are likely to gain benefit from dacomitinib. Clin Cancer Res; 21(3); 544–52. 2014 AACR.
Central Tetrahydrobiopterin Concentration in Neurodevelopmental Disorders

Tetrahydrobiopterin (BH4) is a naturally occurring cofactor essential for critical metabolic pathways. Studies suggest that BH4 supplementation may ameliorate autism symptoms; the biological mechanism for such an effect is unknown. To help understand the relation between central BH4 concentration and systemic metabolism and to develop a biomarker of central BH4 concentration, the relationship between cerebrospinal fluid BH4 concentration and serum amino acids was studied. BH4 concentration was found to be distributed in two groups, a lower and higher BH4 concentration group. Two serum amino acids, citrulline and methionine, differentiated these groups, and the ratio of serum citrulline-to-methionine was found to correlate with the cerebrospinal fluid BH4 concentration (r = −0.67, p < 0.05). Both citrulline and methionine are substrates in inflammation and oxidative stress pathways – two pathways that utilize BH4 and are abnormally activated in autism. These data suggests that central BH4 concentration may be related to systemic inflammation and oxidative stress pathways.
Characterization of the T-cell subpopulations in the granulation tissues of chronic suppurative otitis media

The present study aimed to investigate the potential involvement of specific T-cell subpopulations in granulation tissue formation in chronic suppurative otitis media (CSOM). Fifteen patients with CSOM were enrolled in this study. Granulation tissues were obtained from the middle ear cavity. Hematoxylin and eosin staining was performed for histopathological observation, and different T-cell subpopulations were characterized by immunohistochemistry. No evident association was identified between granulation tissue formation and disease course. The number of cluster of differentiation 8+ (CD8+) T cells, forkhead box P3+ (FOXP3+) regulatory T (Treg) cells and OX40+ T cells were significantly higher in granulation tissues from patients with ear discharge within the last 6 months compared to those without (P<0.05). Fresh granulation tissues had more CD8+ T cells and FOXP3+ Treg cells compared to the mature granulation tissues (P<0.05). There was a differential abundance of specific T-cell subpopulations in the granulation tissues in CSOM with different disease courses or with ear discharge, suggesting that T cell-mediated cellular immunity is involved in lesion formation of CSOM.
β‐adrenergic and fibroblast growth factor receptors induce neuronal process outgrowth through different mechanisms

The mechanisms that initiate and direct neuronal process formation remain poorly understood. We have recently described a neuronal progenitor cell line, AS583‐8.E4. 22 (AS583‐8) which undergoes neurite formation in response to β2‐adrenergic and basic fibroblast growth factor (bFGF) receptor activation [Kwon, J.H et al. (1996) Eur. J. Neurosci. , 8, 2042–2055]. In the present study, a comparison of these responses revealed that isoproterenol (ISO), a β‐adrenergic receptor agonist, induces multiple, highly branched processes within 30 min while bFGF induces fewer, unbranched processes within 24 h. In contrast to the ISO response, bFGF induces mitogen‐activated protein kinase activation and c‐fos expression in the cell line and results in neurite outgrowth that is dependent on new mRNA and protein synthesis. Two‐dimensional isoelectric focusing‐sodium dodecyl sulphate–polyacrylamide gel electrophoresis of cytoskeletal preparations revealed different patterns following ISO vs. bFGF exposure suggesting selective changes in protein expression and/or post‐translational modifications. Immunoblot analysis of these preparations for β‐tubulin, tyrosinated α‐tubulin and acetylated α‐tubulin also revealed different patterns following each type of treatment. Follow‐up confocal microscopy revealed that following ISO, the distribution of tyrosinated tubulin extends to the distal ends of processes whereas acetylated α‐tubulin is diminished within distal ends. This pattern has been reported to be associated with enhanced microtubule dynamics, a state in which process outgrowth is facilitated. In contrast, following bFGF treatment the distributions of tyrosinated and acetylated α‐tubulin were identical, a state associated with a diminution of microtubule dynamics. These results, a different time course of neurite formation, dependency on new gene expression and differential expression and cellular distribution of major cytoskeleton proteins suggest that neurite outgrowth induced by ISO vs. bFGF is mediated by two distinct intracellular effector mechanisms in AS583‐8 cells. In addition, studies, using the differential distribution of post‐translational modified α‐tubulins in neurites of primary neuronal cultures as marker for the two distinct processes of neurite formation suggest, that similar mechanisms are present in vivo. Therefore, the AS583‐8 cell line provides a useful model to study these signalling mechanisms that couple neurotransmitter and growth factor receptor activation to the cytoskeletal changes that mediate neurite formation.
Spatially adaptive semi‐supervised learning with Gaussian processes for hyperspectral data analysis

This paper presents a semi‐supervised learning algorithm called Gaussian process expectation‐maximization (GP‐EM), for classification of landcover based on hyperspectral data analysis. Model parameters for each land cover class are first estimated by a supervised algorithm using Gaussian process regressions to find spatially adaptive parameters, and the estimated parameters are then used to initialize a spatially adaptive mixture‐of‐Gaussians model. The mixture model is updated by expectation‐maximization iterations using the unlabeled data, and the spatially adaptive parameters for unlabeled instances are obtained by Gaussian process regressions with soft assignments. Spatially and temporally distant hyperspectral images taken from the Botswana area by the NASA EO‐1 satellite are used for experiments. Detailed empirical evaluations show that the proposed framework performs significantly better than all previously reported results by a wide variety of alternative approaches and algorithms on the same datasets. © 2011 Wiley Periodicals, Inc. Statistical Analysis and Data Mining 4: 358–371, 2011
Social deprivation and breast cancer.

BACKGROUND This cross-sectional study was carried out in a population-based setting in Worcestershire to investigate the relationship between social deprivation and other potential prognostic factors. METHODS A total of 762 female patients diagnosed with primary breast cancer between 1 January 1998 and 31 December 1999 were selected. Breast cancer included all new cases of primary invasive breast cancer and ductal carcinoma in situ. A total of 753 patients were matched by their postcode of residence to enumeration district Townsend score and then divided into three groups based on Townsend quintiles (affluent n = 478; middle n = 157; deprived n = 118). Main outcome measures were relationships between social deprivation and tumour type, stage at presentation, oestrogen receptor status, tumour grade and treatment type. RESULTS Compared with the most deprived women, affluent women were less likely to present with invasive ductal tumours (70.8 per cent versus 85.9 per cent, chi2 linear trend = 6.757, p = 0.009), tumours of higher grade (36.0 per cent versus 44.7 per cent, chi2 linear trend = 4.201, p = 0.040), and oestrogen receptor negative tumours (22.4 per cent versus 33.3 per cent, chi2 linear trend = 3.501, p = 0.061). There was no significant difference in stage or tumour size at presentation between deprivation groups. More deprived women with invasive tumours of less than 20 mm maximum diameter were significantly more likely to have mastectomies than affluent women (47.8 per cent versus 32.1 per cent, chi2 linear trend = 4.091, p = 0.043). CONCLUSIONS This study suggests that level of social deprivation is associated with tumour type, grade and oestrogen receptor status. There was also a suggestion that increased level of deprivation was associated with increased risk of potentially unnecessary mastectomies.
T3 Glottic Cancer: Oncologic Results and Prognostic Factors

OBJECTIVES: To analyze oncologic results, prognostic factors, and consideration of transglottic tumors as a separate entity in 73 patients with T3 glottic carcinoma treated by surgery ± radiation therapy at La Paz University Hospital from 1984 to 1994. METHODS: Sixty-four patients underwent a total laryngectomy; neck dissection was performed in 50 patients; 29 patients received postoperative radiotherapy. RESULTS: The 5-year overall survival, cause-specific survival, and relapse-free survival rates were 58.1%, 66.8%, and 63.7%. Univariate analysis revealed prognostic significance for age, dyspnea, initial tracheostomy, and pathologic lymph node status. No difference was found when comparing survival and relapse rates between transglottic and glottic tumors. CONCLUSION: Surgery provides acceptable rates of cancer control and survival for patients with T3 glottic carcinoma. Older patients, patients with positive neck nodes, and those presenting with dyspnea have worse prognosis. The term transglottic is merely descriptive and has little impact on prognosis.
Identification of new RNA modifying enzymes by iterative genome search using known modifying enzymes as probes.

The complete nucleotide sequences of the Haemophilus influenzae and Mycoplasma genitalium genomes and the partially sequenced Escherichia coli chromosome were analyzed to identify open reading frames (ORFs) likely to encode RNA modifying enzymes. The protein sequences of known RNA modifying enzymes from three families--m5U methyltransferases, psi synthases and 2'-O methyltransferases--were used as probes to search sequence databases for homologs. ORFs identified as homologous to the initial probes were retrieved and used as new probes against the databases in an iterative manner until no more homologous ORFs could be identified. Using this approach, we have identified two new m5U methyltransferases, seven new psi synthases and four new 2'-O methyltransferases in E. coli. Many of the ORFs found in E.coli have direct genetic counterparts (orthologs) in one or both of H.influenzae and M.genitalium. Since there is a near-complete knowledge of RNA modifications in E.coli, functional activities of the proteins encoded by the identified ORFs were proposed based on the level of conservation of the ORFs and the modified nucleotides.
Peripheral CD4+ T‐cell differentiation regulated by networks of cytokines and transcription factors

Summary: CD4+ T cells, also known as T‐helper (Th) cells, play an important role in orchestrating adaptive immune responses to various infectious agents. They are also involved in the induction of autoimmune and allergic diseases. Upon T‐cell receptor (TCR)‐mediated cell activation, naive CD4+ T cells can differentiate into at least four major lineages, Th1, Th2, Th17, and iTreg cells, that participate in different types of immune responses. Networks of cytokines and transcription factors are critical for determining CD4+ T‐cell fates and effector cytokine production. Here, we review collaboration and cross‐regulation between various essential cytokines in the activation/induction of key transcription factors during the process of Th cell differentiation towards these distinct lineages. We also discuss the interactions of key transcription factors at both genetic and protein levels and the function of the resulting network(s) in regulating the expression of effector cytokines.
Marginal Deformations as Lower Dimensional D-Brane Solutions in Open String Field Theory

By direct calculation we showed that a finite analytic solution for marginal deformation of open string field theory, by a matter primary operator with singular OPE, can be obtained to all orders in the deformation parameter. In particular, we obtained solutions that describe lower dimensional D-branes and our results agree with the results obtained when the same problem is treated in the world-sheet conformal field theory language.
Trypanosoma vivax: characterization of the spliced-leader gene of a Brazilian stock and species-specific detection by PCR amplification of an intergenic spacer sequence.

The sequence of the spliced-leader gene repeat of a Brazilian Trypanosoma vivax stock from cattle showed high similarity to sequences of West African T. vivax in both intron and intergenic sequences. This is the first evidence based on DNA sequences of close-relatedness between Brazilian and West African T. vivax stocks. A T. vivax-specific diagnostic PCR assay based on spliced-leader gene intergenic sequences was able to amplify DNA from T. vivax stocks from South America (Brazil, Bolivia, and Colombia) and West Africa. Species-specificity of this method was confirmed by results obtained by testing 15 other trypanosomes, including other species and subspecies that can also infect cattle. The PCR assay developed presented high sensitivity, detecting the DNA content of only one parasite and also revealing T. vivax infection in asymptomatic animals without detectable parasitemia by microhematocrit or in Giemsa-stained blood smears. Use of crude preparations from field-blood samples collected on both filter paper and glass slides as DNA template suggested that this method could be useful for the diagnosis of T. vivax in large epidemiological studies.
Anticipatory changes in human motoneuron discharge patterns during motor preparation

The influence of motor preparation on human motoneuron activity was studied by combining single motor unit recording techniques with reaction‐time (RT) methods. The tonic activity of wrist extensor motor units associated with voluntary isometric contractions was analysed during preparation for a ballistic wrist extensor muscle contraction, using a time preparation procedure. Two durations of the preparatory period elapsing between the warning signal and the response signal were used in separate blocks of trials: a short preparatory period (1 s) allowing optimum time preparation, and a longer, non‐optimum one (3 s). Changes in motoneuron tonic discharge patterns not associated with any changes in the force output were observed during the preparatory period, which suggests that these changes were subtle enough to prevent any changes in muscle contraction from occurring before the forthcoming movement. The changes observed were a lengthening of the mean interspike interval (ISI) and a decrease in the ISI variability. These data confirm that inhibitory mechanisms are activated during motor preparation and suggest that spinal inhibitory mechanisms are involved in the preparatory processes. The mechanisms possibly involved, such as presynaptic inhibition, dysfacilitation processes or AHP conductance changes, are discussed. The fact that the preparation‐induced effects on motoneuron activity were particularly prominent during the last part of the 3 s preparatory period suggests that they were probably related to the neural processes underlying temporal estimation. The anticipatory changes in motoneuron activity observed here during preparation for action provide evidence that central influences act on spinal motoneurons well before it is time to act.
Future Climate Scenarios for a Coastal Productive Planktonic Food Web Resulting in Microplankton Phenology Changes and Decreased Trophic Transfer Efficiency

We studied the effects of future climate change scenarios on plankton communities of a Norwegian fjord using a mesocosm approach. After the spring bloom, natural plankton were enclosed and treated in duplicates with inorganic nutrients elevated to pre-bloom conditions (N, P, Si; eutrophication), lowering of 0.4 pH units (acidification), and rising 3°C temperature (warming). All nutrient-amended treatments resulted in phytoplankton blooms dominated by chain-forming diatoms, and reached 13–16 μg chlorophyll (chl) a l−1. In the control mesocosms, chl a remained below 1 μg l−1. Acidification and warming had contrasting effects on the phenology and bloom-dynamics of autotrophic and heterotrophic microplankton. Bacillariophyceae, prymnesiophyceae, cryptophyta, and Protoperidinium spp. peaked earlier at higher temperature and lower pH. Chlorophyta showed lower peak abundances with acidification, but higher peak abundances with increased temperature. The peak magnitude of autotrophic dinophyceae and ciliates was, on the other hand, lowered with combined warming and acidification. Over time, the plankton communities shifted from autotrophic phytoplankton blooms to a more heterotrophic system in all mesocosms, especially in the control unaltered mesocosms. The development of mass balance and proportion of heterotrophic/autotrophic biomass predict a shift towards a more autotrophic community and less-efficient food web transfer when temperature, nutrients and acidification are combined in a future climate-change scenario. We suggest that this result may be related to a lower food quality for microzooplankton under acidification and warming scenarios and to an increase of catabolic processes compared to anabolic ones at higher temperatures.