SPARQL-enabled identifier conversion with Identifiers.org

Motivation: On the semantic web, in life sciences in particular, data is often distributed via multiple resources. Each of these sources is likely to use their own International Resource Identifier for conceptually the same resource or database record. The lack of correspondence between identifiers introduces a barrier when executing federated SPARQL queries across life science data. Results: We introduce a novel SPARQL-based service to enable on-the-fly integration of life science data. This service uses the identifier patterns defined in the Identifiers.org Registry to generate a plurality of identifier variants, which can then be used to match source identifiers with target identifiers. We demonstrate the utility of this identifier integration approach by answering queries across major producers of life science Linked Data. Availability and implementation: The SPARQL-based identifier conversion service is available without restriction at http://identifiers.org/services/sparql. Contact: [email protected]

Interoperability and FAIRness through a novel combination of Web technologies

Data in the life sciences are extremely diverse and are stored in a broad spectrum of repositories ranging from those designed for particular data types (such as KEGG for pathway data or UniProt for protein data) to those that are general-purpose (such as FigShare, Zenodo, Dataverse or EUDAT). These data have widely different levels of sensitivity and security considerations. For example, clinical observations about genetic mutations in patients are highly sensitive, while observations of species diversity are generally not. The lack of uniformity in data models from one repository to another, and in the richness and availability of metadata descriptions, makes integration and analysis of these data a manual, time-consuming task with no scalability. Here we explore a set of resource-oriented Web design patterns for data discovery, accessibility, transformation, and integration that can be implemented by any general- or special-purpose repository as a means to assist users in finding and reusing their data holdings. We show that by using off-the-shelf technologies, interoperability can be achieved atthe level of an individual spreadsheet cell. We note that the behaviours of this architecture compare favourably to the desiderata defined by the FAIR Data Principles, and can therefore represent an exemplar implementation of those principles. The proposed interoperability design patterns may be used to improve discovery and integration of both new and legacy data, maximizing the utility of all scholarly outputs

The EBI RDF platform: linked open data for the life sciences

Motivation: Resource description framework (RDF) is an emerging technology for describing, publishing and linking life science data. As a major provider of bioinformatics data and services, the European Bioinformatics Institute (EBI) is committed to making data readily accessible to the community in ways that meet existing demand. The EBI RDF platform has been developed to meet an increasing demand to coordinate RDF activities across the institute and provides a new entry point to querying and exploring integrated resources available at the EBI. Availability: http://www.ebi.ac.uk/rdf Contact: [email protected]

Moving Forward in African Economic History: Bridging the Gap Between Methods and Sources

The field of African economic history is in resurgence. This paper reviews recent and on-going research contributions and notes strengths in their wide methodological, conceptual and topical variety. In these strengths there is also a challenge: different methodological approaches may also result in divisions, particularly on the quantitative versus qualitative axis. The African Economic History Network has recently been formed to bridge the gap between methods and sources and to facilitate intellectual exchanges among the widest possible range of scholars working on Sub-Saharan economic history. This paper outlines current research projects and calls for future research as well as suggesting promising lines of enquiry in the discipline

Climate and southern Africa's water-energy-food nexus

In southern Africa, the connections between climate and the water-energy-food nexus are strong. Physical and socioeconomic exposure to climate is high in many areas and in crucial economic sectors. Spatial interdependence is also high, driven for example, by the regional extent of many climate anomalies and river basins and aquifers that span national boundaries. There is now strong evidence of the effects of individual climate anomalies, but associations between national rainfall and Gross Domestic Product and crop production remain relatively weak. The majority of climate models project decreases in annual precipitation for southern Africa, typically by as much as 20% by the 2080s. Impact models suggest these changes would propagate into reduced water availability and crop yields. Recognition of spatial and sectoral interdependencies should inform policies, institutions and investments for enhancing water, energy and food security. Three key political and economic instruments could be strengthened for this purpose; the Southern African Development Community, the Southern African Power Pool, and trade of agricultural products amounting to significant transfers of embedded water

Portuguese emigration to Angola (2000-2015): Strengthening a specific postcolonial relationship in a new global framework?

Outflows to the Portuguese-speaking countries, although not dominant, played an important role in the growth of Portuguese emigration during the economic recession and austerity period, between 2010 and 2016. This chapter examines this migration process, considering that contemporary migration from Portugal to Angola is an example of reverse post-colonial migration within the framework of North-South movements. It presents the historical and socio-demographic background of Angola and some theoretical insights on the issue of North-South migration. The analyses of the migration process and the emigrants’ profiles rely in statistics and academic literature but especially on data gathered in a direct survey. Attention is given to indicators of integration, relations with Portugal and the post-colonial nature of the process. The profile of Portuguese in Angola shows an overrepresentation of highly skilled males over 35 years old, which migrated for professional reasons and sustain relations with Portugal through diverse transnational practices. This supports explanations for the emergence of North-South migration by appeal to economic expansion associated to the increasing insertion of several developing countries into global networks. However, the analysis fails to back up the hypothesis that Portuguese emigration to Angola is a form of reverse post-colonial migration based in ancestral return.info:eu-repo/semantics/publishedVersio

The indivisible hand of peace? Consumption opportunities and civil war

GDP is one of the most robust indicators of civil war onset. As debate continues over the mechanisms underlying the relationship between economic development and civil war, this paper scrutinizes the indicator of GDP directly, disaggregating it into its constituent components to examine whether their distinct associations with conflict onset can shed some light into the black box. Analysis of the individual correlations allows for identification of the driving force behind the aggregate statistical relationship. With this information to hand, consistency checks can be made with existing theories and a new theory presented in this paper, which draws attention to a critical structural factor that drives the supply of civil war labor, namely the lack of consumption opportunities. This factor increases the likelihood of civil war in less economically developed countries as individuals with low consumption opportunities have little to lose from reordering the economic and political system. Analysis of the correlations between components of GDP and the onset of civil war shows that this new theory is most consistent with the key drivers of the aggregate relationship. The examination also highlights a new indicator, which is arguably preferable to GDP as a measure of this relationship

Supplemental Information 2: Example dataset description

Access to consistent, high-quality metadata is critical to finding, understanding, and reusing scientific data. However, while there are many relevant vocabularies for the annotation of a dataset, none sufficiently captures all the necessary metadata. This prevents uniform indexing and querying of dataset repositories. Towards providing a practical guide for producing a high quality description of biomedical datasets, the W3C Semantic Web for Health Care and the Life Sciences Interest Group (HCLSIG) identified Resource Description Framework (RDF) vocabularies that could be used to specify common metadata elements and their value sets. The resulting guideline covers elements of description, identification, attribution, versioning, provenance, and content summarization. This guideline reuses existing vocabularies, and is intended to meet key functional requirements including indexing, discovery, exchange, query, and retrieval of datasets, thereby enabling the publication of FAIR data. The resulting metadata profile is generic and could be used by other domains with an interest in providing machine readable descriptions of versioned datasets

Fossil energy in economic growth: A study of the energy direction of technical change, 1950-2012

Climate change mitigation challenges national economies to increase productivity while reducing fossil energy consumption. Fossil energy-saving technical change has been assumed to accomplish this, yet empirical evidence is scarce. This paper investigates the long-run relationship between the rate and direction of technical change with respect to fossil energy and labor in the world economy. Growth rates of labor productivity and the fossil energy-labor ratio are examined for more than 95 of world output between 1950 and 2012. The average elasticity of the energy-labor ratio with respect to labor productivity is close to one, implying highly energy-using technical change, but no trade-o between factor productivity growth rates. This stylized fact suggests the importance of a cheap, abundant energy supply for robust global growth, and a more important role for renewable energy. Integrated assessment models do not incorporate this restriction which may result in poorly speci ed baseline scenarios

The 3rd DBCLS BioHackathon: improving life science data integration with Semantic Web technologies.

BACKGROUND: BioHackathon 2010 was the third in a series of meetings hosted by the Database Center for Life Sciences (DBCLS) in Tokyo, Japan. The overall goal of the BioHackathon series is to improve the quality and accessibility of life science research data on the Web by bringing together representatives from public databases, analytical tool providers, and cyber-infrastructure researchers to jointly tackle important challenges in the area of in silico biological research. RESULTS: The theme of BioHackathon 2010 was the 'Semantic Web', and all attendees gathered with the shared goal of producing Semantic Web data from their respective resources, and/or consuming or interacting those data using their tools and interfaces. We discussed on topics including guidelines for designing semantic data and interoperability of resources. We consequently developed tools and clients for analysis and visualization. CONCLUSION: We provide a meeting report from BioHackathon 2010, in which we describe the discussions, decisions, and breakthroughs made as we moved towards compliance with Semantic Web technologies - from source provider, through middleware, to the end-consumer.RIGHTS : This article is licensed under the BioMed Central licence at http://www.biomedcentral.com/about/license which is similar to the 'Creative Commons Attribution Licence'. In brief you may : copy, distribute, and display the work; make derivative works; or make commercial use of the work - under the following conditions: the original author must be given credit; for any reuse or distribution, it must be made clear to others what the license terms of this work are