Miracle-dz/UniFAR-FTUs huggingface dataset:
The methylation status and protein expression of CDH1, p16(INK4A), and fragile histidine triad in nonsmall cell lung carcinoma: epigenetic silencing, clinical features, and prognostic significance.

BACKGROUND Aberrant methylation of the promoter CpG island (methylation) is known as a major inactivation mechanism of tumor suppressor and tumor-related genes. In this study, the authors studied the presence of methylation by investigated the inactivation of genes and prognostic factors in patients with nonsmall cell lung carcinoma (NSCLC) by examining resection samples for the presence of methylation. METHODS Samples were obtained from 224 patients who underwent pulmonary resection for NSCLC. The authors used those samples to study methylation status with methylation-specific polymerase chain reaction analysis and to study protein expression with immunohistochemistry for 3 different genes: CDH1, p16INK4A, and fragile histidine triad (FHIT). RESULTS The frequency of methylation in NSCLC was determined as 58.0% for CDH1, 21.9% for p16INK4A, and 52.2% for FHIT. The methylation of p16INK4A was observed significantly in heavy smokers compared either with nonsmokers or with patients who had smoked for <20 pack-years (P = .0420); it also was more significant in squamous cell carcinomas than in adenocarcinomas (P = .0343). FHIT methylation also was correlated significantly with lymph node metastasis (P = .0361). Patients who had tumors with both methylation and reduced expression of CDH1 had a significantly poorer prognosis compared with patients who had tumors both without methylation and with positive expression of CDH1 (P = .0259 and P = .0369, respectively; multivariate Cox analysis). For p16INK4A methylation, 63.3% of tumors showed reduced expression; whereas, in p16INK4A-unmethylated tumors, 33.7% showed reduced expression (P = .0002). However, for CDH1 and FHIT, no significant correlation was found for either methylation or reduced expression. CONCLUSIONS Although protein expression was not inactivated by methylation alone, p16 expression was inactivated strongly by methylation. In addition, the analysis of methylation and expression of CDH1 played a clinically important role in treatment strategies for patients with NSCLC.
Overactive bladder in Parkinson's disease: alteration of brainstem raphe detected by transcranial sonography

Urinary dysfunction is very common in idiopathic Parkinson's disease (PD) and manifests primarily with symptoms of overactive bladder (OAB). Affection of central serotonergic systems has been suggested to play a role in OAB. The objective of this study was to evaluate whether in PD patients with OAB symptoms a specific alteration of the brainstem raphe (BR), which contains serotonergic neurons, can be detected with transcranial sonography (TCS). Of 116 PD patients enrolled, 19 had PD‐related OAB symptoms (OAB+) unlike remaining 97 patients (OAB−). Patients were examined by a sonographer blinded to the clinical data. Reduced echogenicity of BR was found in 12 (63%) OAB+ patients but only in 18 (19%) of 93 assessable OAB− patients (Mann–Whitney U‐test, P < 0.001). In OAB+ patients, lower raphe echogenicity score was associated with longer duration of OAB symptoms (anova, P = 0.033). Other TCS findings such as echogenicity of substantia nigra, thalami, lenticular and caudate nuclei, and widths of third and lateral ventricles did not differ between OAB+ and OAB− patients. TCS findings suggest a pathogenetic role of BR in OAB related to PD. Alterations may reflect disturbance of its central serotonergic system.
Edentulism and Fruit and Vegetable Intake in Low-income Adults

Poor dental status negatively relates to dietary intakes. However, this issue has not been researched among the most vulnerable groups in society. We aimed to investigate, in a national low-income sample, the association between dental status and fruit and vegetable consumption. We analyzed data on adults aged 50 years and older from the Low Income Diet and Nutrition Survey, a representative sample of deprived UK households. Considerable numbers reported difficulty eating specific foods, with significantly worse experience among edentate than dentate people. The mean daily fruits and vegetables consumption was low (256.5 g for dentate, 207.1 g for edentate). After adjustment for socio-demographic and behavioral variables, edentate individuals consumed 50.7 g (27.0, 74.3) fewer fruits/vegetables per day than the dentate. Over and above the effects of material deprivation on nutrient intake, edentulism negatively relates to eating fruits and vegetables and achieving a healthy diet in materially deprived older adults.
Expression of Proteasome Subunit &bgr;5t in Thymic Epithelial Tumors

Recently, a proteasome &bgr; subunit expressed exclusively in thymic cortical epithelial cells was discovered in mice and humans. This subunit, designated &bgr;5t, is a component of the thymoproteasome, a specialized type of proteasome implicated in thymic positive selection. To investigate whether &bgr;5t could serve as a marker for the differential diagnosis of thymic epithelial tumors, we performed immunohistochemical analysis using anti-&bgr;5t antibody in 54 cases of thymic epithelial tumors comprising 41 cases of thymomas and 13 cases of thymic carcinomas. &bgr;5t was detected in the neoplastic epithelial cells of thymomas. Among the subtypes of thymoma, expression of &bgr;5t was observed in most cases of type B thymoma (20 of 21) but not in type A thymomas (0 of 3). In type AB thymomas, &bgr;5t expression was variable (6 of 17). Type B3 thymomas (4 cases) were positive for &bgr;5t but negative for CD5, c-kit, and glucose transporter 1 (GLUT-1), which are known as diagnostic markers for thymic carcinomas. In contrast, thymic carcinomas were negative for &bgr;5t (0 of 13) but expressed at least one and usually all of CD5, c-kit, and GLUT-1. Thus, &bgr;5t and CD5/c-kit/GLUT-1 were differentially expressed in type B3 thymoma and thymic carcinoma. We tested &bgr;5t expression in 39 cases of tumors arising from other organs, which showed the specific expression of &bgr;5t in thymic epithelial tumors. This study demonstrates that &bgr;5t is expressed in most type B and in some type AB thymomas and is a marker useful in differentiating type B3 thymomas from thymic carcinomas when used in combination with other diagnostic markers.
Use of fidelity assessments to train clinicians in the CBT for PTSD program for clients with serious mental illness.

OBJECTIVE One barrier to disseminating evidence-based practices for persons with serious mental illness is the difficulty of training frontline clinicians. This study evaluated whether frontline clinicians could be trained to implement an empirically supported cognitive-behavioral therapy (CBT) program for posttraumatic stress disorder (PTSD) among persons with serious mental illness when a standardized fidelity measure was used to provide clinicians with feedback on practice cases. METHODS Twenty-five clinicians (23 master's level) at five agency sites were trained in the CBT for PTSD program and delivered it to 35 clients (practice cases) over six months. Supervisors or consultants used the fidelity measure to rate audio-recorded sessions and provide feedback. A criterion of competence was established to designate program certification. Clients' PTSD and depression symptoms were monitored. Clinicians' satisfaction with training was also assessed. RESULTS Two clinicians dropped out, and 21 of the remaining 23 clinicians (91%) achieved program certification with their first case; the remaining two (9%) achieved it with their second case. Clients' symptoms, measured by the PTSD Checklist and the Beck Depression Inventory, decreased significantly during treatment, suggesting clinical benefits of the program. Clinicians reported that group supervision was very helpful and written feedback was helpful or very helpful. All rated the training as excellent. CONCLUSIONS Results support the feasibility of training frontline clinicians in the CBT for PTSD program by using regular feedback based on the fidelity measure and indicate that most clinicians can achieve competence in the model with a single practice case.
Divergent Host Responses during Primary Simian Immunodeficiency Virus SIVsm Infection of Natural Sooty Mangabey and Nonnatural Rhesus Macaque Hosts

ABSTRACT To understand how natural sooty mangabey hosts avoid AIDS despite high levels of simian immunodeficiency virus (SIV) SIVsm replication, we inoculated mangabeys and nonnatural rhesus macaque hosts with an identical inoculum of uncloned SIVsm. The unpassaged virus established infection with high-level viral replication in both macaques and mangabeys. A species-specific, divergent immune response to SIV was evident from the first days of infection and maintained in the chronic phase, with macaques showing immediate and persistent T-cell proliferation, whereas mangabeys displayed little T-cell proliferation, suggesting subdued cellular immune responses to SIV. Importantly, only macaques developed CD4+-T-cell depletion and AIDS, thus indicating that in mangabeys limited immune activation is a key mechanism to avoid immunodeficiency despite high levels of SIVsm replication. These studies demonstrate that it is the host response to infection, rather than properties inherent to the virus itself, that causes immunodeficiency in SIV-infected nonhuman primates.
The Europeanisation of development policy : Acceptance, accommodation and resistance of the Czech Republic

In the first step, a framework for Europeanisation, defined as adoption of EU rules by the member states, is adjusted to the field of development policy. As the acquis in this field of shared competence between the Commission and the member states consists almost entirely of soft law, social learning and, to a lesser extent, global incentives and lessondrawing are identified as the dominant models of Europeanisation. Thereafter, the attitudes of member states to the EU development policy, characterised by the normative power of the Commission and the strong influence of foreign policy, are analysed, and the informal rules of policy-making that are not enshrined in EU legislation are complemented by this section. Finally, the Europeanisation framework is applied to the Czech Republic. The shallow Europeanisation of the Czech development cooperation is explained by the differences of values and norms shared at the EU and the national level, and the difference in the perception of the most efficient level in promoting the long-term national interests. An analysis of the Czech discourse, the institutionalisation and implementation of the norms on aid quality and quantity, the “3 Cs” agenda and the focus on Africa shows that resistance and accommodation are more frequent modes of dealing with EU rules than their acceptance. The paper concludes with a scrutiny of the EU’s failure to promote its norms in development policy among the member states.
Diagnostic accuracy of neutrophil CD64 expression in neonatal infection: A meta-analysis

Objective *Liu-Qun Jia and Yong-Chun Shen contributed equally to this work and are joint first authors. The aim of the present study was to establish the predictive values of neutrophil CD64 expression in diagnosing neonatal infection. Methods A comprehensive search of the PubMed and Embase® literature databases identified outcome data from published studies estimating the diagnostic accuracy of neutrophil CD64 expression for neonatal infection. Summary estimates for sensitivity, specificity, diagnostic odds ratios (DOR) and the area under the summary receiver operating characteristic curve (AUC) were calculated using a bivariate random-effects approach. Results Twelve studies including 1915 neonates were analysed. Summary estimates (95% confidence intervals) for CD64 expression in the diagnosis of neonatal infection were: sensitivity, 0.78 (0.75, 0.81); specificity, 0.81 (0.78, 0.83); DOR, 21.27 (11.71, 38.65); positive-likelihood ratio, 4.53 (3.22, 6.36); negative-likelihood ratio, 0.23 (0.14, 0.37); AUC, 0.89. Conclusions Neutrophil CD64 expression can be used as an additional test in the diagnosis of neonatal infection. Results of a CD64 assay should not be used alone to diagnose such infections, but should be interpreted in combination with other test results and clinical findings.
Evolution of adverse changes in stored RBCs

Recent studies have underscored questions about the balance of risk and benefit of RBC transfusion. A better understanding of the nature and timing of molecular and functional changes in stored RBCs may provide strategies to improve the balance of benefit and risk of RBC transfusion. We analyzed changes occurring during RBC storage focusing on RBC deformability, RBC-dependent vasoregulatory function, and S-nitrosohemoglobin (SNO-Hb), through which hemoglobin (Hb) O2 desaturation is coupled to regional increases in blood flow in vivo (hypoxic vasodilation). Five hundred ml of blood from each of 15 healthy volunteers was processed into leukofiltered, additive solution 3-exposed RBCs and stored at 1–6°C according to AABB standards. Blood was subjected to 26 assays at 0, 3, 8, 24 and 96 h, and at 1, 2, 3, 4, and 6 weeks. RBC SNO-Hb decreased rapidly (1.2 × 10−4 at 3 h vs. 6.5 × 10−4 (fresh) mol S-nitrosothiol (SNO)/mol Hb tetramer (P = 0.032, mercuric-displaced photolysis-chemiluminescence assay), and remained low over the 42-day period. The decline was corroborated by using the carbon monoxide-saturated copper-cysteine assay [3.0 × 10−5 at 3 h vs. 9.0 × 10−5 (fresh) mol SNO/mol Hb]. In parallel, vasodilation by stored RBCs was significantly depressed. RBC deformability assayed at a physiological shear stress decreased gradually over the 42-day period (P < 0.001). Time courses vary for several storage-induced defects that might account for recent observations linking blood transfusion with adverse outcomes. Of clinical concern is that SNO levels, and their physiological correlate, RBC-dependent vasodilation, become depressed soon after collection, suggesting that even “fresh” blood may have developed adverse biological characteristics.
Educational status and young Dutch gay men's beliefs about using condoms

The higher levels of HIV risk behaviour that have been found in young gay men with lower socio-economic status (SES, among others defined as educational achievement) may result from unequal effects of safer sex interventions. We conducted semi-structured focus group interviews with an educationally diverse sample of 113 young gay men living in The Netherlands. The objective was to bring to light men's salient ('accessible') beliefs about using condoms since information about beliefs might facilitate the formulation of 'personally relevant' safer sex messages that enhance in-depth message processing. We found several educational differences in the areas of knowledge about HIV preventive behaviour, cognitive schemas about the factors involved in HIV transmission, perceived pros and cons of using condoms, perceived social pressure to use condoms and feelings of being in control of protective action. This may suggest that, for intervention efforts to be effective in motivating the diversity of young gay men to engage in safer sex, interventions should convey tailor-made messages that match recipients' educational degree. Several implications for the formulation of such messages are discussed.
Interrupted arterial occlusion reduces ischemic damage in a focal cerebral ischemia model of rats.

It is generally thought by neurosurgeons that when temporary clipping of a major cerebral vessel is necessary during aneurysm surgery, repeated short periods of cerebral ischemia are safer for the brain than a single long episode. This study was performed to investigate whether repetitive short episodes of cerebral ischemia would alter the resulting brain injury as compared with a single long period of ischemia in a rat model for focal cerebral ischemia. Middle cerebral artery occlusion and reperfusion were performed by the intraluminal thread technique. The experimental design consisted of a single 90-minute occlusion period in the continuous ischemia group versus three 30-minute occlusion periods with 15-minute reperfusion periods in the repetitive group. Local cerebral blood flow was measured by the hydrogen clearance technique. During the ischemic period, local cerebral blood flow values significantly decreased in both the continuous and the repetitive groups. Cerebral blood flow restoration was demonstrated after each episode of reperfusion in both groups. The neurological status scores 2 hours after surgery in the rats subjected to repetitive insults were significantly better compared with those in the rats of the continuous ischemia group. However, the scores on Days 1, 3, and 7 did not show a significantly better difference. The animals were killed 7 days after the induction of ischemia for the measurement of the infarction area under the microscope. The total area of infarction was significantly reduced (4.05 +/- 4.56 versus 47.2 +/- 37.3 mm2, P < 0.001) by interruption of the ischemic time period. (ABSTRACT TRUNCATED AT 250 WORDS)
The association between physical activity, physical fitness and development of metabolic disorders.

BACKGROUND Cardiovascular (CVD) risk factors have been shown to cluster in some children. This has been shown in children from the age of nine years, but recently we found no clustering in six-year old children. It is uncertain when clustering develops and which parameters are related to the development of clustered CVD risk. METHODS A longitudinal study including 484 children aged six years. Three years later, 434 children participated in a follow-up. The main outcome was clustering of five CVD risk factors: homeostasis assessment insulin resistance (HOMA), total cholesterol:HDL ratio, triglyceride (TG), systolic blood pressure and sum of four skinfolds. Independent variables were physical activity and cardiorespiratory fitness. RESULTS CVD risk factors were independently distributed in the six-year-olds, and there was no association between composite risk factor score and physical fitness or activity even if there were obese and unfit children in the population. Clustering of CVD risk factors was found at the age of nine years, and the observed number with three or more CVD risk factors was 3.33 (95% CI: 1.41-7.87) times higher than expected if risk factors had been independently distributed. At the age of nine years, the lowest quartile of fitness had 34.9 (95% CI: 8.0-152.5) times higher risk of having clustered risk than the most fit quartile. CONCLUSION Clustering of CVD risk factors developed between the age of six and nine years. At nine years of age clustered CVD risk was highly associated with low fitness level.
Sequential parameter optimization for multi-objective problems

Optimizing an algorithm's parameter set for evolutionary multi-objective optimization (EMO) algorithms is not performed regularly until now. However, it could have been learned from single-objective optimization that doing so yields remarkable improvements in algorithm's performance. Here, the sequential parameter optimization (SPO) framework is exemplarily applied to one EMO algorithm (EMOA) with different questions handled in different experiments. The main goal is to show the wide application area of such methods with a second, minor focus on the achievable improvements.
Consequences of the Abandonment of Mandatory Joint Audit: An Empirical Study of Audit Costs and Audit Quality Effects

Abstract This paper focuses on the unique Danish setting in examining the consequences of abandoning a mandatory joint audit regime. We study the effects on audit costs (measured by audit fees) and audit quality (measured by abnormal accruals) of the abandonment of the mandatory joint audit in Denmark in 2005. We perform our analysis on non-financial listed Danish companies for the 2002–2010 period. Our results show that a joint audit is associated with higher fees, but that the association between joint audit and abnormal accruals is insignificant. This suggests that the higher audit fees cannot be explained by higher audit quality. Our results are robust to alternative measurements of fees and audit quality. Additional analyses show that the fee premium related to a joint audit decreases over time and that the Big 4 concentration in our sample has increased since the switch from mandatory to voluntary joint audit. Our results are consistent with the motivations driving the regulatory change in Denmark and are of interest to regulators and actors in the audit market.
Detection of Anaplasma bovis In An Undescribed Tick Species Collected from the Eastern Rock Sengi Elephantulus myurus

Abstract Ticks are important vectors of numerous pathogens causing illness, fatalities, and economic loss worldwide. Infectious disease episodes are increasing, and novel tick-borne pathogens are described frequently. Identification of novel reservoir hosts and vectors of tick-borne pathogens is essential if control measures are to be successful. In South Africa, the eastern rock sengi, Elephantulus myurus, hosts a number of tick species of veterinary importance. Despite this, there remains a paucity of information regarding the tick fauna of this species, the pathogen associations of ticks that it hosts, and its role as a reservoir host of tick-borne pathogens. The current study documents the tick fauna of E. myurus and sympatric small mammal species in Limpopo Province, South Africa. The pathogen associations of ticks hosted by elephant shrews were also investigated by PCR screening of engorged nymphs for a broad range of bacterial and protozoan tick-borne infections, including Borrelia burgdorferi sensu lato and members of Apicomplexa and the order Rickettsiales. There were marked differences in tick species and abundance among host species. Elephantulus myurus was heavily, and predominantly, parasitized by an as-yet undescribed tick species that we identify as Rhipicephalus sp. near warburtoni. PCR and sequence analysis revealed the presence of Anaplasma bovis in this tick species, which may have consequences for livestock production and conservation efforts in the area where this tick species occurs.
Toxicity of three oil spill remediation techniques to the Australian bass Macquaria novemaculeata.

Australian bass, Macquaria novemaculeata, were exposed to the water accommodated fraction (WAF) of Bass Strait crude oil, dispersed crude oil, burnt crude oil, and 4-chlorophenol. The WAF of dispersed crude oil was the most toxic treatment with 96-h LC(50) values of 7. 15% (7.94% upper and 6.42% lower 95% CI) and 7.45% (8.26% upper and 6.71% lower 95% CI). The WAF of crude oil was less toxic, with 96-h LC(50) values of 43.72% (49.21% upper and 38.87% lower 95% CI) and 45.87% (51.51% upper and 40.97% lower 95% CI). The WAF of burnt crude oil was the least toxic treatment with 96-h LC(50) values of 49.81% (63.33% upper and 39.44% lower 95% CI) and 47.28% (59.72% upper and 37.62% lower 95% CI). Sublethal toxicity of the crude oil WAF and burnt crude oil WAF was observed at dilutions seven to eight times less than in the dispersed crude oil WAF.