Open Science principles for accelerating trait-based science across the Tree of Life.

Synthesizing trait observations and knowledge across the Tree of Life remains a grand challenge for biodiversity science. Species traits are widely used in ecological and evolutionary science, and new data and methods have proliferated rapidly. Yet accessing and integrating disparate data sources remains a considerable challenge, slowing progress toward a global synthesis to integrate trait data across organisms. Trait science needs a vision for achieving global integration across all organisms. Here, we outline how the adoption of key Open Science principles-open data, open source and open methods-is transforming trait science, increasing transparency, democratizing access and accelerating global synthesis. To enhance widespread adoption of these principles, we introduce the Open Traits Network (OTN), a global, decentralized community welcoming all researchers and institutions pursuing the collaborative goal of standardizing and integrating trait data across organisms. We demonstrate how adherence to Open Science principles is key to the OTN community and outline five activities that can accelerate the synthesis of trait data across the Tree of Life, thereby facilitating rapid advances to address scientific inquiries and environmental issues. Lessons learned along the path to a global synthesis of trait data will provide a framework for addressing similarly complex data science and informatics challenges

Sharing Human-Generated Observations by Integrating HMI and the Semantic Sensor Web

Current “Internet of Things” concepts point to a future where connected objects gather meaningful information about their environment and share it with other objects and people. In particular, objects embedding Human Machine Interaction (HMI), such as mobile devices and, increasingly, connected vehicles, home appliances, urban interactive infrastructures, etc., may not only be conceived as sources of sensor information, but, through interaction with their users, they can also produce highly valuable context-aware human-generated observations. We believe that the great promise offered by combining and sharing all of the different sources of information available can be realized through the integration of HMI and Semantic Sensor Web technologies. This paper presents a technological framework that harmonizes two of the most influential HMI and Sensor Web initiatives: the W3C’s Multimodal Architecture and Interfaces (MMI) and the Open Geospatial Consortium (OGC) Sensor Web Enablement (SWE) with its semantic extension, respectively. Although the proposed framework is general enough to be applied in a variety of connected objects integrating HMI, a particular development is presented for a connected car scenario where drivers’ observations about the traffic or their environment are shared across the Semantic Sensor Web. For implementation and evaluation purposes an on-board OSGi (Open Services Gateway Initiative) architecture was built, integrating several available HMI, Sensor Web and Semantic Web technologies. A technical performance test and a conceptual validation of the scenario with potential users are reported, with results suggesting the approach is soun

Automated recognition and post-coordination of complex clinical terms

One of the key tasks in integrating guideline-based decision support systems with the electronic patient record is the mapping of clinical terms contained in both guidelines and patient notes to a common, controlled terminology. However, a vocabulary of pre-coordinated terms cannot cover every possible variation - clinical terms are often highly compositional and complex. We present a rule-based approach for automated recognition and post-coordination of clinical terms using minimal, morpheme-based thesauri, neoclassical combining forms and part-of-speech analysis. The process integrates MetaMap with the open-source GATE framework

The Facets of Place

This chapter will outline one theory aimed at integrating aspects of environmental psychology with issues in architectural design. The theory to be reviewed is broad in those characteristics of theory that Moore (1987) called their 'form and scope'. This broad brush, top down approach is intended as a contrast with bottom up attempts to specify the behavioural effects of specific aspects of design, such as lighting levels or size of spaces. It also contrasts with models that seek to answer immediate design problems. However, in Moore's (1987) vocabulary, the theory to be outlined is more than an 'orientation', or 'framework'. It is an 'explanatory theory' that has been found to have considerable scope, open to direct empirical test

Reasoning with Forest Logic Programs and f-hybrid Knowledge Bases

Open Answer Set Programming (OASP) is an undecidable framework for integrating ontologies and rules. Although several decidable fragments of OASP have been identified, few reasoning procedures exist. In this article, we provide a sound, complete, and terminating algorithm for satisfiability checking w.r.t. Forest Logic Programs (FoLPs), a fragment of OASP where rules have a tree shape and allow for inequality atoms and constants. The algorithm establishes a decidability result for FoLPs. Although believed to be decidable, so far only the decidability for two small subsets of FoLPs, local FoLPs and acyclic FoLPs, has been shown. We further introduce f-hybrid knowledge bases, a hybrid framework where \SHOQ{} knowledge bases and forest logic programs co-exist, and we show that reasoning with such knowledge bases can be reduced to reasoning with forest logic programs only. We note that f-hybrid knowledge bases do not require the usual (weakly) DL-safety of the rule component, providing thus a genuine alternative approach to current integration approaches of ontologies and rules

A study in systems integration architecture

This Thesis studies the two architectures OSCA and ANSA which support the ODPSE principle in the first two parts. In the third part the framework for integrating these two architectures is described. The idea of integration architectures in relation to open architectures is studied using the enabling technologies