Miracle-dz/UniFAR-FTUs huggingface dataset:
A Descriptive Study of Japanese Encephalitis in West Bengal , India , Based on Surveillance Data : Changing Pattern Observed in Recent Years

Japanese encephalitis (JE), commonly affects children and is a major cause of acute childhood encephalopathy. Growth of population, intensified rice farming, pig rearing and lack of surveillance are the key factors for transmission of the disease. Although various hospital and laboratory based studies have been conducted on epidemiology of JE in various parts of India including West Bengal, still the need for further research to have a much clear understanding of this disease epidemiology is beyond any question. The present study aimed at determining the Sample Positivity Rate (SPR) and distribution (Time, Place, Person) of JE cases in West Bengal. This descriptive study was conducted over 9 months periods (June 2012 – February 2013), based on surveillance data corresponding to years 2011& 2012, collected from different JE screening Sentinel Laboratories of West Bengal. Confirmation of JE was done by IgM ELISA method. SPR was significantly higher for older age groups. Mean age of JE cases were significantly higher in 2012. Cases were also found consistently in 2011-12 in districts of North Bengal such as Jalpaiguri, Dakshin Dinajpur, Coochbehar etc. Two different peaks were observed in Epi Curve i.e. for northern part, during July August and for southern part, during October – November. JE has been found to be significantly affecting older age groups as well as people of North Bengal districts of West Bengal in recent years. Also different seasonal pattern has been playing role in transmission of JE in different parts of West Bengal.
Spectrum-Based Fault Localization in Regression Testing

In maintenance, regression testing is used to revalidate modified software which is also an expensive and frequently executed process. In conventional regression testing approach, developers generally re-run all test suite or selectively run a sub-set of existing test cases on the modified version of program. After executing the test cases over program, developer may reveal the regression faults due to changes in code and use these non obsolete test cases from pre-existing test suite to explore and eradicate regression faults. This paper addresses the fundamental limitations of conventional regression testing approach. To overcome these limitations, this paper presents a spectrum-based fault localization strategy by which the stated limitations are resolved in effective manner. Spectrum-based fault localization strategy utilizes various program spectra to identify the behavioral differences between old and new version of the program under test. This comparison is also useful in pinpointing the cause of failures or errors and presence of difference in program spectra may indicate those test cases for which the construction of expected output or oracle or specification is not needed. It is very expensive to compute and verify expected output and some times it is impossible to compute expected outputs for non-trivial programs. This approach is used in regression testing to identify behavioral differences between old and new version of a program.
A novel approach to sports concussion assessment: Computerized multilimb reaction times and balance control testing

Abstract Introduction: Mild traumatic brain injuries (MTBI) or concussions often result in problems with attention, executive functions, and motor control. For better identification of these diverse problems, novel approaches integrating tests of cognitive and motor functioning are needed. The aim was to characterize minor changes in motor and cognitive performance after sports-related concussions with a novel test battery, including balance tests and a computerized multilimb reaction time test. The cognitive demands of the battery gradually increase from a simple stimulus response to a complex task requiring executive attention. Method: A total of 113 male ice hockey players (mean age = 24.6 years, SD = 5.7) were assessed before a season. During the season, nine concussed players were retested within 36 hours, four to six days after the concussion, and after the season. A control group of seven nonconcussed players from the same pool of players with comparable demographics were retested after the season. Performance was measured using a balance test and the Motor Cognitive Test battery (MotCoTe) with multilimb responses in simple reaction, choice reaction, inhibition, and conflict resolution conditions. Results: The performance of the concussed group declined at the postconcussion assessment compared to both the baseline measurement and the nonconcussed controls. Significant changes were observed in the concussed group for the multilimb choice reaction and inhibition tests. Tapping and balance showed a similar trend, but no statistically significant difference in performance. Conclusion: In sports-related concussions, complex motor tests can be valuable additions in assessing the outcome and recovery. In the current study, using subtasks with varying cognitive demands, it was shown that while simple motor performance was largely unaffected, the more complex tasks induced impaired reaction times for the concussed subjects. The increased reaction times may reflect the disruption of complex and integrative cognitive function in concussions.
Avian Influenza Virus Surveillance and Wild Birds: Past and Present

Abstract Influenza surveillance in wild birds has established that the aquatic birds of the world are the source of influenza A viruses, which occasionally spread to domestic avian species and to mammals, including humans, and cause mild to severe disease. With the realization that the pandemics of influenza in poultry and people originate from inapparent infections of aquatic birds, including the highly pathogenic H5N1 virus, much more attention has been given to understanding the ecology of influenza in wild aquatic birds. This article deals with the major events establishing the role of wild birds in the natural history of influenza and with some of the unresolved issues. These include 1) whether all H5 and H7 influenza viruses have high pandemic potential, 2) whether avian influenza (AI) is exchanged between Eurasia and the Americas, and 3) whether the highly pathogenic H5N1 AI virus is now being perpetuated in wild birds, one of the most important unresolved issues. Continued surveillance of wild birds for influenza is essential to resolve the many unanswered questions concerning the zoonotic spread of influenza and pandemicity.
Shikonin and its derivatives inhibit the epidermal growth factor receptor signaling and synergistically kill glioblastoma cells in combination with erlotinib

Overexpression and mutation of the epidermal growth factor receptor (EGFR) gene play a causal role in tumorigenesis and resistance to treatment of glioblastoma (GBM). EGFR inhibitors such as erlotinib are currently used for the treatment of GBM; however, their efficacy has been limited due to drug resistance. New treatment strategies are therefore urgently needed. Shikonin, a natural naphthoquinone, induces both apoptosis and necroptosis in human glioma cells, but the effectiveness of erlotinib‐shikonin combination treatment as well as the underlying molecular mechanisms is unknown yet. In this study, we investigated erlotinib in combination with shikonin and 14 shikonin derivatives in parental U87MG and transfected U87MG. ΔEGFR GBM cells. Most of the shikonin derivatives revealed strong cytotoxicity. Shikonin together with five other derivatives, namely deoxyshikonin, isobutyrylshikonin, acetylshikonin, β,β‐dimethylacrylshikonin and acetylalkannin showed synergistic cytotoxicity toward U87MG. ΔEGFR in combination with erlotinib. Moreover, the combined cytotoxic effect of shikonin and erlotinib was further confirmed with another three EGFR‐expressing cell lines, BS153, A431 and DK‐MG. Shikonin not only dose‐dependently inhibited EGFR phosphorylation and decreased phosphorylation of EGFR downstream molecules, including AKT, P44/42MAPK and PLCγ1, but also together with erlotinib synergistically inhibited ΔEGFR phosphorylation in U87MG. ΔEGFR cells as determined by Loewe additivity and Bliss independence drug interaction models. These results suggest that the combination of erlotinib with shikonin or its derivatives might be a potential strategy to overcome drug resistance to erlotinib.
Replication analysis confirms the association of ARID5B with childhood B-cell acute lymphoblastic leukemia

Although childhood acute lymphoblastic leukemia is the most common pediatric cancer, its etiology remains poorly understood. In an attempt to replicate the findings of 2 recent genome-wide association studies in a French-Canadian cohort, we confirmed the association of 5 SNPs [rs7073837 (P=4.2 × 10−4), rs10994982 (P=3.8 × 10−4), rs10740055 (P=1.6 × 10−5), rs10821936 (P=1.7 × 10−7) and rs7089424 (P=3.6 × 10−7)] in the ARID5B gene with childhood acute lymphoblastic leukemia. We also confirmed a selective effect for B-cell acute lymphoblastic leukemia with hyperdiploidy and report a putative gender-specific effect of ARID5B SNPs on acute lymphoblastic leukemia risk in males. This study provides a strong rationale for more detailed analysis to identify the causal variants at this locus and to better understand the overall functional contribution of ARID5B to childhood acute lymphoblastic leukemia susceptibility.
Intermediate-term outcomes after paediatric cardiac extracorporeal membrane oxygenation – what is known (and unknown)

Abstract The use of extracorporeal membrane oxygenation in infants and children with cardiac disease who develop refractory cardiogenic shock, cyanosis, or cardiac arrest is increasing. Early mortality in children with cardiac disease who require extracorporeal membrane oxygenation remains an important issue, as only 40% of cannulated patients survive to discharge from the hospital. However, it is encouraging that 90% children who are discharged alive from the hospital after extracorporeal membrane oxygenation are still alive at intermediate-term follow-up. Surviving patients are at risk for long-term dysfunction of multiple organ systems related to their underlying cardiac disease, non-cardiac comorbidities, treatment-related complications, and exposure to extracorporeal membrane oxygenation. Among the most important acute complications related to support with extracorporeal membrane oxygenation is injury to the central nervous system, which may contribute to adverse neurodevelopmental outcomes. All of these factors, in turn, influence quality of life. Many survivors remain medically complex related to their underlying cardiac disease, comorbidities, and sequelae of complications acquired over their lifetime. Neurological morbidity clearly plays an important role in approximately one-third of survivors, with significant deficits in approximately 10%. The limited data about quality of life data that are available for survivors of cardiac extracorporeal membrane oxygenation suggests that approximately 15–30% of survivors have at least moderately decreased quality of life. Overall, published data support the ongoing use of support with extracorporeal membrane oxygenation in children with acute cardiac failure, most of whom would die without it. However, programmatic efforts to improve the selection of patients and the preservation of the function of end organs during extracorporeal membrane oxygenation are clearly needed in order to improve long-term outcomes.
Contents of conjugated linoleic acid isomers in ruminant-derived foods and estimation of their contribution to daily intake in Portugal

The present study provides a detailed overview of the contents of conjugated linoleic acid (CLA) isomers in the most consumed Portuguese CLA-rich foods (milk, butter, yoghurt, cheese, beef and lamb meat), by using silver ion-HPLC. In addition, the contribution of these ruminant-derived foods to the daily intake of CLA isomers was estimated based on Portuguese consumption habits. The total CLA concentration in milk and dairy products ranged from 4·00 mg/g fat in yoghurt to 7·22 mg/g fat in butter, and, regarding meats, from 4·45 mg/g fat in intensively produced beef to 11·29 mg/g fat in lamb meat. The predominant CLA isomers identified in these products were cis-9, trans-11 (59·89–79·21 %) and trans-7, cis-9 (8·04–20·20 %). The average estimated total CLA intake for the Portuguese population was 73·70 mg/d. Milk and cheese are probably the two products with the highest contribution to the final CLA intake, as a result of their high fat content and consumption values. The results also suggested that cis-9, trans-11 and trans-7, cis-9 are the isomers most represented, with, respectively, 76·10 and 12·56 % of the total CLA intake. Being the first detailed report on the contents of total and individual CLA isomers in Portuguese commercial ruminant-derived foods, we further discuss the implication of the results for diet characteristics and human health.
Impact of link failures on VoIP performance

We use active and passive traffic measurements to identify the issues involved in the deployment of a voice service over a tier-1 IP backbone network. Our findings indicate that no specific handling of voice packets (i.e. QoS differentiation) is needed in the current backbone but new protocols and mechanisms need to be introduced to provide a better protection against link failures. We discover that link failures may be followed by long periods of routing instability, during which packets can be dropped because forwarded along invalid paths. We also identify the need for a new family of quality of service mechanisms based on fast protection of traffic and high availability of the service rather than performance in terms of delay and loss.
Alpha-Glucosidase Promotes Hemozoin Formation in a Blood-Sucking Bug: An Evolutionary History

Background Hematophagous insects digest large amounts of host hemoglobin and release heme inside their guts. In Rhodnius prolixus, hemoglobin-derived heme is detoxified by biomineralization, forming hemozoin (Hz). Recently, the involvement of the R. prolixus perimicrovillar membranes in Hz formation was demonstrated. Methodology/Principal Findings Hz formation activity of an α-glucosidase was investigated. Hz formation was inhibited by specific α-glucosidase inhibitors. Moreover, Hz formation was sensitive to inhibition by Diethypyrocarbonate, suggesting a critical role of histidine residues in enzyme activity. Additionally, a polyclonal antibody raised against a phytophagous insect α-glucosidase was able to inhibit Hz formation. The α-glucosidase inhibitors have had no effects when used 10 h after the start of reaction, suggesting that α-glucosidase should act in the nucleation step of Hz formation. Hz formation was seen to be dependent on the substrate-binding site of enzyme, in a way that maltose, an enzyme substrate, blocks such activity. dsRNA, constructed using the sequence of α-glucosidase gene, was injected into R. prolixus females' hemocoel. Gene silencing was accomplished by reduction of both α-glucosidase and Hz formation activities. Insects were fed on plasma or hemin-enriched plasma and gene expression and activity of α-glucosidase were higher in the plasma plus hemin-fed insects. The deduced amino acid sequence of α-glucosidase shows a high similarity to the insect α-glucosidases, with critical histidine and aspartic residues conserved among the enzymes. Conclusions/Significance Herein the Hz formation is shown to be associated to an α-glucosidase, the biochemical marker from Hemipteran perimicrovillar membranes. Usually, these enzymes catalyze the hydrolysis of glycosidic bond. The results strongly suggest that α-glucosidase is responsible for Hz nucleation in the R. prolixus midgut, indicating that the plasticity of this enzyme may play an important role in conferring fitness to hemipteran hematophagy, for instance.
Analysis of Co-Aggregation of Cancer Based on Registry Data

Objective: An exploratory analysis of co-aggregation of cancers using registry-based data. Methods: We utilized sibships from over 18,000 families who had been recruited to the NCI-sponsored multi-institutional Cancer Genetics Network. The analysis assesses co-aggregation at the individual and family level and adjusts for ascertainment. Results: We found statistically significant familial co-aggregation of lung cancer with pancreatic (adjusted p < 0.001), prostate (adjusted p < 0.003), and colorectal cancers (adjusted p = 0.004). In addition, we found significant familial co-aggregation of pancreatic and colorectal cancers (adjusted p = 0.018), and co-aggregation of hematopoietic and (non-ovarian) gynecologic cancers (adjusted p = 0.01). Conclusion: This analysis identified familial aggregation of cancers for which a genetic component has yet to be established.
Anti-inflammatory effects of budesonide in human lung fibroblast are independent of histone deacetylase 2

Objective and design Reduced expression of histone deacetylase 2 (HDAC2) in alveolar macrophages and epithelial cells may account for reduced response of chronic obstructive pulmonary disease (COPD) patients to glucocorticoids. HDAC2 expression and its role in mediating glucocorticoid effects on fibroblast functions, however, has not been fully studied. This study was designed to investigate whether HDAC2 mediates glucocorticoid effects on release of inflammatory cytokines and matrix metalloproteinases (MMPs) from human lung fibroblasts. Methods Human lung fibroblasts (HFL-1 cells) were stimulated with interleukin (IL)-1 β plus tumor necrosis factor (TNF)-α in the presence or absence of the glucocorticoid budesonide. Cytokines (IL-6 and IL-8) were quantified by enzyme linked immunosorbent assay (ELISA) and MMPs (MMP-1 and MMP-3) by immunoblotting in culture medium. The role of HDAC2 was investigated using a pharmacologic inhibitor as well as a small interfering ribonucleic acid (siRNA) targeting HDAC2. Results We have demonstrated that budesonide concentration-dependently (10−10–10−7 M) inhibited IL-6, IL-8, MMP-1, and MMP-3 release by HFL-1 cells in response to IL-1β plus TNF-α. While an HDAC inhibitor significantly blocked the inhibitory effect of budesonide on human bronchial epithelial cells (HBECs) and monocytes (THP-1 cells), it did not block the inhibitory effect of budesonide on release of cytokines and MMPs from HFL-1 cells. Similarly, an HDAC2-siRNA blocked budesonide inhibition of cytokine release in HBECs, but it did not block the inhibitory effect of budesonide on HFL-1 cytokine and MMP release. Furthermore, budesonide significantly blocked release of cytokines and MMPs to a similar degree in normal and COPD lung fibroblasts as well as in HFL-1 cells exposed or not exposed to cigarette smoke extract. Conclusion These findings suggest that, in contrast to airway epithelial cells and monocytes/macrophages, HDAC2 is not required for budesonide to inhibit MMP and cytokine release by lung fibroblasts and this inhibitory pathway appears to be intact in cultured fibroblasts from COPD patients. These results also suggest that budesonide has the potential to modulate fibroblast-mediated tissue remodeling following airway inflammation in COPD, which is mediated via an HDAC2 independent pathway.
Are People Living in Countries Emitting Less CO 2 Happier ?

In this paper we investigate whether people living i countries emitting less per capita CO2 are happier. We begin by considering a panel data a ppro ch to address this question. The results we obtain in this framework imply that ther e is no influence of CO2 emissions on happiness even for the developed countries. Howeve r, th multicollinearity problem coupled with this surprising result prompted us to consider a more appropriate technique. We use then the partial least square regression (PLS). In this case when considering the whole sample, per capita CO2 emissions have no effect on the average h ppiness in countries. However, when considering separately the two sub-samples of devel oping and developed countries, the PLS results show that per capita CO2 emissions affect t he happiness in developed countries, but have no perceptible influence on the happiness in d eveloping countries. This difference of the effect of CO2 emissions on happiness coupled with t he importance of revenue can constitute a contentious issue between developing and developed countries.
Aberrant Methylation of Protocadherin 17 and its Clinical Significance in Patients with Prostate Cancer after Radical Prostatectomy

Background Aberrant methylation of protocadherin 17 (PCDH17) has been reported in several human cancers. However, the methylation status of PCDH17 in prostate cancer and its clinical significance remains unclear. The aim of this study was to investigate the methylation status of PCDH17 and its clinical significance in patients with prostate cancer after radical prostatectomy. Material/Methods The methylation status of PCDH17 in 152 prostate cancer tissues and 51 non-tumoral prostate tissues was examined by methylation-specific PCR (MSP). Then the association between PCDH17 methylation and clinicopathologic parameters was analyzed. Kaplan-Meier survival analysis, log-rank test and multivariate Cox proportional hazard model analysis were used to analyze the correlation between PCDH17 methylation and prognosis of patients with prostate cancer. Results Our data demonstrated that PCDH17 methylation occurred frequently in prostate cancer. PCDH17 methylation was significantly associated with higher pathological Gleason score (P=0.0315), advanced pathological stage (P=0.0260), higher level of preoperative PSA (P=0.0354), positive angiolymphatic invasion (P=0.0461), positive lymph node metastasis (P=0.0362), and biochemical recurrence (BCR) (P=0.0018). In addition, PCDH17 methylation was an independent predictor of poor biochemical recurrence-free (BCR-free) survival and overall survival for patients with prostate cancer. Conclusions PCDH17 methylation is a frequent tumor-specific event in prostate cancer, and is significantly correlated with shorter BCR-free survival and overall survival of patients with prostate cancer after radical prostatectomy. PCDH17 methylation in tumor samples after radical prostatectomy may be used as an independent prognostic biomarker.