Miracle-dz/UniFAR-FTUs huggingface dataset:
Characterization of Infecting Strains and Superantigen-Neutralizing Antibodies in Staphylococcus aureus Bacteremia

ABSTRACT Staphylococcus aureus superantigens (SAgs) are highly potent T cell mitogens. Antibodies against non-enterotoxin gene cluster (non-egc) SAgs are common in healthy adults, whereas neutralizing antibodies against egc SAgs are rare. We investigated the infecting S. aureus strains and the anti-SAg antibody response during S. aureus bacteremia (SAB). This prospective clinical study (www.clinicaltrials.gov, NCT00548002) included 43 injection drug users (IDUs) and 44 group-matched nonaddicts with SAB. spa genotypes and SAg gene patterns (multiplex PCR) of the S. aureus isolates were determined. The neutralizing capacities of sera obtained at the acute phase and the convalescent phase of SAB were tested against the SAg cocktail of the respective infecting strain and a panel of recombinant SAgs. The lineages CC59 and CC30 were more prevalent among bacteremia strains from IDUs than among strains from nonaddicts. SAg gene patterns in isolates from IDUs and nonaddicts were similar. At the acute phase of bacteremia, IDUs had more neutralizing antibodies against non-egc SAgs than did nonaddicts. Antibody titers frequently increased during infection. In contrast, there were no neutralizing antibodies against egc SAgs at disease onset and such antibodies were not induced by SAB. SAB triggers an antibody response only against non-egc SAgs. Preimmunization in IDU patients is probably due to previous exposure to the infecting strain.
Topical Resiquimod Protects against Visceral Infection with Leishmania infantum chagasi in Mice

ABSTRACT New prevention and treatment strategies are needed for visceral leishmaniasis, particularly ones that can be deployed simply and inexpensively in areas where leishmaniasis is endemic. Synthetic molecules that activate Toll-like receptor 7 and 8 (TLR7/8) pathways have previously been demonstrated to enhance protection against cutaneous leishmaniasis. We initially sought to determine whether the TLR7/8-activating molecule resiquimod might serve as an effective vaccine adjuvant targeting visceral leishmaniasis caused by infection with Leishmania infantum chagasi. Resiquimod was topically applied to the skin of mice either prior to or after systemic infection with L. infantum chagasi, and parasite burdens were assessed. Surprisingly, topical resiquimod application alone, in the absence of vaccination, conferred robust resistance to mice against future intravenous challenge with virulent L. infantum chagasi. This protection against L. infantum chagasi infection persisted as long as 8 weeks after the final topical resiquimod treatment. In addition, in mice with existing infections, therapeutic treatment with topical resiquimod led to significantly lower visceral parasite loads. Resiquimod increased trafficking of leukocytes, including B cells, CD4+ and CD8+ T cells, dendritic cells, macrophages, and granulocytes, in livers and spleens, which are the key target organs of visceralizing infection. We conclude that topical resiquimod leads to systemic immune modulation and confers durable protection against visceralizing L. infantum chagasi infection, in both prophylactic and therapeutic settings. These studies support continued studies of TLR-modulating agents to determine mechanisms of protection and also provide a rationale for translational development of a critically needed, novel class of topical, preventative, and therapeutic agents for these lethal infections.
Men′s perspectives on intimate partner abuse in an urban community in North-Western Nigeria

Background: Intimate partner abuse (IPA) has many negative consequences on the health of women and their children, and on the economic and social development of communities. Aim: This study was conducted to determine the prevalence of IPA among men in an urban community of North-Western, Nigeria, their reasons for engaging in it, and the complications experienced by their partners. Materials and Methods: The study was conducted in Samaru, Sabon Gari Local Government Area of Kaduna State. This was a cross-sectional study in which 397 married men were interviewed using a structured interviewer-administered questionnaire containing both open- and close-ended questions. A man was considered to have engaged in IPA if he had engaged in at least one form of physical, sexual, emotional and/or economic abuse in the last 12 months. Results: Mean age of the respondents was 30.3 ± 27.5 years, and they were mostly Hausa-Fulani 183 (46.1%), and having tertiary education 238 (59.2%). Among all respondents, 186 (46.9%) had engaged in IPA in the last 12 months, the most common type being physical abuse 184 (46.3%). Of all IPAs, 78 (41.9%) occurred, while the partner was pregnant. Some common reasons for engaging in IPA include wife′s nagging and impatience, husband′s heavy drinking, and negligence of domestic duty by wife. Major complications of IPA experienced by their wives were physical injury and miscarriage. Conclusion: Prevalence of IPA amongst the respondents is very high, with almost half occurring during pregnancy. It is recommended that excessive alcohol consumption and gender roles should be discouraged in the community. In addition, screening of antenatal clinic attendees for IPA should be instituted in such communities.
Prospective Cohort Study of the Safety of an Influenza A(H1N1) Vaccine in Pregnant Chinese Women

ABSTRACT To monitor and evaluate the safety of the influenza A(H1N1) vaccine in pregnant women and its influence on the fetus and neonate, we performed a prospective study in which 122 pregnant Chinese women who received the influenza A(H1N1) vaccine and 104 pregnant women who did not receive any vaccine (serving as controls) were observed. The results indicated that the seroconversion rate in the vaccinated group was 90.4% (95% confidence interval [CI], 82.6% to 95.5%). The rate of adverse events following immunization in the pregnant women who received the influenza A(H1N1) vaccine was 3.3%. The spontaneous abortion rates in the vaccinated group and the unvaccinated group were 0.8% and 1.9%, respectively (exact probability test, P = 0.470), the prolonged-pregnancy rates were 8.2% and 4.8%, respectively (χ2 = 1.041, P = 0.308), the low-birth-weight rates were 1.6% and 0.95%, respectively (exact probability test, P = 1.000), and the spontaneous-labor rates were 70.5% and 75%, respectively (χ2 = 0.573, P = 0.449). All newborns who have an Apgar score of ≥7 are considered healthy; Apgar scores of ≥9 were observed in 38.5% and 57.7% of newborns in the vaccinated group and the unvaccinated group, respectively (χ2 = 8.274, P = 0.004). From these results, we conclude that the influenza A(H1N1) vaccine is safe for pregnant women and has no observed adverse effects on fetal growth. (This study has been registered at ClinicalTrials.gov under registration no. NCT01842997.)
Prevalence of Antibodies against Seasonal Influenza A and B Viruses in Children in Netherlands

ABSTRACT To gain insight into the age at which children become infected with influenza viruses for the first time, we analyzed the seroprevalence of antibodies against influenza viruses in children 0 to 7 years of age in the Netherlands. Serum samples were collected during a cross-sectional population-based study in 2006 and 2007 and were tested for the presence of antibodies against influenza A/H1N1, A/H3N2, and B viruses representative of viruses present in previous influenza seasons using the hemagglutination inhibition assay. The seroprevalence of antibodies to influenza virus was higher in children 1 to 6 months of age than in children 7 to 12 months of age, which likely reflects the presence of maternally derived antibodies. The proportion of study subjects >1 year of age with detectable antibodies against influenza viruses gradually increased with age until they reached the age of 6 years, when they all had antibodies to at least one influenza A virus. These findings may have implications for the development of vaccination strategies aiming at the protection of young children against seasonal and/or pandemic influenza virus infection.
Memory T Cells Specific for Novel Human Papillomavirus Type 16 (HPV16) E6 Epitopes in Women Whose HPV16 Infection Has Become Undetectable

ABSTRACT Human papillomavirus (HPV)-specific T-cell response to the HPV type 16 (HPV16) E6 protein has been shown to be associated with successful viral clearance. The patterns of CD8 T-cell epitopes within HPV16 E6 protein were previously studied in two women with HPV16 clearance. The goal of this study was to characterize these epitopes in terms of their minimal and optimal amino acid sequences and the human leukocyte antigen (HLA) restriction molecules. The presence of the epitope-specific memory T cells after viral clearance was also examined. In subject A, the dominant epitope was characterized to be E6 75-83 (KFYSKISEY), restricted by the HLA-B62 molecule, while that of subject B was E6 133-142 (HNIRGRWTGR), restricted by the HLA-A6801 molecule. Homologous epitopes were identified in five other high-risk HPV types for both of these epitopes, but they were not recognized by respective T-cell clone cells. An enzyme-linked immunospot assay or tetramer analysis was performed on peripheral blood mononuclear cells from blood samples collected after viral clearance but prior to isolation of the T-cell clones. The presence of epitope-specific memory T cells was demonstrated. These data suggest that HPV-specific memory T cells were generated in vivo and that they may remain in circulation many months, if not years, after viral clearance. Our findings broaden the spectrum of the CD8 T-cell epitopes of the HPV16 E6 protein. The characterization of novel T-cell epitopes and long-lasting epitope-specific memory T cells may be useful for the development of a potential epitope-based vaccine.
Paclitaxel-Eluting Balloon vs Standard Angioplasty to Reduce Restenosis in Diabetic Patients With In-Stent Restenosis of the Superficial Femoral and Proximal Popliteal Arteries

Purpose: To report the 3-year safety and effectiveness outcomes from the prospective all-comers DEBATE-ISR study (ClinicalTrials.gov identifier NCT01558531) of symptomatic diabetic patients with femoropopliteal in-stent restenosis (ISR) undergoing treatment with paclitaxel-eluting balloons compared with historical diabetic controls. Methods: From January 2010 to December 2011, 44 consecutive diabetic patients (mean age 74±11 years; 32 men) were treated with drug-eluting balloons (DEBs) and enrolled in the study. The control group comprised 42 consecutive diabetic patients (age 76±7 years; 23 men) treated with conventional balloon angioplasty (BA) from 2008 to 2009. Results: No significant differences in terms of clinical, angiographic, or procedural characteristics were observed between the study groups. Critical limb ischemia was present in the majority of patients. Tosaka class III ISR was observed in more than half of the patients. Mean lesion length was 132±86 and 137±82 mm in the DEB and BA groups, respectively (p=0.7). At 3-year follow-up, the rate of target lesion revascularization (TLR) was 40% in the DEB group vs 43% in the BA group (p=0.8); Kaplan-Meier analysis showed no significant differences in terms of freedom from TLR. The presence of a Tosaka class III occlusion was associated with a worse outcome in both study groups (odds ratio 3.96, 95% confidence interval 1.55 to 10.1, p=0.004). Conclusion: Using DEBs for femoropopliteal ISR yielded similar results to BA in terms of TLR at 3-year follow-up. The treatment of more complex ISR lesions was associated with an increased rate of TLR, irrespective of the technology used.
Inhibition of Mycobacterial Growth In Vitro following Primary but Not Secondary Vaccination with Mycobacterium bovis BCG

ABSTRACT Despite the widespread use of the Mycobacterium bovis BCG vaccine, there are more than 9 million new cases of tuberculosis (TB) every year, and there is an urgent need for better TB vaccines. TB vaccine candidates are selected for evaluation based in part on the detection of an antigen-specific gamma interferon (IFN-γ) response. The measurement of mycobacterial growth in blood specimens obtained from subjects immunized with investigational TB vaccines may be a better in vitro correlate of in vivo vaccine efficacy. We performed a clinical study with 30 United Kingdom adults who were followed for 6 months to evaluate the abilities of both a whole-blood- and a novel peripheral blood mononuclear cell (PBMC)-based mycobacterial growth inhibition assay to measure a response to primary vaccination and revaccination with BCG. Using cryopreserved PBMCs, we observed a significant improvement in mycobacterial growth inhibition following primary vaccination but no improvement in growth inhibition following revaccination with BCG (P < 0.05). Mycobacterial growth inhibition following primary BCG vaccination was not correlated with purified protein derivative (PPD) antigen-specific IFN-γ enzyme-linked immunospot (ELISPOT) responses. We demonstrate that a mycobacterial growth inhibition assay can detect improved capacity to control growth following primary immunization, but not revaccination, with BCG. This is the first study to demonstrate that an in vitro growth inhibition assay can identify a difference in vaccine responses by comparing both primary and secondary BCG vaccinations, suggesting that in vitro growth inhibition assays may serve as better surrogates of clinical efficacy than the assays currently used for the assessment of candidate TB vaccines.
Assignment of Weight-Based Antibody Units for Seven Additional Serotypes to a Human Pneumococcal Standard Reference Serum, 007sp

ABSTRACT The pneumococcal enzyme-linked immunosorbent assay (ELISA) reference standard serum, lot 89SF, has been in use since 1990 and was replaced in 2013 with a new reference standard, 007sp, that is projected to be available for the next 25 years. 007sp was generated under an FDA-approved clinical protocol; 278 adult volunteers were immunized with the 23-valent unconjugated polysaccharide vaccine Pneumovax II, and a unit of blood was obtained twice from each immunized subject within 120 days following immunization. Pooled serum was prepared from the plasma of 262 subjects, filled at 6 ml per vial, and lyophilized. Five independent laboratories participated in bridging the serotype-specific IgG assignments for 89SF to the new reference standard, 007sp, to establish equivalent reference values for 13 pneumococcal capsular serotypes (1,3, 4, 5, 6A, 6B, 7F, 9V, 14, 18C, 19A, 19F, and 23F) by using the WHO reference ELISA. In a second study involving three laboratories, a similar protocol was used to assign weight-based IgG concentrations in micrograms per ml to 007sp of seven serotypes (8, 10A, 11A, 12F, 15B, 22F, and 33F) also present in the 23-valent pneumococcal unconjugated polysaccharide vaccine. In addition, the IgG assignments for a 12-member WHO quality control (QC) serum panel were also extended to cover these seven serotypes. Agreement was excellent, with a concordance correlation coefficient (rc) of >0.996 when each laboratory was compared to the assigned values for the 12 WHO QC serum samples. There are four remaining pneumococcal serotypes (2, 9N, 17F, and 20) found in Pneumovax II for which IgG assignments exist for 89SF and remain to be bridged.
A novel approach for automatic acoustic novelty detection using a denoising autoencoder with bidirectional LSTM neural networks

Acoustic novelty detection aims at identifying abnormal/novel acoustic signals which differ from the reference/normal data that the system was trained with. In this paper we present a novel unsupervised approach based on a denoising autoencoder. In our approach auditory spectral features are processed by a denoising autoencoder with bidirectional Long Short-Term Memory recurrent neural networks. We use the reconstruction error between the input and the output of the autoencoder as activation signal to detect novel events. The autoencoder is trained on a public database which contains recordings of typical in-home situations such as talking, watching television, playing and eating. The evaluation was performed on more than 260 different abnormal events. We compare results with state-of-the-art methods and we conclude that our novel approach significantly outperforms existing methods by achieving up to 93.4% F-Measure.
Getting psychiatric patients to the polls in the 1992 General Election

disordered people have been, until recently, disen franchised by section 4(3) of the Representation of the People Act 1949which prevented recognition of a mental hospital as a place of residence for the pur pose of electoral registration. Significant change was introduced by section 7 of the Representation of the People Act 1983 which applies to both England and Wales, and Scotland. This enables informal patients in mental hospitals to register for the vote provided they can complete a patient's declaration. We exam
Deep clustering: Discriminative embeddings for segmentation and separation

We address the problem of "cocktail-party" source separation in a deep learning framework called deep clustering. Previous deep network approaches to separation have shown promising performance in scenarios with a fixed number of sources, each belonging to a distinct signal class, such as speech and noise. However, for arbitrary source classes and number, "class-based" methods are not suitable. Instead, we train a deep network to assign contrastive embedding vectors to each time-frequency region of the spectrogram in order to implicitly predict the segmentation labels of the target spectrogram from the input mixtures. This yields a deep network-based analogue to spectral clustering, in that the embeddings form a low-rank pair-wise affinity matrix that approximates the ideal affinity matrix, while enabling much faster performance. At test time, the clustering step "decodes" the segmentation implicit in the embeddings by optimizing K-means with respect to the unknown assignments. Preliminary experiments on single-channel mixtures from multiple speakers show that a speaker-independent model trained on two-speaker mixtures can improve signal quality for mixtures of held-out speakers by an average of 6dB. More dramatically, the same model does surprisingly well with three-speaker mixtures.
Probabilistic memory-based collaborative filtering

Memory-based collaborative filtering (CF) has been studied extensively in the literature and has proven to be successful in various types of personalized recommender systems. In this paper, we develop a probabilistic framework for memory-based CF (PMCF). While this framework has clear links with classical memory-based CF, it allows us to find principled solutions to known problems of CF-based recommender systems. In particular, we show that a probabilistic active learning method can be used to actively query the user, thereby solving the "new user problem. " Furthermore, the probabilistic framework allows us to reduce the computational cost of memory-based CF by working on a carefully selected subset of user profiles, while retaining high accuracy. We report experimental results based on two real-world data sets, which demonstrate that our proposed PMCF framework allows an accurate and efficient prediction of user preferences.
A semi-global matching method for large-scale light field images

Semi-Global Matching (SGM) is a robust method in traditional stereo matching. It maintains precise boundary with low computational cost. However, directly applying SGM to light field stereo matching degrades the results greatly due to the sparsity of support points. In this letter, we proposes a novel stereo matching approach for large-scale light field images. We observe that adding weak edges to support points efficiently stabilizes the depth propagation. Based on this observation, we apply a cross detector to obtain support points, and then we propagate the depth of support points to homogeneous region. By solving a semi-global energy minimization problem, the depth information can be well estimated from epipolar plane images. Besides, we introduce a new strategy to deal with occlusion. We iteratively sample the pixels under current disparity hypothesis and the consistency scores are aggregated by a weighted winner-take-all strategy. Our method allows for significant reduce of the disparity search space, the time is halved and the depth is more robust at the occurrence of occlusion. For every pixel, the calculation is based on a single EPI and locally independent. Implementation on GPU shows that our method can achieve state-of-art results with less computational cost.
A Survey of Web Information Extraction Systems

The Internet presents a huge amount of useful information which is usually formatted for its users, which makes it difficult to extract relevant data from various sources. Therefore, the availability of robust, flexible information extraction (IE) systems that transform the Web pages into program-friendly structures such as a relational database will become a great necessity. Although many approaches for data extraction from Web pages have been developed, there has been limited effort to compare such tools. Unfortunately, in only a few cases can the results generated by distinct tools be directly compared since the addressed extraction tasks are different. This paper surveys the major Web data extraction approaches and compares them in three dimensions: the task domain, the automation degree, and the techniques used. The criteria of the first dimension explain why an IE system fails to handle some Web sites of particular structures. The criteria of the second dimension classify IE systems based on the techniques used. The criteria of the third dimension measure the degree of automation for IE systems. We believe these criteria provide qualitatively measures to evaluate various IE approaches
Precoded food records compared with weighed food records for measuring dietary habits in a population of Swedish adults

In a cross-over design, 82 women and men recorded their food intake by a precoded 7-day record book (PR) including both standard portions in household measures and photographs, and a weighed 7-day record (WR), respectively. Single 24-h urine samples, for determination of nitrogen excretion, were collected for 39 subjects during the WR period. Comparing the PR to the WR method, the mean intake of some foods, as cheese, was higher, and bread and vegetables lower. For energy and nutrients, the fat energy percent (E%) was higher, and protein E%, dietary fibre, iron, thiamin, folate, carotene and a-tocopherol were all lower. Protein intake registered by the PR method was 20% lower compared to 24-h urine samples, and 11 % lower for the WR method. The results indicate that some of the standard portion sizes, used by the PR method, contributed to the observed differences in food and nutrient intakes. The subjects found it easier and less time-consuming to record their food intake with the PR than with the WR method. The time spent on processing data was reduced by 50% when using the PR method. The results of the study will be used for improvements in the design of the PR for use in large-scale dietary surveys for monitoring dietary habits.