Browsing by Subject "Informatics"
- Results Per Page
- Sort Options
Item Open Access NeXML: rich, extensible, and verifiable representation of comparative data and metadata.(Systematic biology, 2012-07) Vos, Rutger A; Balhoff, James P; Caravas, Jason A; Holder, Mark T; Lapp, Hilmar; Maddison, Wayne P; Midford, Peter E; Priyam, Anurag; Sukumaran, Jeet; Xia, Xuhua; Stoltzfus, ArlinIn scientific research, integration and synthesis require a common understanding of where data come from, how much they can be trusted, and what they may be used for. To make such an understanding computer-accessible requires standards for exchanging richly annotated data. The challenges of conveying reusable data are particularly acute in regard to evolutionary comparative analysis, which comprises an ever-expanding list of data types, methods, research aims, and subdisciplines. To facilitate interoperability in evolutionary comparative analysis, we present NeXML, an XML standard (inspired by the current standard, NEXUS) that supports exchange of richly annotated comparative data. NeXML defines syntax for operational taxonomic units, character-state matrices, and phylogenetic trees and networks. Documents can be validated unambiguously. Importantly, any data element can be annotated, to an arbitrary degree of richness, using a system that is both flexible and rigorous. We describe how the use of NeXML by the TreeBASE and Phenoscape projects satisfies user needs that cannot be satisfied with other available file formats. By relying on XML Schema Definition, the design of NeXML facilitates the development and deployment of software for processing, transforming, and querying documents. The adoption of NeXML for practical use is facilitated by the availability of (1) an online manual with code samples and a reference to all defined elements and attributes, (2) programming toolkits in most of the languages used commonly in evolutionary informatics, and (3) input-output support in several widely used software applications. An active, open, community-based development process enables future revision and expansion of NeXML.Item Open Access Optimizing the Integration of Health Apps with the Electronic Health Record by Quantifying Data Readiness and Interoperability(2021) Douthit, Brian JamesHealth apps are emerging as useful tools with the potential to deliver powerful health interventions, conduct research, and improve patient involvement in their care. While the development of health apps is gaining momentum, the ability to integrate these apps with electronic health records (EHRs) is limited, decreasing their potential impact on patient outcomes. Data exchange standards can facilitate the exchange of data between apps and EHRs, but these standards are not yet complete and will require collaboration, work, and time to be finalized and adopted. Prioritization of data standards development areas (that address health system needs and app requirements) and tools to assess the readiness of current EHR data will speed the integration of health apps with EHR systems. This dissertation 1) addresses priority areas for the development of data exchange standards, and 2) provides insights for health systems and app developers to assess for the readiness of apps to be implemented with a given EHR system in its current state. The products of this dissertation provide a framework to assess EHR data readiness for apps, outline priority areas to be developed in the United States Core Data for Interoperability standards specifications, and explore the associations between quantifiable characteristics of health apps and implementation feasibility.