bluuebunny/crossref_metadata_2025_split huggingface dataset:
The Union Trade Company and Its Recordings: An Unintentional Documentation of West African Popular Music, 1931–1957
Authors: Arlt Veit 
Published: May 2014

This paper introduces a unique collection of roughly 700 historical recordings of African popular music generated by a Swiss trading company, which today is located at the archives of mission 21 (formerly Basel Missioin) in Basel. The music was recorded and distributed by the Union Trade Company of Basel (UTC) during the 1930s and 1950s in the Gold Coast and Nigeria. The collection represents a rich resource for the study of African history and cultures and caters for the growing interest shown by social historians of Africa in everyday life and accordingly in leisure activities and consumption.As music and dance undoubtedly play an important role in African social and religious life, they have received much attention and there is a longstanding tradition of ethnomusicological research that has led to a great number of sound collections. The historian interested in the “modern” and “postmodern” or in popular culture, however, tends in many cases to be frustrated by the material contained in these archives. The ethnographic collectors often showed a blind eye to the modernizing forces within the African musical cultures they researched and concentrated on documenting what they perceived as the “original” or “traditional.” Furthermore the collection and documentation of the popular music of the day was rarely on the agenda of national research institutions and archives in postcolonial Africa. In the case of Ghana at least three initiatives have resulted in important collections of music that go beyond a narrow ethnographic documentation. The first, by Prof. Kwabena Nketia at the Centre of African Studies at the University of Ghana, features a mixture of field recordings and a few commercial records. The others focus specifically on the commercial and popular. These are the Gramophone Records Museum in Cape Coast, discussed below by its founder Kwame Sarpong and the Bokoor African Popular Music Archives Foundation (BAPMAF) of John Collins in Accra.
Ghana's Highlife Music: A Digital Repertoire of Recordings and Pop Art at the Gramophone Records Museum
Authors: Sarpong Kwame 
Published: May 2014

Throughout history, libraries and archives have been the guardians of the documentary heritage of mankind. Given the rapid evolution of the new technologies, safeguarding the cultural heritage becomes more and more the concern of specialists. One of the essential goals of archival and library services is to facilitate access to the documents or materials in their care, thus ensuring that that cultural heritage is kept alive and can be an object of research and enrichment. Their other important mission is to preserve the materials in their care so that cultural heritage may be passed on intact to future generations, since the future of a nation, a people, or a community is unthinkable without knowledge of its past. Preservation and access to the collection are the main objectives of the digitization project that was implemented recently in our museum with the help of international organizations and collaborators.One of the main goals of the Gramophone Records Museum and Research Centre of Ghana (GRMRC) is the preservation and the promotion of the nation's musical patrimony. The museum is located in Cape Coast. It is presently situated inside the building of the Centre for National Culture (CNC) just opposite the main gate of the University of Cape Coast. The museum was founded by Kwame Sarpong on the basis of his private collection, spanning over 40 years of music. From the modest beginnings in one small room inside the CNC building, it has grown to occupy an exhibition room, the archives and documentation rooms, and an office.
Lyme borreliosis in southern United Kingdom and a case for a new syndrome, chronic arthropod-borne neuropathy
Authors: DRYDEN M. S. , SAEED K. , OGBORN S. , SWALES P. 
Published: May 2014

SUMMARYThis series of serologically confirmed Lyme disease is the largest reported in the UK and represents 508 patients who presented to one hospital in the South of England between 1992 and 2012. The mean rate of borreliosis throughout this period was 9·8/100 000 population, much higher than the reported national rate of 1·7/100 000. The actual rate increased each year until 2009 when it levelled off. Patients clinically presented with rash (71%), neurological symptoms (16%, of whom half had VII cranial nerve palsies), arthropathy (8%), pyrexia (5%), cardiac abnormalities (1%) or other manifestations (<1%). Twenty percent of patients had additional non-specific symptoms of fatigue, myalgia, and cognitive changes. Serological diagnosis was with a two-tiered system of ELISA and immunoblot. There was a marked seasonal presentation in the summer months and in the first and sixth decades of life. A third of patients gave a clear history of a tick bite. The median interval between tick bite and clinical symptoms was 15 days [interquartile range (IQR) 9–28 days], with a further interval of 14 days to clinical diagnosis/treatment (IQR 2–31 days). Most cases were acquired locally and only 5% abroad. Patients responded to standard antibiotic therapy and recurrence or persistence was extremely rare. A second group of patients, not included in the clinical case series, were those who believed they had Lyme disease based on a probable tick bite but were seronegative by currently available validated tests and presented with subjective symptoms. This condition is often labelled chronic Lyme disease. These patients have a different disease from Lyme disease and therefore an alternative name, chronic arthropod-borne neuropathy (CAN), and case definition for this condition is proposed. We suggest that this chronic condition needs to be distinguished from Lyme disease, as calling the chronic illness ‘Lyme disease’ causes confusion to patients and physicians. We recommend research initiatives to investigate the aetiology, diagnosis and therapy of CAN.
Physical dormancy in Senna multijuga (Fabaceae: Caesalpinioideae) seeds: the role of seed structures in water uptake
Authors: Rodrigues-Junior Ailton G. , Faria José M.R. , Vaz Tatiana A.A. , Nakamura Adriana T. , José Anderson C. 
Published: May 2014

AbstractStructural studies in seeds with physical dormancy (PY) are important to better understand its causes and release when subjected to treatments for dormancy breaking. The aims of this study were to (1) characterize the PY break; (2) examine the role of different seed structures in water uptake; and (3) identify the water gap in Senna multijuga seeds. Imbibition patterns of dormant and non-dormant (subjected to dormancy breaking treatments) seeds and the morphological changes during dormancy breaking and germination were evaluated. To identify the water gap, the micropyle and lens were blocked separately, and the water absorption by seed parts was determined. Structural characteristics of the seed coat were also examined. Immersion in water at 80°C was efficient in breaking seed dormancy and imbibition occurred first at the hilar region, through the lens. Water was not absorbed through the micropyle or the extra-hilar region. S. multijuga seeds have a testa with a linearly aligned micropyle, hilum and lens. The seed coat consisted of a cuticle, macrosclereids, one (hilar region) or two (extra-hilar region) layer(s) of osteosclereids and parenchyma cell layers. The lens has typical parenchyma cells underneath it and two fragile regions comprised of shorter macrosclereids. Heat treatment stimulated the lens region, resulting in the opening of fragile regions at the lens, allowing water to enter the seeds. It is concluded that short-term exposure to a hot water treatment is sufficient for the formation of a water gap in S. multijuga seeds, and only the lens acts in the imbibition process.
Three-dimensional patient-specific cardiac model for surgical planning in Nikaidoh procedure
Authors: Valverde Israel , Gomez Gorka , Gonzalez Antonio , Suarez-Mejias Cristina , Adsuar Alejandro , Coserria Jose Felix , Uribe Sergio , Gomez-Cia Tomas , Hosseinpour Amir Reza 
Published: May 2014

AbstractPurpose: To explore the use of three-dimensional patient-specific cardiovascular models using rapid prototyping techniques (fused deposition modelling) to improve surgical planning in patients with complex congenital heart disease. Description: Rapid prototyping techniques are used to print accurate three-dimensional replicas of patients' cardiovascular anatomy based on magnetic resonance images using computer-aided design systems. Models are printed using a translucent polylactic acid polymer. Evaluation: As a proof of concept, a model of the heart of a 1.5-year-old boy with transposition of the great arteries, ventricular septal defect and pulmonary stenosis was constructed to help planning the surgical correction. The cardiac model allowed the surgeon to evaluate the location and dimensions of the ventricular septal defect as well as its relationship with the aorta and pulmonary artery. Conclusions: Cardiovascular models constructed by rapid prototyping techniques are extremely helpful for planning corrective surgery in patients with complex congenital malformations. Therefore they may potentially reduce operative time and morbi-mortality.
Potential applications for antiviral therapy and prophylaxis in bovine medicine
Authors: Newcomer Benjamin W. , Walz Paul H. , Givens M. Daniel 
Published: May 2014

AbstractViral disease is one of the major causes of financial loss and animal suffering in today's cattle industry. Increases in global commerce and average herd size, urbanization, vertical integration within the industry and alterations in global climate patterns have allowed the spread of pathogenic viruses, or the introduction of new viral species, into regions previously free of such pathogens, creating the potential for widespread morbidity and mortality in naïve cattle populations. Despite this, no antiviral products are currently commercially licensed for use in bovine medicine, although significant progress has been made in the development of antivirals for use against bovine viral diarrhea virus (BVDV), foot and mouth disease virus (FMDV) and bovine herpesvirus (BHV). BVDV is extensively studied as a model virus for human antiviral studies. Consequently, many compounds with efficacy have been identified and a few have been successfully used to prevent infectionin vivoalthough commercial development is still lacking. FMDV is also the subject of extensive antiviral testing due to the importance of outbreak containment for maintenance of export markets. Thirdly, BHV presents an attractive target for antiviral development due to its worldwide presence. Antiviral studies for other bovine viral pathogens are largely limited to preliminary studies. This review summarizes the current state of knowledge of antiviral compounds against several key bovine pathogens and the potential for commercial antiviral applications in the prevention and control of several selected bovine diseases.
Facets of diazotrophy in the oxygen minimum zone waters off Peru
Authors: Loescher Carolin R , Großkopf Tobias , Desai Falguni D , Gill Diana , Schunck Harald , Croot Peter L , Schlosser Christian , Neulinger Sven C , Pinnow Nicole , Lavik Gaute , Kuypers Marcel M M , LaRoche Julie , Schmitz Ruth A 
Published: May 2014

Abstract
Nitrogen fixation, the biological reduction of dinitrogen gas (N2) to ammonium (NH4+), is quantitatively the most important external source of new nitrogen (N) to the open ocean. Classically, the ecological niche of oceanic N2 fixers (diazotrophs) is ascribed to tropical oligotrophic surface waters, often depleted in fixed N, with a diazotrophic community dominated by cyanobacteria. Although this applies for large areas of the ocean, biogeochemical models and phylogenetic studies suggest that the oceanic diazotrophic niche may be much broader than previously considered, resulting in major implications for the global N-budget. Here, we report on the composition, distribution and abundance of nifH, the functional gene marker for N2 fixation. Our results show the presence of eight clades of diazotrophs in the oxygen minimum zone (OMZ) off Peru. Although proteobacterial clades dominated overall, two clusters affiliated to spirochaeta and archaea were identified. N2 fixation was detected within OMZ waters and was stimulated by the addition of organic carbon sources supporting the view that non-phototrophic diazotrophs were actively fixing dinitrogen. The observed co-occurrence of key functional genes for N2 fixation, nitrification, anammox and denitrification suggests that a close spatial coupling of N-input and N-loss processes exists in the OMZ off Peru. The wide distribution of diazotrophs throughout the water column adds to the emerging view that the habitat of marine diazotrophs can be extended to low oxygen/high nitrate areas. Furthermore, our statistical analysis suggests that NO2− and PO43− are the major factors affecting diazotrophic distribution throughout the OMZ. In view of the predicted increase in ocean deoxygenation resulting from global warming, our findings indicate that the importance of OMZs as niches for N2 fixation may increase in the future.
ZebraBeat: a flexible platform for the analysis of the cardiac rate in zebrafish embryos
Authors: De Luca Elisa , Zaccaria Gian Maria , Hadhoud Marwa , Rizzo Giovanna , Ponzini Raffaele , Morbiducci Umberto , Santoro Massimo Mattia 
Published: May 2014

AbstractHeartbeat measurement is important in assesssing cardiac function because variations in heart rhythm can be the cause as well as an effect of hidden pathological heart conditions. Zebrafish (Danio rerio) has emerged as one of the most useful model organisms for cardiac research. Indeed, the zebrafish heart is easily accessible for optical analyses without conducting invasive procedures and shows anatomical similarity to the human heart. In this study, we present a non-invasive, simple, cost-effective process to quantify the heartbeat in embryonic zebrafish. To achieve reproducibility, high throughput and flexibility (i.e., adaptability to any existing confocal microscope system and with a user-friendly interface that can be easily used by researchers), we implemented this method within a software program. We show here that this platform, called ZebraBeat, can successfully detect heart rate variations in embryonic zebrafish at various developmental stages and it can record cardiac rate fluctuations induced by factors such as temperature and genetic- and chemical-induced alterations. Applications of this methodology may include the screening of chemical libraries affecting heart rhythm and the identification of heart rhythm variations in mutants from large-scale forward genetic screens.
Hypoxia-inducible regulation of placental BOK expression
Authors: Luo Daochun , Caniggia Isabella , Post Martin 
Published: May 2014

BOK (BCL-2-related ovarian killer) is a member of the pro-apoptotic BCL-2 family that is highly expressed in the human placenta. BOK excess causes increased trophoblast autophagy and apoptosis in pre-eclampsia, a pathological condition of hypoxia and oxidative stress. In the present study, we identified an HRE (hypoxia-response element) at the junction of exon-1 and intron-1 (+229 to +279) in the human BOK gene, as well as an antisense transcript driven by a promoter located in intron-2. The isolated BOK-HRE bound hypoxia-inducible HIF (hypoxia-inducible factor) proteins in vitro as well as in trophoblastic JEG3 cells and was functional in its natural position as well as in front of a heterologous promoter. Being a reverted repeat, the BOK-HRE functioned in both orientations. This directionless feature of the BOK-HRE facilitates hypoxia regulation via HIF of both BOK and its antisense transcript as demonstrated by RNAi knockdown of the HIF system. Although the antisense transcript was expressed in several human carcinoma cell lines, including choriocarcinoma-derived JEG3 cells, no antisense-regulated mechanism for BOK expression was noted. Taken together, these findings indicate that hypoxia-induced expression of BOK in placental cells is regulated via HIF and is not affected by its antisense transcript.
The rate constant for radiative association of HF: Comparing quantum and classical dynamics
Authors: Gustafsson Magnus , Monge-Palacios M. , Nyman Gunnar 
Published: May 2014

Radiative association for the formation of hydrogen fluoride through the A1Π → X1Σ+ and X1Σ+ → X1Σ+ transitions is studied using quantum and classical dynamics. The total thermal rate constant is obtained for temperatures from 10 K to 20 000 K. Agreement between semiclassical and quantum approaches is observed for the A1Π → X1Σ+ rate constant above 2000 K. The agreement is explained by the fact that the corresponding cross section is free of resonances for this system. At temperatures below 2000 K we improve the agreement by implementing a simplified semiclassical expression for the rate constant, which includes a quantum corrected pair distribution. The rate coefficient for the X1Σ+ → X1Σ+ transition is calculated using Breit–Wigner theory and a classical formula for the resonance and direct contributions, respectively. In comparison with quantum calculations the classical formula appears to overestimate the direct contribution to the rate constant by about 12% for this transition. Below about 450 K the resonance contribution is larger than the direct, and above that temperature the opposite holds. The biggest contribution from resonances is at the lowest temperature in the study, 10 K, where it is more than four times larger than the direct. Below 1800 K the radiative association rate constant due to X1Σ+ → X1Σ+ transitions dominates over A1Π → X1Σ+, while above that temperature the situation is the opposite.
Pyrosequencing-based analysis of bacterial community and metabolites profiles in Korean traditional seafood fermentation: a flatfish-fermented seafood
Authors: Jung Jaejoon , Lee Se Hee , Jin Hyun Mi , Jeon Che Ok , Park Woojun 
Published: May 2014

Abstract
Bacterial community and metabolites were analyzed in a flatfish jeotgal, a Korean fermented seafood. Inverse relationship of pH and 16S rRNA gene copy number was identified during fermentation. Lactobacillus was the predominant bacterial genus. Increase of Firmicutes was a common characteristic shared by other fermented seafood. Fructose, glucose, and maltose were the major metabolites.
Construction of a novel secretion expression system guided by native signal peptide of PhoD in Zymomonas mobilis
Authors: Wu Bo , He Ming-Xiong , Feng Hong , Shui Zong-Xia , Tang Xiao-Yu , Hu Qi-Chun , Zhang Yi-Zheng 
Published: May 2014

Abstract
In the current study, three native signal peptides (SPs) from PhoC, PhoD, and ZMO0331were investigated and compared to construct novel secretion expression systems in Zymomonas mobilis. The secretion expression of target protein, α-amylase from Bacillus amyloliquefaciens (BAA), guided by PhoD’s SP resulted in more hydrolysis of starch than that by the other two SPs. Extracellular and intracellular α-amylase activities of the strain containing PhoD’s SP were also higher than the other two strains containing PhoC or ZMO0331’s SP. In addition, the evidence by alcohol dehydrogenase activity assay further confirmed that the starch hydrolysis was resulted from the secretion expression of BAA rather than the breakage of cells. Our results indicated that the SP of PhoD is able to serve as a promising candidate to assist secretion expression of heterogeneous genes in Z. mobilis. This will contribute to development of engineered Z. mobilis strains converting starch into ethanol.
PhenoNet: identification of key networks associated with disease phenotype
Authors: Ben-Hamo Rotem , Gidoni Moriah , Efroni Sol 
Published: May 2014

Motivation: At the core of transcriptome analyses of cancer is a challenge to detect molecular differences affiliated with disease phenotypes. This approach has led to remarkable progress in identifying molecular signatures and in stratifying patients into clinical groups. Yet, despite this progress, many of the identified signatures are not robust enough to be clinically used and not consistent enough to provide a follow-up on molecular mechanisms.Results: To address these issues, we introduce PhenoNet, a novel algorithm for the identification of pathways and networks associated with different phenotypes. PhenoNet uses two types of input data: gene expression data (RMA, RPKM, FPKM, etc.) and phenotypic information, and integrates these data with curated pathways and protein–protein interaction information. Comprehensive iterations across all possible pathways and subnetworks result in the identification of key pathways or subnetworks that distinguish between the two phenotypes.Availability and implementation: Matlab code is available upon request.Contact: sol.efroni@biu.ac.ilSupplementary information: Supplementary Data are available at Bioinformatics online.
RNASeqGUI: a GUI for analysing RNA-Seq data
Authors: Russo Francesco , Angelini Claudia 
Published: May 2014

Summary: We present RNASeqGUI R package, a graphical user interface (GUI) for the identification of differentially expressed genes across multiple biological conditions. This R package includes some well-known RNA-Seq tools, available at www.bioconductor.org. RNASeqGUI package is not just a collection of some known methods and functions, but it is designed to guide the user during the entire analysis process. RNASeqGUI package is mainly addressed to those users who have little experience with command-line software. Therefore, thanks to RNASeqGUI, they can conduct analogous analyses using this simple graphical interface. Moreover, RNASeqGUI is also helpful for those who are expert R-users because it speeds up the usage of the included RNASeq methods drastically.
Availability and implementation: RNASeqGUI package needs the RGTK2 graphical library to run. This package is open source and is freely available under General Public License at http://bioinfo.na.iac.cnr.it/RNASeqGUI/Download.
Contact: f.russo@na.iac.cnr.it
Supplementary information: Supplementary Data are available at Bioinformatics online.
fastGapFill: efficient gap filling in metabolic networks
Authors: Thiele Ines , Vlassis Nikos , Fleming Ronan M. T. 
Published: May 2014

Motivation: Genome-scale metabolic reconstructions summarize current knowledge about a target organism in a structured manner and as such highlight missing information. Such gaps can be filled algorithmically. Scalability limitations of available algorithms for gap filling hinder their application to compartmentalized reconstructions.
Results: We present fastGapFill, a computationally efficient tractable extension to the COBRA toolbox that permits the identification of candidate missing knowledge from a universal biochemical reaction database (e.g. Kyoto Encyclopedia of Genes and Genomes) for a given (compartmentalized) metabolic reconstruction. The stoichiometric consistency of the universal reaction database and of the metabolic reconstruction can be tested for permitting the computation of biologically more relevant solutions. We demonstrate the efficiency and scalability of fastGapFill on a range of metabolic reconstructions.
Availability and implementation: fastGapFill is freely available from http://thielelab.eu.
Contact: ines.thiele@uni.lu
Supplementary information: Supplementary Data are available at Bioinformatics online.