bluuebunny/crossref_metadata_2025_split huggingface dataset:
Geopolítica como Luta de Classes: Marxismo Político, Relações Internacionais e Sociologia Histórica | Geopolitics as Class Struggle: Political Marxism, International Relations and Historical Sociology
Authors: Salgado Pedro 
Published: December 2017

Ao inserir a luta de classes no centro da análise histórica, o Marxismo Político propõe uma reinterpretação da disciplina de Relações Internacionais que pode ser entendida em três passos. O primeiro é uma visão histórica da formação do sistema de estados moderno, a partir de transformações da geopolítica feudal após a origem do capitalismo. O segundo, uma metodologia historicista que parte da forma como a operação de tal sistema pode ser entendida através dos conflitos entre classes com suas respectivas estratégias de espacialização. Por fim, resta justificar a centralidade da luta de classe, e de “classe” enquanto categoria analítica, através do retorno à obra de Marx, resgatando a forma como a noção sociológica de agência é antecipada em sua filosofia da práxis. Assim, reinscrevendo a distinção entre “global” e “(inter)nacional” nas relações sociais que lhe dão origem, a disciplina de Relações Internacionais assume a forma de Sociologia Histórica.ABSTRACTBy bringing class struggle into the core of historical analysis, Political Marxism suggests a reinterpretation of International Relations that can be understood in three steps. Firstly, a historical account of of the rise of the modern states-system through the transformations in feudal geopolitics after the rise of capitalism. Secondly, the development of a radically historicist methodology that is explains this system's operation through the conflict between classes and their respective spatialization strategies. At last, the justification for having class struggle at the core of the analysis, and of "class" as an analytical unit, comes from a return to Marx's work to see how he grounds the sociological notion of agency in his philosophy of praxis. Therefore, by reviving the distinctiong between "global" and "(inter)national" in the social relations that give birth to this very distinction, the discipline of International Relations assumes the form of Historical Sociology.Palavras-chave: Relações Internacionais, Marxismo, GeopolíticaKeywords: International Relations, Marxism, GeopoliticsRecebido em 24 de Abril de 2017 | Aceito em 07 de Agosto de 2017Received on April 24, 2017 | Accepted on August 7, 2017 DOI: 10.12957/rmi.2016.28437
PRISTINE MANGROVE COMMUNITY IN WONDAMA GULF, WEST PAPUA, INDONESIA
Authors: Dharmawan I Wayan Eka , Widyastuti Andriyani 
Published: December 2017

Papua shoreline has the most extensive area of mangrove in Indonesia. Since this area was rarely studied due to various reasons, the scientific data was difficult to be found. Wondama mangrove, part of Cendrawasih National Park – West Papua, had a promising mangrove forest to be discovered. Preliminary study was carried out in this area to identify how pristine the mangrove area is. The objectives of this study was to analyze mangrove community health and structure. Vegetation structure and canopy coverage data were collected from 107 circular plots included three plot areas (radian: 5 m, 2.5 m and 1 m) which were distributed to determine three plant classes i.e. tree, sapling and seedling, respectively. Present study showed that Wondama mangrove is a pristine mangrove community. It had large size of tree trunk diameter by 19.77± 6.55 cm averagely. Its diameter size affected on low tree density which was less than 1000 tree/ha. Those two parameters were strongly negative-correlated each other. On the other hand, community canopy was highly covered mangrove area by 82.46±6.43%. Rhizophora has mostly dominated in the forest. Mangrove regeneration in Wondama was excellent referring to density and species composition of sapling-seedling levels.
Rethinking Kant’s Debts to Rousseau
Authors: Hanley Ryan Patrick 
Published: December 2017

Abstract:That Kant owed much to Rousseau has long been known. Yet some of Kant’s most significant debts to Rousseau still await appreciation. This paper offers an examination of two key understudied writings from the 1760s in order to provide a more comprehensive account of Kant’s debts to Rousseau. In focusing on these texts, it particularly aims to supplement the existing accounts of Kant’s debts to Rousseau which have largely focused on concepts of human dignity and human equality or on concepts of gender and gender relations, and to demonstrate the degree to which Kant read Rousseau as a theorist of epistemic development. In so doing it offers a reconsideration of Kant’s own philosophical development, and a reconsideration of the philosophical significance of Rousseau’s epistemology.
A Comparative Stratigraphy of Cilicia
Authors: Novák Mirko , D’Agata Anna Lucia , Caneva Isabella , Eslick Christine , Gates Charles , Gates Marie-Henriette , Girginer K. Serdar , Oyman-Girginer Özlem , Jean Éric , Köroğlu Gülgün , Kozal Ekin , Kulemann-Ossen Sabina , Lehmann Gunnar , Özyar Aslı , Ozaydın Tülay , Postgate J. Nicholas , Şahin Fatma , Ünlü Elif , Yağcı Remzi , Meier Deniz Yaşin 
Published: December 2017

AbstractThis article presents a preliminary comparative stratigraphy of excavated sites in Plain Cilicia and one in Rough Cilicia. It is the outcome of three workshops held in 2014, 2015 and 2017. Plain Cilicia at the junction of Anatolia, Syro-Mesopotamia and Cyprus is one of the most fertile regions of the Ancient Near East. In recent years, archaeological research in the region has intensified, re-opening questions of chronology. The comparative stratigraphy discussed in the workshops is presented here in form of a gazetteer of the participating sites and a chart. This is to be understood as a first step towards a more comprehensive chronology.
Determination in the Anatolian Hieroglyphic Script of the Empire and Transitional Period
Authors: Payne Annick 
Published: December 2017

AbstractThe Anatolian Hieroglyphic script is a mixed writing system which contains both phonetic and semantographic signs. The latter may be used in the function of logogram and/or determinative. A dedicated study of the script’s determinatives has so far not been undertaken but promises insight into structures of mental organization and script development. Because of its pictorial character, individual signs can occasionally be shown to act in a dual capacity, as icons and signs of writing. This article forms part one of a diachronic study of the determinative system, and adresses the period 13
Starb Philo von Larisa im Alter von 63 Jahren?
Authors: Fleischer Kilian 
Published: December 2017

AbstractNew readings in Philodernus' Index Academicorum (PHerc. 1021, col. 33, 17- 19 and 42-44) show that the papyrus reports the age of Philo of Larisa at his death as 63, considerably younger than hitherto assumed. The validity of this new information and possible consequences for Philo' s biography are discussed.
The UGT1A1*28 gene variant predicts long-term mortality in patients undergoing coronary angiography
Authors: Zulus Barbara , Grünbacher Gerda , Kleber Marcus E. , März Winfried , Renner Wilfried 
Published: December 2017

Abstract

Background:
Uridine diphosphate glycosyltransferases 1A1 (UGT1A1) plays an essential role in detoxification and excretion of several endogenous and exogenous compounds. A functional polymorphism in the promoter of the UGT1A1 gene (TA repeat insertion, UGT1A1*28, rs3064744) has been associated with reduced UGT1A1 enzyme activity. The purpose of the present study was to investigate the role of UGT1A1 genotypes in mortality.

Methods:

UGT1A1 genotypes as well as baseline plasma bilirubin levels were analyzed in participants of the Ludwigshafen Risk and Cardiovascular Health study (n=3316). UGT1A1*28 genotypes were determined on an ABI PRISM 3730 genetic analyzer.

Results:
As expected, UGT1A1 genotypes were associated with baseline bilirubin levels (*1/*1 genotype: 9.1±4.6 µmol/L; *1/*28 genotype: 10.8±5.3; *28/*28: 16.9±9.2; p<0.001). During a median follow-up of 10.4 years, 995 subjects (30.0%) died. In a multivariate regression analysis adjusting for age, sex, smoking, type 2 diabetes, dyslipidemia, alanine aminotransferase (ALT) levels and bilirubin levels, the UGT1A1*28 variant predicted lower overall mortality (hazard ratio [HR], 0.86; 95% confidence interval [CI], 0.78–0.95; p=0.003). Contrary to expected, higher baseline bilirubin levels predicted increased mortality (HR, 1.014; 95% CI, 1.002–1.025; p=0.019).

Conclusions:
The UGT1A1*28 gene variant is associated with lower mortality rates. The protective effect of the UGT1A1*28 variant likely includes mechanism other than bilirubin metabolism.
Indexes of the erythropoietin level in the blood plasma of chronic heart failure patients with anemia
Authors: Zahidova Kamala Kh. 
Published: December 2017

Abstract

Background:
Anemia aggravates the disease course and the survival rate of chronic heart failure (CHF) patients. The purpose of the study was to investigate the level of erythropoietin (EPO) in CHF patients with anemic syndrome, with the aim to more accurately assess the severity of the disease and its treatment, depending on the anemia degree.

Methods:
Patients with ischemic CHF of I–IV functional class (FC) with and without anemia were examined (total number of patients=208, patients with anemia=174). The EPO was determined using the enzyme-linked immunosorbent assay. Before treatment, the patients underwent the following medical therapy: angiotensin-converting enzyme inhibitors, angiotensin II receptor blockers, long-acting nitrates, diuretics, digoxin, and beta-blockers at individual doses. Depending on the plasma EPO level, the CHF patients with anemia were divided into four randomized groups in terms of treatment.

Results:
Normal erythropoietinemia was found in 36.2% of the CHF patients with anemic syndrome (I–III FC), hypoerythropoietinemia in 44.8% (III–IV FC), and hypererythropoietinemia in 18.96% (III–V FC). The EPO level in the blood plasma of the patients with I–II FC CHF with hypoerythropoietinemia, who were treated with methoxy polyethylene glycol-epoetin β (MEB), increased by 2.2 times. Combination therapy with disease-modifying drugs and MEB led to a significant increase in the plasma EPO level in the CHF patients with hypoerythropoietinemia.

Conclusions:
It was shown that the EPO level in patients with CHF and anemia did not always drop. Hypererythropoietinemia in patients with CHF and anemia leads to an unfavorable treatment prediction. This necessitates the investigation of the EPO level in all patients with CHF before and after treatment, with the aim of correcting the anemic syndrome. The research showed that the combined therapy of patients with CHF and anemia using MEB medication and iron with regard to the EPO level in the blood plasma improved their overall physical condition, reduced heart failure symptoms and hospitalization frequency, and demonstrated a clear tendency to reduce the general mortality rate.
Ontology-Assisted Database Integration to Support Natural Language Processing and Biomedical Data-mining
Authors: Verschelde Jean-Luc , Dos Santos Mariana Casella , Deray Tom , Smith Barry , Ceusters Werner 
Published: December 2017

Summary Successful biomedical data mining and information extraction require a complete picture of biological phenomena such as genes, biological processes, and diseases; as these exist on different levels of granularity. To realize this goal, several freely available heterogeneous databases as well as proprietary structured datasets have to be integrated into a single global customizable scheme. We will present a tool to integrate different biological data sources by mapping them to a proprietary biomedical ontology that has been developed for the purposes of making computers understand medical natural language.
Genlight: Interactive high-throughput sequence analysis and comparative genomics
Authors: Beckstette Michael , Mailänder Jens T. , Marhöfer Richard J. , Sczyrba Alexander , Ohlebusch Enno , Giegerich Robert , Selzer Paul M. 
Published: December 2017

Abstract With rising numbers of fully sequenced genomes the importance of comparative genomics is constantly increasing. Although several software systems for genome comparison analyses do exist, their functionality and flexibility is still limited, compared to the manifold possible applications. Therefore, we developed Genlight(http://piranha.techfak.uni-bielefeld.de.), a Client/Server based program suite for large scale sequence analysis and comparative genomics. Genlight uses the object relational database system PostgreSQL together with a state of the art data representation and a distributed execution approach for large scale analysis tasks. The system includes a wide variety of comparison and sequence manipulation methods and supports the management of nucleotide sequences as well as protein sequences. The comparison methods are complemented by a large variety of visualization methods for the assessment of the generated results. In order to demonstrate the suitability of the system for the treatment of biological questions, Genlight was used to identify potential drug and vaccine targets of the pathogen Helicobacter pylori.
BASIS: an internet resource for network modelling
Authors: Gillespie Colin S. , Wilkinson Darren J. , Shanley Daryl P. , Proctor Carole J. , Boys Richard J. , Kirkwood Thomas B.L. 
Published: December 2017

Summary There is a growing realisation that complex biological processes cannot be understood through the application of ever more reductionist experimental programs alone. Recognising this, we have a constructed a flexible web-service based modelling system called BASIS (Biology of Ageing e-Science Integration and Simulation), which facilitates model construction and development. In particular it allows users to store, share and simulate their models. The system is accessed through web-services using any language (e.g. Python or Java) or under any operating system (e.g. Linux or Windows).
Co-expressed gene groups analysis (CGGA): An automatic tool for the interpretation of microarray experiments
Authors: Martinez Ricardo , Pasquier Nicolas , Collard Martine , Pasquier Claude , Lopez-Perez Lucero 
Published: December 2017

Summary Microarray technology produces vast amounts of data by measuring simultaneously the expression levels of thousands of genes under hundreds of biological conditions. Nowadays, one of the principal challenges in bioinformatics is the interpretation of this large amount of data using different sources of information. We have developed a novel data analysis method named CGGA (Co-expressed Gene Groups Analysis) that automatically finds groups of genes that are functionally enriched, i.e. have the same functional annotations, and are co-expressed. CGGA automatically integrates the information of microarrays, i.e. gene expression profiles, with the functional annotations of the genes obtained by the genome-wide information sources such as Gene Ontology. By applying CGGA to wellknown microarray experiments, we have identified the principal functionally enriched and co-expressed gene groups, and we have shown that this approach enhances and accelerates the interpretation of DNA microarray experiments.
Combination of a data warehouse concept with web services for the establishment of the Pseudomonas systems biology database SYSTOMONAS
Authors: Choi Claudia , Münch Richard , Bunk Boyke , Barthelmes Jens , Ebeling Christian , Schomburg Dietmar , Schobert Max , Jahn Dieter 
Published: December 2017

Summary Systems biology requires the integration of data from various sources and their combined interpretation using different bioinformatics tools. Integration of different biological databases, however, is often problematic due to their semantic and structural diversity. Moreover, necessary continuous updates of both the structure and content of a database provide further challenges for an integration process. We established the novel database SYSTOMONAS for SYSTems biology of pseudOMONAS by integrating heterogeneous data from highly different external resources including BioCyc, BRENDA, ENZYME, Pseudomonas Genome Database v2, KEGG, and PRODORIC. For this purpose we combined a data warehouse concept with the advantages of web services. This hybrid approach benefits from the fast performance and data consistency provided by the data warehouse system and from the up-to-dateness ensured by use of dynamic web services. The data warehouse part is realized by ETL processes (Extract, Transform, Load), during which data are checked for consistency and standardized to ensure their integrity. While accessing SYSTOMONAS via the internet, parts of the data warehouse content are dynamically enriched using the web service part of the system via SOAP (originally for Simple Object Access Protocol) interfaces with BRENDA, KEGG and PRODORIC. SYSTOMONAS is designed to integrate in-house experimental high-throughput data with up-to-date information available in the mentioned public databases. SYSTOMONAS also serves as a repository for the prediction of metabolic and regulatory networks. SYSTOMONAS is accessible at http://www.systomonas.de.
SABIO-RK: A data warehouse for biochemical reactions and their kinetics
Authors: Krebs Olga , Golebiewski Martin , Kania Renate , Mir Saqib , Saric Jasmin , Weidemann Andreas , Wittig Ulrike , Rojas Isabel 
Published: December 2017

Abstract Systems biology is an emerging field that aims at obtaining a system-level understanding of biological processes. The modelling and simulation of networks of biochemical reactions have great and promising application potential but require reliable kinetic data. In order to support the systems biology community with such data we have developed SABIO-RK (System for the Analysis of Biochemical Pathways - Reaction Kinetics), a curated database with information about biochemical reactions and their kinetic properties, which allows researchers to obtain and compare kinetic data and to integrate them into models of biochemical networks. SABIO-RK is freely available for academic use at http://sabio.villa-bosch.de/SABIORK/.
A Two-Step Clustering for 3-D Gene Expression Data Reveals the Main Features of the Arabidopsis Stress Response
Authors: Strauch Martin , Supper Jochen , Spieth Christian , Wanke Dierk , Kilian Joachim , Harter Klaus , Zell Andreas 
Published: December 2017

Summary We developed an integrative approach for discovering gene modules, i.e. genes that are tightly correlated under several experimental conditions and applied it to a threedimensional Arabidopsis thaliana microarray dataset. The dataset consists of approximately 23000 genes responding to 9 abiotic stress conditions at 6-9 different points in time. Our approach aims at finding relatively small and dense modules lending themselves to a specific biological interpretation. In order to detect gene modules within this dataset, we employ a two-step clustering process. In the first step, a k-means clustering on one condition is performed, which is subsequently used in the second step as a seed for the clustering of the remaining conditions. To validate the significance of the obtained modules, we performed a permutation analysis and determined a null hypothesis to compare the module scores against, providing a p-value for each module. Significant modules were mapped to the Gene Ontology (GO) in order to determine the participating biological processes.As a result, we isolated modules showing high significance with respect to the p-values obtained by permutation analysis and GO mapping. In these modules we identified a number of genes that are either part of a general stress response with similar characteristics under different conditions (coherent modules), or part of a more specific stress response to a single stress condition (single response modules). We also found genes clustering within several conditions, which are, however, not part of a coherent module. These genes have a distinct temporal response under each condition. We call the modules they are contained in individual response modules (IR).
Achieving k-anonymity in DataMarts used for gene expressions exploitation
Authors: Stark Konrad , Eder Johann , Zatloukal Kurt 
Published: December 2017

Abstract Gene expression profiling is a sophisticated method to discover differences in activation patterns of genes between different patient collectives. By reasonably defining patient groups from a medical point of view, subsequent gene expression analysis may reveal disease-related gene expression patterns that are applicable for tumor markers and pharmacological target identification. When releasing patient-specific data for medical studies privacy protection has to be guaranteed for ethical and legal reasons. k-anonymisation may be used to generate a sufficient number of k data twins in order to ensure that sensitive data used in analyses is protected from being linked to individuals. We use an adapted concept of k-anonymity for distributed data sources and include various customisation parameters in the anonymisation process to guarantee that the transformed data is still applicable for further processing. We present a real-world medical-relevant use case and show how the related data is materialised, anonymised, and released in a data mart for testing the related hypotheses.
A High-Level Petri Net Framework for Genetic Regulatory Networks
Authors: Banks Richard , Steggles L. Jason 
Published: December 2017

Summary To understand the function of genetic regulatory networks in the development of cellular systems, we must not only realise the individual network entities, but also the manner by which they interact. Multi-valued networks are a promising qualitative approach for modelling such genetic regulatory networks, however, at present they have limited formal analysis techniques and tools. We present a flexible formal framework for modelling and analysing multi-valued genetic regulatory networks using high-level Petri nets and logic minimization techniques. We demonstrate our approach with a detailed case study in which part of the genetic regulatory network responsible for the carbon starvation stress response in Escherichia coli is modelled and analysed. We then compare and contrast this multivalued model to a corresponding Boolean model and consider their formal relationship.
Exploring PSI-MI XML Collections Using DescribeX
Authors: Samavi Reza , Consens Mariano , Khatchadourian Shahan , Topaloglou Thodoros 
Published: December 2017

Summary PSI-MI has been endorsed by the protein informatics community as a standard XML data exchange format for protein-protein interaction datasets. While many public databases support the standard, there is a degree of heterogeneity in the way the proposed XML schema is interpreted and instantiated by different data providers. Analysis of schema instantiation in large collections of XML data is a challenging task that is unsupported by existing tools.In this study we use DescribeX, a novel visualization technique of (semi-)structured XML formats, to quantitatively and qualitatively analyze PSI-MI XML collections at the instance level with the goal of gaining insights about schema usage and to study specific questions such as: adequacy of controlled vocabularies, detection of common instance patterns, and evolution of different data collections. Our analysis shows DescribeX enhances understanding the instance-level structure of PSI-MI data sources and is a useful tool for standards designers, software developers, and PSI-MI data providers.