bluuebunny/crossref_metadata_2025_split huggingface dataset:
Sierra platinum: a fast and robust peak-caller for replicated ChIP-seq experiments with visual quality-control and -steering
Authors: Müller Lydia , Gerighausen Daniel , Farman Mariam , Zeckzer Dirk 
Published: September 2016

Abstract
Background
Histone modifications play an important role in gene regulation. Their genomic locations are of great interest. Usually, the location is measured by ChIP-seq and analyzed with a peak-caller. Replicated ChIP-seq experiments become more and more available. However, their analysis is based on single-experiment peak-calling or on tools like PePr which allows peak-calling of replicates but whose underlying model might not be suitable for the conditions under which the experiments are performed.

Results
We propose a new peak-caller called ‘Sierra Platinum’ that allows peak-calling of replicated ChIP-seq experiments. Moreover, it provides a variety of quality measures together with integrated visualizations supporting the assessment of the replicates and the resulting peaks, as well as steering the peak-calling process.

Conclusion
We show that Sierra Platinum outperforms currently available methods using a newly generated benchmark data set and using real data from the NIH Roadmap Epigenomics Project. It is robust against noisy replicates.
Anti-C1q autoantibodies from patients with systemic lupus erythematosus induce C1q production by macrophages
Authors: Thanei Sophia , Trendelenburg Marten 
Published: September 2016

Abstract
Antibodies against C1q (anti-C1q) are frequently found in patients with systemic lupus erythematosus (SLE). The anti-C1q antibodies strongly correlate with the occurrence of lupus nephritis and low-circulating C1q levels. Previous studies have demonstrated that myeloid cells, i.e., dendritic cells and macrophages, are a major source of C1q. However, a direct effect of anti-C1q on C1q secretion by macrophages has not yet been established. In the present study, we investigated the C1q secretion profile of in vitro human monocyte-derived macrophages (HMDMs) obtained from healthy donors and from patients with SLE. The effect of SLE patient-derived anti-C1q bound to immobilized C1q (imC1q) and imC1q alone on HMDMs was investigated by C1q secretion levels, the expression of membrane-bound and intracellular C1q using flow cytometry and ImageStreamX technology, and testing the ability of secreted C1q to activate the classical pathway (CP) of the complement. Bound anti-C1q induced significantly greater C1q secretion levels as compared with imC1q alone or healthy donor IgG. The extent of C1q secretion by HMDMs correlated with IgG anti-C1q levels of patients with SLE but not of healthy controls. Furthermore, bound autoantibodies and imC1q induced continuous and de novo C1q synthesis as evident by the intracellular C1q content, which correlated with C1q secretion levels. Finally, secreted C1q was able to activate the CP, as reflected by C4b deposition. Interestingly, anti-C1q–dependent C1q secretion could also be observed in SLE patient-derived cells. In conclusion, our data indicate that imC1q-bound anti-C1q strongly stimulate the C1q production by HMDMs. Anti-C1q–induced C1q secretion might be an important immune-modulatory factor in SLE.
NATIONAL CUSTOMS AND MENTALITY AS TOURIST ATTRACTIONS IN RUSSIAN REGIONS IN THE SECOND HALF OF XIX – EARLY XX CENTURIES
Authors: Руцинская Ирина , Rutsinskaya Irina 
Published: September 2016

With the development of mass tourism in Russian province the process of compiling a list of regional attractions was started. From the beginning, this list comprised not only historical and cultural monuments, natural sites and museums, but also everyday life, mentality, customs and traditions of the nations and ethnic groups that lived in the region. The methods that were used to describe them in provincial guides of the second half of XIX – early XX centuries also had historical and cultural features.
Taking as an example three Russian regions, Volga region, Crimea and Siberia, this article analyzes the ways, methods, forms and contradictions of transforming national specificity into tourist attractions. Particular attention is di- rected to the ratio of information and advertising, objective and subjective, tolerance and bigotry in these descriptions. A regional guide is regarded as the most important historical source able not only to transmit the empirical information about a specific area, but also act as a form of representation of ideas, norms, and stereotypes prevailing in the regional society.
MYTHOLOGICAL TOURISM SPACE OF SAMARA LAND: REALITIES AND OPPORTUNITIES
Authors: Соломина Ирина , Solomina Irina 
Published: September 2016

Article is devoted to the study of mythological tourism space of Samara land. Mythological tourism space exists equally with other types of tourism spaces of the region: cultural and historical, recreational, service, ethnic, sporting, scien- tific to and other. The author reveals the mail features of the mythological tourism space. It is a system consisting of geographical space, mythological cultural heritage of territory and it use in tourism practices. Based on the system approach all elements of mythological tourism space are identified and presented as applied to Samara region.
All variety of myths is divided on the groups; in more detail the topological, religious, myths about caves, folklore, and historical myths are researched in the article. The author analyzes certain tourism practices, where the use of myths is possible and makes the conclusion that, in spite of abundant base and various studies of myths, their use in tourism of Samara land still insignificantly, and mythological tourism space is on the early stages of development. In this connection, Samara land needs to not only study the myths, but actively to involve them in tourism space of cities and settlements, be- cause development of mythological tourism space makes territory unique and contributes to increasing the tourist flows. The study was supported by Russian Humanitarian Research Foundation Grant 14-03-00036 «Spatial-Temporal Diagnostics of a City».
Modifikasi Permukaan Elemen Peredam Bising Dengan Profil Berbentuk Prisma
Authors: Azimut Hanif 
Published: September 2016

<p class="AbstractText">The influence of surface modification by using prism shaped profile on the sound absorption of absorber element was investigated experimentally. A prime number based configuration of the two types opened and closed type rism shaped profile inclusion was tested by using impedance tube according ASTM E1050 standard. The result shows that sound absorption at low frequency band below 200 Hz increased with the increasing of closed prism number. It is related to the coupling effect between the cavities of the absorber element and the prisms that changes reactance of the coupled structure. In the other side, a half wave resonance like effect occur on the use of opened prisms inclusion, which is increase the sound absorption performance at mid to high frequency range between 800 Hz to 1,25 kHz. </p>
O ENSINO DOS SABERES DA CULINÁRIA REGIONAL: experiência docente na amazônia paraense no município de Vigia
Authors: De Castro Maraísa Andrade , Castro Cleber Augusto Trindade , Braga Debora Cordeiro 
Published: September 2016

Este artigo trata-se de um relato deexperiênciadocentevivenciadanoInstituto Federal de Educação, Ciência e Tecnologia do Pará, Polo Avançado de Vigia de Nazaré, no processo de planejamento e ministração da disciplina Saberes da Culinária Regional para o Curso Técnico Subsequente em Turismo e Hospitalidade, cujo projeto pedagógico experimental, baseado na metodologia da alternância, adaptado de um modelo da educação rural, teve sua estrutura curricular organizada via temas geradores, conforme a proposta freireana de educação, que prevê a abordagem do conhecimento cientí co através dos saberes empíricos dos estudantes. Por meio do levantamento dos hábitos alimentares dos discentes e de entrevistas com idosos da comunidade, o conteúdo central da disciplina foi desenvolvido, e após leituras de textos, visitas técnicas e atividades práticas e lúdicas, os futuros técnicos sugeriram proposições para valorização da culinária típica da região, e posteriormente realizaram um evento objetivando sensibilizar o empresariado sobre essa questão. O artigo tem como objetivo apresentar uma abordagem de ensino temática diferenciada que pode contribuir para o aprimoramento das práticas de ensino em qualquer instância, assim como inspirar docentes para elaboração de planos de aula criativos. Dentre os resultados obtidos, destaca-se a re exão sobre as modi cações nos hábitos alimentares da comunidade.Palavras-chave: Ensino técnico. Hábitos alimentares. Culinária regional.
A CONTRIBUIÇÃO DE UM GLOSSÁRIO TRILÍNGUE DE TURISMO DE AVENTURA PARA A FORMAÇÃO E ATUAÇÃO DO PROFISSIONAL DE TURISMO
Authors: Santana Diego Henrique da Conceição , Dos Santos Patrícia Lais Ramos , Delvizio Ivanir Azevedo 
Published: September 2016

O profissional do turismo deve ter uma formação multidisciplinar, envolvendo diversas áreas e, ao mesmo tempo, com foco em segmentos especí cos do mercado, além do conhecimento de pelo menos uma língua estrangeira. Este artigo apresenta uma pesquisa que tem como objetivo a elaboração de um Glossário Trilíngue de turismo de aventura (português-inglês- espanhol). A elaboração do glossário é importante para facilitar a comunicação entre os pro ssionais da área. Além disso, seu processo de elaboração pode contribuir para a formação do pro ssional do turismo, constituindo uma ferramenta de ensino- aprendizagem da terminologia usada na área. O glossário é desenvolvido por meio de pesquisas individuais realizadas por alunos de graduação em Turismo, que são responsáveis por um conjunto de termos e pela busca de seus equivalentes em inglês ou espanhol. A metodologia da pesquisa é baseada em Barros (2004) e Krieger & Finatto (2004). O projeto é nanciado pela FAPESP.Palavras-chave: Terminologia. Glossário Trilíngue. Turismo de aventura.
A COZINHA DE FUSÃO ENCONTRA O RIO: peixes nativos amazônicos como alternativa para a culinária japonesa
Authors: Kato Hellen Christina de Almeida , Oliveira Luana de Sousa , Maciel Érika da Silva , De Freitas Alexandre Aires 
Published: September 2016

A culinária japonesa, desde a década de 80, se expande no Brasil, conservando técnicas e ingredientes de sua origem combinadas a inovações relacionadas à culinária americana, sendo assim, bastante dependente de ingredientes importados. Através da cozinha de fusão, esse trabalho sugere o uso de espécies de peixes nativos cultivados na Amazônia como alternativa gastronômica para esse mercado. Foi realizado um experimento envolvendo chefs de cozinha amazônica e japonesa desenvolvendo seis preparações a base de pirarucu e tambaqui. Estas foram avaliadas por um painel treinado de 24 profissionais da aqüicultura e gastronomia japonesa. Avaliou-se a aceitação e seus atributos utilizando uma escala hedônica com aplicação de questionário estruturado de intenção de compra. Todos os pratos obtiveram ampla aceitação, tendo destaque o Teppan de pirarucu. Conclui-se que o uso dos peixes nativos de cultivo da Amazônia, tambaqui e pirarucu, é uma alternativa viável para a inovação da gastronomia japonesa no Brasil, através da culinária de fusão.Palavras-chave: Amazônia; Cozinha fusion; Peixes de água doce.
Aspectos biológicos e socioeconômicos da pesca esportiva no "Deck do Pescador" de Santos (SP, Brasil)
Authors: Barrella Walter , Cachola Natália , Ramires Milena , Rotundo Matheus Marcos 
Published: September 2016

Sport fishing is one of the fastest growing leisure categories in today's world. In Brazil it is also practiced as a sport or leisure, noncommercial purposes. However, few studies are conducted in order to manage this activity in a sustainable manner. This study aimed to analyze sport fishing, practiced the "Fisherman’s Deck" (Santos, SP, Brazil), describing their biological characteristics and the socioeconomic profile of its participants. We interviewed 150 fishermen, aged between 12 and 82 years, 85% male. The majority (56%) has a college degree and resides near the fishing spot. The target species are swordfish (Trichiurus lepturus), bass (Centropomus spp.), Hake (Cynoscion spp.), betara (Menticirrhus americanus), corvina (Micropogonias furnieri) and hake-yellow (Macrodon atricauda). Three types of fishing, bottom fishing, surface and crab were identified. Fishermen indicated that fish stocks have declined due to increased commercial fishing and pollution. Each fishery lasted on average 5.0 (S.D.=2.1) hours and captured 850,8g (S.D.=962.5) g / angler / day. The estimated catch for the study period was 1314.8 (S.D.=1919.1) kg, representing less than 3% of fish landed by commercial fishing. Therefore, sport fishing from "Fisherman’s Deck" causes low impact to regional fish stocks.
Graphic Design for the Real World? Visual Communication’s Potential in
Design Activism and Design for Social Change
Authors: Bichler Katrin Elisabeth , Beier Sofie 
Published: September 2016

This article examines graphic design’s role within design activism. It
outlines design activism in general and its relation to commercial design
culture in a consumerist economy. Thereafter it discusses persuasive
tendencies in graphic design and questions if its current contribution to
design activism is limited to its predominant narrow role of persuading for
“the good cause.” To illustrate the hypothesis that such a persuasive
approach lacks activist potential and thus social impact, cases that
represent traditional graphic-design activism are compared to alternative
approaches with an informative rather than persuasive character. The latter
cases exemplify how information design can challenge the status quo and
range from conventional leaflets to interactive tools and data
visualizations. The discussion explores how these cases work as a
non-commercial service to its audience, rather than solely solving
communicative problems for commissioning clients. It is argued that in this
way visual communication can intervene into problems on a functional level,
similarly to artifacts from design disciplines such as architecture and
industrial or product design.
Design, Knowledge, and Ignorance. Jude Chua's presentation for the Design
Concept Conference
Authors: Chua Jude 
Published: September 2016

The Royal Danish Academy of Fine Arts - Schools of Architecture, Design
and Conservation held a one-day conference discussing the design concept on
26 August 2016. This is Jude Chua's presentation of his article, "Design
Without Final Goals: Getting Around Our Bounded Rationality."
The development and numerical simulation of a plasma microreactor dedicated to chemical synthesis
Authors: Zhang Mengxue , Ognier Stephanie , Touati Nadia , Binet Laurent , Thomas Christophe , Tabeling Patrick , Tatoulian Michaël 
Published: September 2016

AbstractA plasma microreactor dedicated to chemical synthesis has been conceived and developed using soft-lithography techniques. In this study, we propose to use highly reactive species created by the plasma discharge to replace traditionally used chemical initiators. A dielectric barrier discharge plasma was generated under atmospheric pressure and then dispersed into a continuous liquid phase with a T-junction geometry. Injected metal electrodes made it possible for in situ optical observations with an intensified charge-coupled device camera. No signal was detected when analyzing the exhaust liquid by electron spin resonance (ESR) spectroscopy. Numerical simulations confirmed that only low quantities of hydroxyl radicals could diffuse into the liquid phase, giving a concentration of DMPO-OH of 10−6mol/l, below the detection limit of ESR.
Staff survey on the care for persons with dementia / Mitarbeiter/-innenbefragung zum Umgang mit Menschen mit Demenz
Authors: Rungg Christine , Angermair Aloisia , Costa Ursula , Neururer Sabrina , Moosbrugger Markus , Buchberger Waltraud , Kriegseisen-Peruzzi Melanie , Perkhofer Susanne 
Published: September 2016

Abstract
This pilot study at the University Hospital of Innsbruck aimed to interview employees in order to optimise the treatment of patients with dementia. Available data concerning prevalence of dementia in this hospital were analysed and show a slight increase in numbers.
Nurses at one inpatient department and one outpatient clinic completed a standardized questionnaire developed by the German Institute for Applied Nursing Research (dip, 2012). Dementia is a highly relevant topic for the participating nursing staff. Results show potential for improvement in pain management, assurance of continuity of services, and communication skills.
Nursing staff responded questions about emotional burden, based in their work with this group of patients. The emotional burden was rated as being higher in the inpatient department. Participants from both departments expressed their wish for better involvement of dementia clients’ relatives in the clinical work. Finally, the nursing staff’s needs for educational support was surveyed.
Additionally, six members of the patient transport service participated in a focus group interview. Specific types of burden related to handling patients with dementia, as well as wishes and requirements for improvement related to the patient transport for persons with dementia were expressed.
The survey shows both, the current state and further potential for improvement of the treatment of patients with dementia at the University Hospital of Innsbruck. Based on the results of this survey a continuing education programme meeting staff needs was developed as one of the measures resulting in the project aiming to improve the treatment of patients with dementia.
Direct decomposition theory under near-isomorphism for a class of infinite rank
torsion-free abelian groups
Authors: Blagoveshchenskaya Ekaterina , Strüngmann Lutz H. 
Published: September 2016

Abstract
Near-isomorphism is known as the right concept for classification theorems in the theory of almost completely decomposable groups.
As a natural generalization the authors extended in [6] the notion of near-isomorphism to Abelian groups of arbitrary rank. In this article we investigate non-isomorphic direct decompositions of a class of infinite rank torsion-free
abelian groups which were defined in [4] as special epimorphic images of
so-called almost rigid groups. A complete classification of such decompositions up to near-isomorphism is given.
Hybridization effect of coir fiber on physico-mechanical properties of polyethylene-banana/coir fiber hybrid composites
Authors: Prasad Nirupama , Agarwal Vijay Kumar , Sinha Shishir 
Published: September 2016

AbstractIn this paper, an attempt has been made to investigate the effect of coir fiber addition along with the banana fiber in low-density polyethylene (LDPE) to develop cost-effective and high-performance composite material. The composite samples were prepared at fixed fiber content (25 wt%) and with varying relative weight fraction of banana and coir fiber using compression molding technique. The effect of hybridization was analyzed through the mechanical properties (tensile, flexural, and impact), thermal stability, morphological behavior, and water absorption behavior. Additionally, scanning electron microscopy studies had been carried out on the tensile fractured surface for all composite samples to examine the fracture behavior of the composite samples. The results showed that the incorporation of coir fiber into the banana fiber composites of up to 50% by weight led to enhancement of the mechanical properties and thermal stability and to reduction of the water absorption capacity of the banana fiber/LDPE composites.
Selection on Position of Nonsense Codons in Introns
Authors: Behringer Megan G , Hall David W 
Published: September 2016

Abstract
Introns occasionally remain in mature messenger RNAs (mRNAs) due to splicing errors and the translated, aberrant proteins that result represent a metabolic cost and may have other deleterious consequences. The nonsense-mediated decay (NMD) pathway degrades aberrant mRNAs, which it recognizes by the presence of an in-frame premature termination codon (PTC). We investigated whether selection has shaped the location of PTCs in introns to reduce waste and facilitate NMD. We found across seven model organisms, that in both first and last introns, PTCs occur earlier in introns than expected by chance, suggesting that selection favors earlier position. This pattern is more pronounced in species with larger effective population sizes. The pattern does not hold for last introns in the two mammal species, however, perhaps because in these species NMD is not initiated from 3′-terminal introns. We conclude that there is compelling evidence that the location of PTCs is shaped by selection for reduced waste and efficient degradation of aberrant mRNAs.
Prevalence of Renal and Cervical Vertebral Anomalies in Patients with Isolated Microtia and/or Aural Atresia
Authors: Zim Shane , Lee Janet , Rubinstein Brian , Senders Craig 
Published: September 2016

Objective The objective of this study was to determine whether patients with isolated microtia or aural atresia have an increased prevalence of renal or cervical vertebral anomalies. Design The study design was a retrospective medical record review. Setting The setting was the following four distinct institutions: an urban tertiary care children's hospital, two urban academic medical centers, and a staff-model health maintenance organization. Participants Patients diagnosed with microtia, aural atresia, or oculoauriculovertebral spectrum were identified. Patients with facial asymmetry, craniofacial microsomia, and other craniofacial abnormalities or syndromes were excluded. Main Outcome Measures Main outcome measures were the number of patients with isolated microtia or aural atresia who underwent a renal ultrasound or cervical spine X-ray, the results of those studies, and further evaluation or treatment for any abnormalities found. Statistical Analysis A binomial analysis using a one-sided 95% confidence level was performed. Results A total of 514 patients with isolated microtia and/or aural atresia were identified. Of these patients, 145 (28%) had undergone a renal ultrasound and 81 (16%) had undergone cervical spine X-rays. A total of 3 patients (2%) had minimal renal pelviectasis, all of which had resolved on repeat ultrasound and required no treatment. There were no structural renal abnormalities identified, and there were no cervical spine abnormalities identified. Conclusions The data suggest that there is no increased prevalence of structural renal or cervical vertebral anomalies in patients with isolated microtia and/or aural atresia. Therefore, these patients do not require routine screening renal ultrasound or cervical spine X-rays.
Cleft Repair in Adults
Authors: Fuller Jennifer , Drake David , Felstead Andrew , Colbert Serryth 
Published: September 2016

Speech defects and facial appearance due to untreated cleft lip and/or palate in the elderly population have associated life-long impacts on the quality of life for these patients. Treatment and rehabilitation in this patient group can be extensive and the problems not easily corrected. We report the outcomes of surgical repair of cleft in a series of elderly patients with unrepaired cleft lip and/or palate. Our results confirm an improvement in speech, quality of life and aesthetic outcomes after surgical repair in these patients. With this in mind, we advise cleft teams to consider surgical repair of untreated cleft lip and/or palate in the elderly population.