bluuebunny/crossref_metadata_2025_split huggingface dataset:
ICR142 Benchmarker: evaluating, optimising and benchmarking variant calling performance using the ICR142 NGS validation series
Authors: Ruark Elise , Holt Esty , Renwick Anthony , Münz Márton , Wakeling Matthew , Ellard Sian , Mahamdallie Shazia , Yost Shawn , Rahman Nazneen 
Published: October 2018

Evaluating, optimising and benchmarking of next generation sequencing (NGS) variant calling performance are essential requirements for clinical, commercial and academic NGS pipelines. Such assessments should be performed in a consistent, transparent and reproducible fashion, using independently, orthogonally generated data. Here we present ICR142 Benchmarker, a tool to generate outputs for assessing germline base substitution and indel calling performance using the ICR142 NGS validation series, a dataset of Illumina platform-based exome sequence data from 142 samples together with Sanger sequence data at 704 sites. ICR142 Benchmarker provides summary and detailed information on the sensitivity, specificity and false detection rates of variant callers. ICR142 Benchmarker also automatically generates a single page report highlighting key performance metrics and how performance compares to widely-used open-source tools. We used ICR142 Benchmarker with VCF files outputted by GATK, OpEx and DeepVariant to create a benchmark for variant calling performance. This evaluation revealed pipeline-specific differences and shared challenges in variant calling, for example in detecting indels in short repeating sequence motifs. We next used ICR142 Benchmarker to perform regression testing with DeepVariant versions 0.5.2 and 0.6.1. This showed that v0.6.1 improves variant calling performance, but there was evidence of minor changes in indel calling behaviour that may benefit from attention. The data also allowed us to evaluate filters to optimise DeepVariant calling, and we recommend using 30 as the QUAL threshold for base substitution calls when using DeepVariant v0.6.1. Finally, we used ICR142 Benchmarker with VCF files from two commercial variant calling providers to facilitate optimisation of their in-house pipelines and to provide transparent benchmarking of their performance. ICR142 Benchmarker consistently and transparently analyses variant calling performance based on the ICR142 NGS validation series, using the standard VCF input and outputting informative metrics to enable user understanding of pipeline performance. ICR142 Benchmarker is freely available at https://github.com/RahmanTeamDevelopment/ICR142_Benchmarker/releases.
Implementing a quality management system using good clinical laboratory practice guidelines at KEMRI-CMR to support medical research
Authors: Gumba Horace , Waichungo Joseph , Lowe Brett , Mwanzu Alfred , Musyimi Robert , Thitiri Johnstone , Tigoi Caroline , Kamui Martin , Berkley James A. , Ngetich Ronald , Kavai Susan , Kariuki Samuel 
Published: October 2018

Background: Good Clinical Laboratory Practice (GCLP) is a standard that helps ensure the quality and reliability of research data through principles of Good Laboratory Practice (GLP) and Good Clinical Practice (GCP). The implementation of GCLP includes careful documentation of procedures, competencies and safety measures. Implementation of GCLP is influenced by existing resources and quality systems, thus laboratories in low- and middle-income countries may face additional challenges. Methods: This paper describes implementation of Good Clinical Laboratory Practice (GCLP) at the Kenya Medical Research Institute-Center for Microbiology Research (KEMRI-CMR) as part of a quality system to support medical research. This study employed assessment, twinning (institutional mentorship) model, conducting relevant training workshops and Kaizen 5S approaches to implement an effective quality management system using GCLP standard. This was achieved through a collaboration between the KEMRI/Wellcome Trust Research Programme (KWTRP) and KEMRI-CMR. The aim was compliance and continuous monitoring to meet international GCLP standards in a way that could be replicated in other research organizations. Results: Following a baseline assessment in March 2017, training, mentorship and a cycle of quality audit and corrective action using a Kaizen 5S approach (sorting, setting in order, shining, standardizing and sustaining) was established. Laboratory personnel were trained in writing standard operating procedures and analytical plans, microbiological techniques, and good documentation practice. Mid-term and exit assessments demonstrated significant declines in non-conformances across all GCLP elements. KEMRI-CMR achieved GCLP accreditation in May 2018 by Qualogy Ltd (UK). Conclusions: Involving all the laboratory personnel in implementation of quality management system processes is critical to success. An institutional mentorship (twinning) approach shows potential for future collaborations between accredited and non-accredited organizations to accelerate the implementation of high-quality management systems and continuous improvement.
Comparison of the effectiveness of the Montreal Cognitive Assessment 7.2 and the Mini-Mental State Examination in the detection of mild neurocognitive disorder in people over 60 years of age. Preliminary study.
Authors: Sokołowska Natalia , Sokołowski Remigiusz , Polak-Szabela Anna , Mazur Ewelina , Podhorecka Marta , Kędziora-Kornatowska Kornelia 
Published: October 2018

Cel pracyAnaliza wiarygodności polskiej wersji MoCA 7.2 vs. MMSE w wykrywaniu łagodnych NCD z uwzględnieniem czułości i swoistości według punktów odcięcia.MetodaBadanie przekrojowe przeprowadzono na Katedrze i Klinice Geriatrii Collegium Medicum w Bydgoszczy, Uniwersytety Mikołaja Kopernika. Czas trwania badania wrzesień 2014 – grudzień 2015. W badaniu wzięło udział 131 uczestników, w tym 54 osoby przydzielono do grupy bez NCD, zaś 77 do grupy z mild NCD. Rekrutacja do obu grup odbywała się w oparciu o szczegółowe kryteria włączenia i wyłączenia.WynikiŚrednie punktacje MoCA 7.2 i MMSE wykazały istotne statystycznie różnicę między grupami bez i z łagodnym NCD . Optymalny punkt odcięcia w skali MoCA dla łagodnych NCD wyniósł 24/25. Optymalny punkt odcięcia w skali MMSE dla łagodnych NCD wyniósł 28/29. W analizie krzywej ROC pole pod krzywą (AUC) dla MoCA było istotnie większe niż AUC dla MMSE.WnioskiMoCA 7.2 z większą czułością wykrywa łagodne NCD niż MMSE. Proponujemy zastosowanie punktu odcięcia dla MoCA 24/25 który charakteryzuje się większą czułością niż rekomendowany punkt odcięcia 25/26. MoCA 7.2 zatem może być wykorzystywana przez podstawową służbę zdrowia oraz w praktyce geriatrycznej jako narzędzie przesiewowe w wykrywaniu wczesnych zaburzeń poznawczych.
Orientação Profissional na Adolescência: Uma Revisão Sistemática
Authors: Lima Maria Nayara Bezerra , Maranhão Thércia Lucena Grangeiro 
Published: October 2018

O presente artigo tem como objetivos compreender o desenvolvimento humano na fase da adolescência e tratar sobre as influências que permeiam a escolha profissional desse sujeito. Para tanto, observa-se o que os estudos atuais comentam sobre a adolescência em si e sugere-se como a Orientação Profissional pode contribuir para o desenrolar dessas escolhas, como uma ferramenta de auxílio ao sujeito. Esta pesquisa foi delineada por meio da revisão sistemática por metassintese da literatura dos textos e estudos que abordam o tema, que foram selecionados entre o período de 2012 e 2016, retirados das bases de dados do PubMed, Scielo e PepSIC. Percebeu-se através deste trabalho que os fatores sociais, culturais, familiar e econômico influenciam tanto no desenvolvimento da adolescência quanto no momento da escolha de sua profissão.
Eventos Gastronômicos: A nova Estratégia de Marketing e divulgação utilizada pelos Restaurantes
Authors: Sant´Anna André Luís , Silva Daniele Bastos da 
Published: October 2018

Os eventos de gastronomia têm assumido importante papel no cenário social na atualidade, não só por representar uma oportunidade de negócio, mas também por configurar uma forma de incentivo ao resgate de técnicas culinárias. É também uma forma de valorização da cultura regional, suas comidas, temperos e iguarias próprias de cada lugar. Essa forma de turismo, tem atraído o interesse dos consumidores, revelando-se uma importante estratégia de marketing. Este artigo discute o marketing na gastronomia e suas tendências atuais. Os resultados demonstraram que os eventos gastronômicos, têm se apresentado como método eficaz de divulgação de novos pratos e, de criação de laços entre o consumidor e a proposta dos restaurantes.
Marketing Digital: Um Estudo Multicasos em Bares e Restaurantes de Crato-Ce
Authors: Araujo Jackson Bruno Feitosa , Albuquerque Joyce Da Silva 
Published: October 2018

Essa pesquisa tem por objetivo analisar se as empresas selecionadas para esse estudo, nas quais trabalham no seguimento de bares e restaurantes em Crato-CE, tem se utilizado das ferramentas do marketing digital. Essa pesquisa é definida como um estudo de multicasos, seguindo uma abordagem qualitativa, com característica descritiva, de meios bibliográficos. A pesquisa foi realizada em três estabelecimentos localizados na cidade de Crato-CE. Para a coleta de dados foi realizada uma entrevista junto aos gestores e/ou proprietários dos estabelecimentos. Os dados foram analisados por meio da análise de conteúdo. Os resultados encontrados apontam que o marketing digital vem sendo praticado por bares e restaurantes da cidade do Crato-CE, mas de uma forma ainda amadora, por conta da inviabilidade financeira em manter um funcionário exclusivo para essa função e alto custo na contratação de uma empresa especializada para a produção de conteúdo digital de qualidade.
Aplicação do Modelo Box-Jenkins na Previsão da Produção de Automóveis
Authors: Pereira Séfora Laissa Alcântara , Lima José Eduardo De Carvalho 
Published: October 2018

O setor automotivo executa um papel indispensável para o crescimento de um país cabido a sua eficácia integrada. Ultimamente, o setor automobilístico vem passando por momentos cíclicos, gerando complicações no planejamento de ações. Por isso, tem sido um objeto de estudo direcionado tanto para procedimentos de propagação e produção, quanto para a contribuição na atuação de decisões. Com isso, apresenta uma necessidade de prever sua produção por obter influência no favorecimento de resoluções viáveis. O presente artigo tem como objetivo analisar um modelo de previsão de séries temporais por meio da metodologia Box-Jenkins, que se adeque às características da produção do setor automotivo, com o intuito da realização da previsão de produção de automóveis brasileiros. Foi utilizada uma série de produção mensal em recorte temporal de 2007 a junho de 2018 com dados da ANFAVEA, concluindo o modelo mais apto: SARIMA (1,0,0) (1,0,0), com tendência desfavorável, conforme crises ocorridas atualmente.
Temper Bead Welding of S460N Steel in Wet Welding Conditions
Authors: Tomków J. , Fydrych D. , Rogalski G. , Łabanowski J. 
Published: October 2018

Abstract
Wet welding is the most common method of welding in water environment. It is most often used for repairing of underwater parts of offshore structures. However, the water as a welding environment causes an increase of susceptibility of steels to cold cracking. For underwater constructions high strength low alloy (HSLA) steel are widely used. In wet welding condition a HSLA steel is characterized by high susceptibility to cold cracking. Temper Bead Welding (TBW) was chosen as a method to improve the weldability of S460N steel. The studies showed that TBW technique causes significant decrease of maximum hardness of heat affected zone (HAZ). The largest decrease in hardness occurred in specimens with the pitches in range 66-100%.
Evaluation of Microstructure and Selected Mechanical Properties of Laser Beam Welded S690QL High-Strength Steel
Authors: Tuz L. 
Published: October 2018

Abstract
The paper presents results of microstructure and mechanical properties investigation of laser beam welded high-strength steel. Material for test was non-alloyed steel with yield strength of 690 MPa after quenching and tempering in delivery condition. Research carried out on the butt-welded joints shows fine-grain martensitic-bainitic structure of base metal and in the weld. Investigations of mechanical properties revealed the softened zone in HAZ where the hardness decrease without microstructural changes was observed. Moreover, an influence of softened zone and HAZ width on impact strength was observed where the occurrence of lower hardness led to fracture path deviation phenomenon.
Lepidium meyenii(Maca) – multidirectional health effects – review
Authors: Kasprzak Dorota , Jodlowska-Jedrych Barbara , Borowska Katarzyna , Wojtowicz Agnieszka 
Published: October 2018

AbstractLepidium meyenii, commonly known as Maca, is a Peruvian plant that grows high in the Andes, in areas over 4,000 meters above sea level. Its composition contains almost all of the essential amino acids and twenty of the essential fatty acids needed by man, as well as many vitamins, minerals and several sterols and glucosinolates. The specific and unique unsaturated acids and amides found only in this plant are the macaenes and macamides. Most valuable ingredients are contained within the hypocotyls. Maca comes in three forms, based on its root colour, yellow, red and black. Although used individually, consumption recommendations are usually for a mix of all three. Since Inca times, it has been considered as super food.Although now mostly used in the form of a supplement, ongoing research does not exclude future applications of Maca as medicine. It is attributed to have an effect on male fertility (adding energy and vitality), and in regulating hormone secretion. In animal studies, Maca has been shown to have antioxidant, neuroprotective effects and antiviral activity. Moreover, it has been demonstrated to alleviate the effects of depression. In addition, there are reports that Maca reduces the development of cancer and osteoporosis, improves memory, facilitates concentration and alleviates the symptoms of menopause. The obtained results, however, require further analysis to confirm its effect. Currently, there is little information on toxicity, so there is a need for specialized research in this area, and on-going research concerns the most effective variety and form of preparation of Maca for administration to achieve best effects. The potential of Maca as medicine exists. The increasing pan-continental popularity of Maca has created the need for a better understanding of its action mechanisms.
Assessment of noggin level in pulmonary arterial hypertension patients
Authors: Al-Khafaji Khama’al Hussein Abod , Al-Dujaili Mohammed Noori , Al-Dujaili Arshad Noori Ghani 
Published: October 2018

Abstract
Noggin (NOG) is a protein that is involved in the development of many body tissues, including nerve tissue, muscles, and bones. The NOG protein plays a role in germ layer-specific derivation of specialized cells. Via NOG, the formation of neural tissues, the notochord, hair follicles, and eye structures arise from the ectoderm germ layer, while noggin activity in the mesoderm gives way to the formation of cartilage, bone and muscle growth. In the endoderm, NOG is involved in the development of the lungs.
NOG dimerizes by a core body, while two pairs of strands extend from it preceding by an N-terminal segment (called a clip segment) with approximately 20 amino acids. This clip twists around the BMP ligand and obstructs the growth factor surfaces from binding to both BMP receptors type I and type II. NOG binding to some BMPs inhibits these from combining and thus activating receptors of BMP, therefore, blocking non-Smad and Smad-dependent signaling.
The anti-proliferative noggin has particular effects in pulmonary arterial smooth muscle cells (PASMCs) that are exposed to specifically down regulated hypoxia. This occurs together with the BMP4 up-regulation levels of protein, and this imbalance between NOG and BMP4 consequence results in the activation and development of PAH disease. Our study consists of numerous examinations so as to explore new biomarkers in order to determine onset of PAH, and to discover the relationship between NOG serum level and gender, age, body mass index (BMI), waist circumferences (WC), smoking, types of PAH primaries and secondaries, as well as their grade.
The frequency of risk factors for pulmonary tuberculosis in tuberculosis patients in Babol, Northern Iran, during 2008-2015
Authors: Shokri Mehran , Najafi Rahmatollah , Niromand Jalal , Babazadeh Arefeh , Javanian Mostafa , Bayani Masomeh , Afra Zahra Geraili , Ebrahimpour Soheil 
Published: October 2018

Abstract
In the current study, we investigated the risk factors for tuberculosis in patients admitted to the Ayatollah Rouhani Hospital in Babol, north of Iran. This cross-sectional study was conducted on 207 patients with proven tuberculosis during the years 2008-2015. Demographic data such as age and sex, smoking, history of underlying illness, illness symptoms, and laboratory results were collected and analyzed at a significant level of less than 0.05. From 207 patients, 136 were male (65.7%), 71 were female (34.3%), and 76 of them (37.3%) were smokers. It is notable that most patients (29.5%) were over the age of 71. The relation between age profile and being tuberculosis has been studied, but the co-relation was found to be not significant. The most common complaint has been coughing (60.9%).
While investigating underling diseases, the most common illness has found to be Diabetes (11.3%). Based our finding, there was a significant relationship between gender and smoking with tuberculosis. Accordingly, as smoking is one of the risk factors for tuberculosis, smokers and non-smokers should be informed that smoking carries the risk for tuberculosis. Such a program should be particularly addressed to males.
Maximum Likelihood Estimation in a Semicontinuous Survival Model with Covariates Subject to Detection Limits
Authors: Bernhardt Paul W. 
Published: October 2018

Abstract
Semicontinuous data are common in biological studies, occurring when a variable is continuous over a region but has a point mass at one or more points. In the motivating Genetic and Inflammatory Markers of Sepsis (GenIMS) study, it was of interest to determine how several biomarkers subject to detection limits were related to survival for patients entering the hospital with community acquired pneumonia. While survival times were recorded for all individuals in the study, the primary endpoint of interest was the binary event of 90-day survival, and no patients were lost to follow-up prior to 90 days. In order to use all of the available survival information, we propose a two-part regression model where the probability of surviving to 90 days is modeled using logistic regression and the survival distribution for those experiencing the event prior to this time is modeled with a truncated accelerated failure time model. We assume a series of mixture of normal regression models to model the joint distribution of the censored biomarkers. To estimate the parameters in this model, we suggest a Monte Carlo EM algorithm where multiple imputations are generated for the censored covariates in order to estimate the expectation in the E-step and then weighted maximization is applied to the observed and imputed data in the M-step. We conduct simulations to assess the proposed model and maximization method, and we analyze the GenIMS data set.
Running Economy and Blood Lactate Accumulation in Elite Football Players with High and Low Maximal Aerobic Power
Authors: Nilsson Johnny , Cardinale Daniele 
Published: October 2018

Abstract
The purpose was to determine running economy and lactate threshold among a selection of male elite football players with high and low aerobic power. Forty male elite football players from the highest Swedish division (“Allsvenskan”) participated in the study. In a test of running economy (RE) and blood lactate accumulation the participants ran four minutes each at 10, 12, 14, and 16 km•h−1 at horizontal level with one minute rest in between each four minutes interval. After the last sub-maximal speed level the participants got two minutes of rest before test of maximal oxygen uptake (VO2max). Players that had a maximal oxygen uptake lower than the average for the total population of 57.0 mL O2•kg−1•minute−1 were assigned to the low aerobic power group (LAP) (n=17). The players that had a VO2max equal to or higher than 57.0 mL O2•kg−1•minute−1 were selected for the high aerobic power group (HAP) (n=23). The VO2max was significantly different between the HAP and LAP group. The average RE, measured as oxygen uptake at 12, 14 and 16km•h−1 was significantly lower but the blood lactate concentration was significantly higher at 14 and 16 km•h−1 for the LAP group compared with the HAP group.
Convective conditions and dissipation on Tangent Hyperbolic fluid over a chemically heating exponentially porous sheet
Authors: Patil Mamata , Mahesha  , Raju C.S.K. 
Published: October 2018

Abstract
In this present analysis we investigated the steady-state magnetohydrodynamic boundary layer flow of tangent hyperbolic fluid over an exponentially stretching surface in the presence of heat source and chemical reaction. The chemical reaction with combination of exponential surface has significance in many industrial and manufacturing systems. The partial nonlinear differential equations are transformed into ordinary differential equations by using the similarity conversion and the accomplished boundary layer ordinary differential equations are elucidated numerically by using Shooting technique. The effects of numerous non-dimensional governing factors on velocity, temperature and concentration profiles were depicted graphically and analyzed in detail. The numerically computed results of Skin friction factor, Nusselt and Sherwood numbers are presented in tabular form for suction and injection cases separately.Heat transfer rate at the surface increases with increasing values of power law of index and whereas it declines with the magnetic field, heat source and chemical reaction parameters. It observed that Biot number enhances the skin friction, Nusselt number and decrease the Sherwood number.Heat transfer rate and mass transfer rate increases and skin friction decreases with increasing Eckert number.
Effect of Injection Angle on Performance of Full Coverage Film Cooling with Opposite Injection Holes
Authors: Mishra Mukesh Prakash , Sahani A K , Chandel Sunil , Mishra R K 
Published: October 2018

Abstract
Characteristics of full coverage film cooling of an adiabatic flat plate are studied for opposite injection of coolant at different angles. Two in-line adjacent rows of cooling holes injecting in opposite directions are considered in this study. The cooling performance is compared with the configurations having forward and reverse injecting holes at similar injection angles. The holes are arranged in an array of 20 rows with equal spacing both span-wise and stream-wise. Computational analyses are carried out over a wide range of velocity ratios (VR) of practical importance ranging from 0.5 to 2.0 at density ratio of about 1.0. Injection angle and velocity ratio are found to have strong influence on film cooling effectiveness of opposite injection. At low velocity ratio of VR=0.5, film cooling performance of opposite injection at 45° is found better than at other angles, i. e. 30° and 60°. At higher velocity ratios, injection at 30° is found superior. Film cooling effectiveness becomes insensitive to velocity ratios at higher range for 45° and 60° injections. Evolution of effusion film layer and interaction between coolant and primary flow is also studied in this paper.