Miracle-dz/UniFAR-FTUs huggingface dataset:
Galantamine alleviates inflammation and insulin resistance in patients with metabolic syndrome in a randomized trial.

BACKGROUND Metabolic syndrome (MetS) is an obesity-driven condition of pandemic proportions that increases the risk of type 2 diabetes and cardiovascular disease. Pathophysiological mechanisms are poorly understood, though inflammation has been implicated in MetS pathogenesis. The aim of this study was to assess the effects of galantamine, a centrally acting acetylcholinesterase inhibitor with antiinflammatory properties, on markers of inflammation implicated in insulin resistance and cardiovascular risk, and other metabolic and cardiovascular indices in subjects with MetS. METHODS In this randomized, double-blind, placebo-controlled trial, subjects with MetS (30 per group) received oral galantamine 8 mg daily for 4 weeks, followed by 16 mg daily for 8 weeks or placebo. The primary outcome was inflammation assessed through plasma levels of cytokines and adipokines associated with MetS. Secondary endpoints included body weight, fat tissue depots, plasma glucose, insulin, homeostasis model assessment of insulin resistance (HOMA-IR), cholesterol (total, HDL, LDL), triglycerides, BP, heart rate, and heart rate variability (HRV). RESULTS Galantamine resulted in lower plasma levels of proinflammatory molecules TNF (-2.57 pg/ml [95% CI -4.96 to -0.19]; P = 0.035) and leptin (-12.02 ng/ml [95% CI -17.71 to -6.33]; P < 0.0001), and higher levels of the antiinflammatory molecules adiponectin (2.71 μg/ml [95% CI 1.93 to 3.49]; P < 0.0001) and IL-10 (1.32 pg/ml, [95% CI 0.29 to 2.38]; P = 0.002) as compared with placebo. Galantamine also significantly lowered plasma insulin and HOMA-IR values, and altered HRV. CONCLUSION Low-dose galantamine alleviates inflammation and insulin resistance in MetS subjects. These findings support further study of galantamine in MetS therapy. TRIAL REGISTRATION ClinicalTrials.gov, number NCT02283242. FUNDING Fundação de Amparo a Pesquisa do Estado de São Paulo (FAPESP) and Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq), Brazil, and the NIH.
Twenty-four-hour urinary cortisol levels before complete resection of non-small cell lung cancer and survival

Cortisol has been speculated to play a role in survival from cancer. The objective of this study was to investigate the association between 24-h urinary cortisol levels and survival from non-small cell lung cancer. From June 1996 to April 1999, a total of 226 patients with resectable non-small cell lung cancer were enrolled. Urine samples were collected over a 24-h period before the curative resections. A total of 14 650 person-months (median = 71 months, range = 1–97 months) were accrued. Over the follow-up period, 56 deaths from all causes were identified through January 2004. Cox proportional hazards regression analyses were used to estimate the relative risk (RR) of death from all causes according to three categories of 24-h urinary cortisol levels. Multivariable RRs of death from all causes for individuals in the highest and intermediate categories, compared with the lowest category, were 1.09 (95% confidence interval = 0.54–2.21) and 1.17 (0.55–2.46), respectively (p for trend = 0.17). The present data do not support the hypothesis that 24-h urinary cortisol levels are associated with survival from non-small cell lung cancer.
Detection of genomic islands via segmental genome heterogeneity

While the recognition of genomic islands can be a powerful mechanism for identifying genes that distinguish related bacteria, few methods have been developed to identify them specifically. Rather, identification of islands often begins with cataloging individual genes likely to have been recently introduced into the genome; regions with many putative alien genes are then examined for other features suggestive of recent acquisition of a large genomic region. When few phylogenetic relatives are available, the identification of alien genes relies on their atypical features relative to the bulk of the genes in the genome. The weakness of these ‘bottom–up’ approaches lies in the difficulty in identifying robustly those genes which are atypical, or phylogenetically restricted, due to recent foreign ancestry. Herein, we apply an alternative ‘top–down’ approach where bacterial genomes are recursively divided into progressively smaller regions, each with uniform composition. In this way, large chromosomal regions with atypical features are identified with high confidence due to the simultaneous analysis of multiple genes. This approach is based on a generalized divergence measure to quantify the compositional difference between segments in a hypothesis-testing framework. We tested the proposed genome island prediction algorithm on both artificial chimeric genomes and genuine bacterial genomes.
Modeling power and energy consumption of dense matrix factorizations on multicore processors

In this paper, we propose a model for the energy consumption of the concurrent execution of three key dense matrix factorizations, with task parallelism leveraged via the Symmetric Multi‐Processing Superscalar (SMPSs) runtime, on a multicore processor. Our model decomposes the power dissipation into the system, static and dynamic components, with the former two being estimated from basic, off‐line experiments. The dynamic power, on the other hand, requires significantly more care, and we introduce a contention‐aware model that accommodates for the variability of power consumption due to memory contention. Experimental results on an Intel Xeon E5504 processor with four cores, using an internal powermeter that samples the power drawn by the mainboard with a frequency of 1 KHz, show the reliability of the energy model for the Cholesky, LU, and QR factorizations on this platform. Copyright © 2013 John Wiley & Sons, Ltd.
Cross-sectional observational assessment of quality of newborn care immediately after birth in health facilities across six sub-Saharan African countries

Objective To present information on the quality of newborn care services and health facility readiness to provide newborn care in 6 African countries, and to advocate for the improvement of providers' essential newborn care knowledge and skills. Design Cross-sectional observational health facility assessment. Setting Ethiopia, Kenya, Madagascar, Mozambique, Rwanda and Tanzania. Participants Health workers in 643 facilities. 1016 health workers were interviewed, and 2377 babies were observed in the facilities surveyed. Main outcome measures Indicators of quality of newborn care included (1) provision of immediate essential newborn care: thermal care, hygienic cord care, and early and exclusive initiation of breast feeding; (2) actual and simulated resuscitation of asphyxiated newborn infants; and (3) knowledge of health workers on essential newborn care, including resuscitation. Results Sterile or clean cord cutting instruments, suction devices, and tables or firm surfaces for resuscitation were commonly available. 80% of newborns were immediately dried after birth and received clean cord care in most of the studied facilities. In all countries assessed, major deficiencies exist for essential newborn care supplies and equipment, as well as for health worker knowledge and performance of key routine newborn care practices, particularly for immediate skin-to-skin contact and breastfeeding initiation. Of newborns who did not cry at birth, 89% either recovered on their own or through active steps taken by the provider through resuscitation with initial stimulation and/or ventilation. 11% of newborns died. Assessment of simulated resuscitation using a NeoNatalie anatomic model showed that less than a third of providers were able to demonstrate ventilation skills correctly. Conclusions The findings shared in this paper call attention to the critical need to improve health facility readiness to provide quality newborn care services and to ensure that service providers have the necessary equipment, supplies, knowledge and skills that are critical to save newborn lives.
Origin of worldwide cultivated barley revealed by NAM-1 gene and grain protein content

The origin, evolution, and distribution of cultivated barley provides powerful insights into the historic origin and early spread of agrarian culture. Here, population-based genetic diversity and phylogenetic analyses were performed to determine the evolution and origin of barley and how domestication and subsequent introgression have affected the genetic diversity and changes in cultivated barley on a worldwide scale. A set of worldwide cultivated and wild barleys from Asia and Tibet of China were analyzed using the sequences for NAM-1 gene and gene-associated traits-grain protein content (GPC). Our results showed Tibetan wild barley distinctly diverged from Near Eastern barley, and confirmed that Tibet is one of the origin and domestication centers for cultivated barley, and in turn supported a polyphyletic origin of domesticated barley. Comparison of haplotype composition among geographic regions revealed gene flow between Eastern and Western barley populations, suggesting that the Silk Road might have played a crucial role in the spread of genes. The GPC in the 118 cultivated and 93 wild barley accessions ranged from 6.73 to 12.35% with a mean of 9.43%. Overall, wild barley had higher averaged GPC (10.44%) than cultivated barley. Two unique haplotypes (Hap2 and Hap7) caused by a base mutations (at position 544) in the coding region of the NAM-1 gene might have a significant impact on the GPC. Single nucleotide polymorphisms and haplotypes of NAM-1 associated with GPC in barley could provide a useful method for screening GPC in barley germplasm. The Tibetan wild accessions with lower GPC could be useful for malt barley breeding.
Interpreting the 2011 London riots from twitter metadata

Social media have rapidly become one of the principal venues for personal and public communication. This makes them rich sources of information about real-world events. As a case study, we used Twitter metadata to investigate social dimensions of the 2011 London riots. The results showed that Twitter-based commentary and participation in the London Riots are closely linked to the real-world manifestation of the riots (e.g. in terms of geographic presence). Twitter metadata on users and their messages during the riots can be used to generate useful inferences which allows us to gain a better insight into intents, information-sharing behavior, and demographics of both the rioters and observers of the riots. Pattern recognition approaches can be used to further reveal latent properties from the acquired inferences.
Indinavir/ritonavir remains an important component of HAART for the treatment of HIV/AIDS, particularly in resource-limited settings

For over a decade, indinavir has been approved for the treatment of HIV/AIDS; however, following the introduction of new protease inhibitors (PIs) with improved safety and pharmacologic profiles, its use in developed countries has become almost obsolete. In contrast, in resource-limited settings where the majority of people living with HIV/AIDS reside, indinavir is part of the most affordable PI-based highly active antiretroviral treatment regimen. A major drawback of indinavir use is renal toxicity, but low-dose indinavir plus ritonavir (400/100 mg) twice daily is both efficacious and tolerable. Similar low dosing levels in children have also proven successful, but data in pregnant women remains limited. Due to its low cost and proven efficacy indinavir remains a key component of HIV/AIDS treatment in resource-limited settings.
Improved purification and biologic activities of staphylococcal toxic shock syndrome toxin 1

An improved method for producing highly purified toxic shock syndrome toxin 1 (TSST-1) by preparative isoelectric focusing in a Bio-Rad Rotofor cell and then chromatofocusing is described. Purification to homogeneity was confirmed by silver staining after sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE; 50 micrograms of protein was loaded), by immunoblotting with polyclonal rabbit antiserum raised against the crude culture supernatant used for purification, and by autoradiography after iodination and SDS-PAGE. Biologic activity was demonstrated by mitogenicity and cytokine induction (tumor necrosis factor alpha [TNF-alpha], interleukin 1-beta [IL-1 beta], and IL-6) of human peripheral blood mononuclear cells (PBMCs) and by lethality in New Zealand White rabbits following subcutaneous infusion. In contrast to commercial TSST-1 preparations, our TSST-1 preparation required the presence of both monocytes and T cells for the induction of TNF-alpha and IL-1 beta from human PBMCs. A 46-kDa contaminating protein in the commercial TSST-1 preparation, identified as staphylococcal lipase, was likely responsible for the induction of TNF-alpha and IL-1 beta from human monocytes in the absence of T cells, a biologic activity falsely attributed to purified TSST-1. Our improved purification procedure for TSST-1 provides a high yield and is both more rapid and less labor intensive than previously reported methods. Furthermore, our studies clearly demonstrate the need for stringent methods of purity assessment of TSST-1 preparations before ascribing to them their potent biologic activities.
The adoption of the logical framework in international development projects: a survey of non-governmental organizations

Abstract Non-governmental organizations (NGOs) play a fundamental role in International Development but their projects often lack efficiency and effectiveness. A key aspect is the proper use of project management tools and methodologies. The Logical Framework (LF) has been suggested as a key tool in this sector. However, the extent and impact of its use by NGOs is still not known. Based on almost 500 questionnaires collected from project managers working on International Development (ID) projects in NGOs around the world, we show that the LF is broadly adopted, especially for large projects and ‘soft’ projects. Moreover, we demonstrate that when used in the various phases of a project’s life-cycle, the LF contributes significantly to the achievement of superior project impact.
Cooperation enforcement for packet forwarding optimization in multi-hop ad-hoc networks

Ad-hoc networks are independent of any infrastructure. The nodes are autonomous and make their own decisions. They also have limited energy resources. Thus, a node tends to behave selfishly when it is asked to forward the packets of other nodes. Indeed, it would rather choose to reject a forwarding request in order to save its energy. To overcome this problem, the nodes need to be motivated to cooperate. To this end, we propose a self-learning repeated game framework to enforce cooperation between the nodes of a network. This framework is inspired by the concept of “The Weakest Link” TV game. Each node has a utility function whose value depends on its cooperation in forwarding packets on a route as well as the cooperation of all the nodes that form this same route. The more these nodes cooperate the higher is their utility value. This would establish a cooperative spirit within the nodes of the networks. All the nodes will then more or less equally participate to the forwarding tasks which would then eventually guarantee a more efficient packets forwarding from sources to respective destinations. Simulations are run and the results show that the proposed framework efficiently enforces nodes to cooperate and outperforms two other self-learning repeated game frameworks which we are interested in.
Randomized study of initial versus late chest irradiation combined with chemotherapy in limited-stage small-cell lung cancer. Aarhus Lung Cancer Group.

PURPOSE To evaluate if the timing of chest irradiation with respect to chemotherapy would influence survival and local and distant control in patients with limited-stage small-cell lung cancer (LSCLC). PATIENTS AND METHODS From 1981 to 1989, 199 consecutive patients with LSCLC were randomly allocated to receive initial chest irradiation (ICI; n = 99) or late chest irradiation (LCI; n = 100) given 18 weeks delayed. Both groups received the same nine cycles of combination chemotherapy: three cycles of cisplatin and etoposide and six cycles of cyclophosphamide, doxorubicin, and vincristine. In the first part of the study, prophylactic cranial irradiation (PCI) was only given to patients randomized to ICI, but after inclusion of 42 patients in the LCI arm, the protocol was changed, so that all patients received PCI independent of the timing of the chest irradiation (CI). A total of 157 patients received PCI with a radiation dose of 25 Gy in 11 fractions. RESULTS The timing of radiotherapy had no significant effect on the 2-year overall survival rate (20% after ICI v 19% after LCI, P = .4) or the 2-year in-field recurrence rate (72% after ICI v 68% after LCI, P = .2). Median survival durations were 10.5 (ICI) and 12.0 (LCI) months. Similarly, no difference in the 2-year incidence of CNS recurrences was found between the 2 arms in patients who received PCI (19% after ICI v 13% after LCI, P = .24). Bone marrow toxicity was acceptable, as 15% developed World Health Organization (WHO) grade 4 leukocytopenia and 4% grade 4 thrombocytopenia. Grade 4 leukocytopenia was more pronounced in the ICI group. There was no difference in the frequency and severity of other toxicities between the 2 groups. CONCLUSION Timing of CI did not significantly influence the incidence of in-field recurrences, CNS recurrences, or overall survival.
Current and Emerging Therapies for the Management of Bipolar Disorders

Bipolar disorder is a complex condition to treat because agents that may be effective for a specific phase may not be effective for other phases, or may even worsen the overall course of the illness. Over the last decade there has been an increase in research activity in the treatment of bipolar illness. There are now several agents that are well established for the treatment of acute mania (lithium, divalproex, carbamazepine, nearly all antipsychotics), acute bipolar depression (lamotrigine, quetiapine, olanzapine/fluoxetine combination), and relapse prevention (lithium, lamotrigine, divalproex, most second generation antipsychotics). There are also novel treatments that are being studied for all three phases. These include eslicarbazepine, cariprazine, MEM-1003, memantine, tamoxifen and pentazocine for acute mania; pramipexole, modafinil, armodafinil, divalproex, lurasidone, agomelatine, cariprazine, lisedexamfetamine, riluzole, RG-2417, bifeprunox, ropinirole, GSK1014802, and magnetic stimulation for bipolar depression; and asenapine, lurasidone, and cariprazine for relapse prevention. Additionally, there are accumulating data that antidepressants, particularly serotoninergic ones, are not particularly effective in acute bipolar depression and may worsen the course of the illness.
Overview of the TREC 2012 Medical Records Track

The TREC Medical Records track fosters research that allows electronic health records to be retrieved based on the semantic content of free-text fields. The ability to find r ecords by matching semantic content will enhance clinical care and support the secondary use of medical records in clinical trials and epidemiological studies. TREC 2012 is the sophomore year of the track, which attracted 24 participating research groups. The track repeated the cohort-finding task from its initial y ear. This task is an ad hoc search task in which systems search a set of de-identified clinical reports to identify co horts for (possible) clinical studies. A topic statement fo r the task describes the criteria for inclusion in a study, and a sy stem returns a list of “visits” ordered by the likelihood tha t the inclusion criteria are satisfied. Physicians created fif ty topics and performed relevance judgments for the track. Top-performing groups each used some sort of vocabulary normalization device specific to the medical domain, supporting the hypothesis that language use within electronic health records is sufficiently different from general use to warrant domain-specific processing. Such devices mus t be used carefully, however, as multiple groups also demonstrated that aggressive use harms baseline performance. Exploiting human expertise through manual query construction proved most effective. Today’s electronic health record (EHR) systems generally p rovide access to records based on structured fields, data elements in the record that have been coded to allow effective access. Yet the majority of the content of a record is often in the provider’s notes and other free-text fields that are no t so structured. Free-text allows providers to express nuan ce and exceptional circumstances that are precluded—by defini tion—from being captured in coded fields. Thus EHR system ease-of-use and record quality concerns argue for the continuing use of free-text, provided that that content can be effectively searched. The TREC Medical Records track was established to focus a research community on the problem of enabling content-based access to the free-text fi elds of EHRs and to build the infrastructure necessary for such research.
Parametric Dimensioning and Enhancements of a Path Prediction Algorithm

To meet the growing requirements for resource management schemes in the context of mobile and wireless computing, path prediction algorithms are gaining more attention and are being extensively examined. Path prediction allows the network to enhance the user quality of service. A parametric dimensioning of a path prediction algorithm based on learning automata is presented. The algorithmic parameter values are optimised for maximum prediction accuracy. Furthermore, two add-on mechanisms of the path prediction algorithm are introduced, and their performance is evaluated through simulations.
Conspecifics as informers and competitors: an experimental study in foraging bumble-bees

Conspecifics are usually considered competitors negatively affecting food intake rates. However, their presence can also inform about resource quality by providing inadvertent social information. Few studies have investigated whether foragers perceive conspecifics as informers or competitors. Here, we experimentally tested whether variation in the density of demonstrators (‘none’, ‘low’ and ‘high’), whose location indicated flower profitability, affected decision-making of bumble-bees Bombus terrestris. Bumble-bees foraged on either ‘simple’ (two colours) or ‘complex’ (four colours) artificial floral communities. We found that conspecifics at low density may be used as sources of information in first flower choices, whereas they appeared as competitors over the whole foraging sequence. Low conspecific densities improved foragers' first-visit success rate in the simple environment, and decreased time to first landing, especially in the complex environment. High conspecific densities did not affect these behavioural parameters, but reduced flower constancy in both floral communities, which may alter the efficiency of pollinating visits. These results suggest that the balance of the costs and benefits of conspecific presence varies with foraging experience, floral community and density. Spatio-temporal scales could thus be an important determinant of social information use. This behavioural flexibility should allow bumble-bees to better exploit their environment.