Globally Unique Identifier Research Articles

Integrating Taxonomic Names and Concepts from Paper and Digital Sources for a New Flora of Alaska

The taxonomic foundation of a new regional flora or monograph is the reconciliation of pre-existing names and taxonomic concepts (i.e., variation in usage of those names). This reconciliation is traditionally done manually, but the availability of taxonomic resources online and of text manipulation software means that some of the work can now be automated, speeding up the development of new taxonomic products. As a contribution to developing a new Flora of Alaska (floraofalaska.org), we have digitized the main pre-existing flora (Hultén 1968) and combined it with key online taxonomic name sources (Panarctic Flora, Flora of North America, International Plant Names Index - IPNI, Tropicos, Kew’s World Checklist of Selected Plant Families), to build a canonical list of names anchored to external Globally Unique Identifiers (GUIDs) (e.g., IPNI URLs). We developed taxonomically-aware fuzzy-matching software (matchnames, Webb 2020) to identify cognates in different lists. The taxa for which there are variations between different sources in accepted names and synonyms are then flagged for review by taxonomic experts. However, even though names may be consistent across previous monographs and floras, the taxonomic concept (or circumscription) of a name may differ among authors, meaning that the way an accepted name in the flora is applied may be unfamiliar to the users of previous floras. We therefore have begun to manually align taxonomic concepts across five existing floras: Panarctic Flora, Flora of North America, Cody’s Flora of the Yukon (Cody 2000), Welsh’s Flora (Welsh 1974) and Hultén’s Flora (Hultén 1968), analysing usage and recording the Region Connection Calculus (RCC-5) relationships between taxonomic concepts common to each source. So far, we have mapped taxa in 13 genera, containing 557 taxonomic concepts and 482 taxonomic concept relationships. To facilitate this alignment process we developed software (tcm, Webb 2021) to record publications, names, taxonomic concepts and relationships, and to visualize the taxonomic concept relationships as graphs. These relationship graphs have proved to be accessible and valuable in discussing the frequently complex shifts in circumscription with the taxonomic experts who have reviewed the work. The taxonomic concept data are being integrated into the larger dataset to permit users of the new flora to instantly see both the chain of synonymy and concept map for any name. We have also worked with the developer of the Arctos Collection Management Solution (a database used for the majority of Alaskan collections) on new data tables for storage and display of taxonomic concept data. In this presentation, we will describe some of the ideas and workflows that may be of value to others working to connect across taxonomic resources.

Application of signature-based matching for IFC model comparison

The paper highlights the problem of Industry Foundation Classes (ISCs) model comparison in a platform-neutral collaboration of Building Information Models (BIMs). A critical issue in the IFC model comparison is establishing the right candidates for comparison, which typically depends upon using Globally Unique Identifiers (GUIDs). GUIDs are criticised for inconstancies that result because of complex modelling operations and nature of BIM authoring tools that are used to exchange IFC data. This paper presents a signature-matching approach that advocates using dynamic object identities, calculated from the characteristics and attributes of IFC objects, using hash keys that can create a unique signature for an object. Exemplars of creating IFC object signatures are presented. The proposed methodologies for creating IFC object signatures are implemented in a custom-built tool, xBIM Signatures exporter, and are verified using a test case. This research is limited to discussing signatures for IfcBuildingElements and has not considered a level of details and signature weighting of various object characteristics to formulate a robust solution. The proposed signature matching approach can benefit model comparison functionality for model servers and cloud-based collaboration tools.

Development of an informatics system for accelerating biomedical research.

Biomedical translational research can benefit from informatics system that support the confidentiality, integrity and accessibility of data. Such systems require functional capabilities for researchers to securely submit data to designated biomedical repositories. Reusability of data is enhanced by the availability functional capabilities that ensure confidentiality, integrity and access of data. A biomedical research system was developed by combining common data element methodology with a service-oriented architecture to support multiple disease focused research programs. Seven service modules are integrated together to provide a collaborative and extensible web-based environment. The modules - Data Dictionary, Account Management, Query Tool, Protocol and Form Research Management System, Meta Study, Repository Manager and globally unique identifier (GUID) facilitate the management of research protocols, submitting and curating data (clinical, imaging, and derived genomics) within the associated data repositories. No personally identifiable information is stored within the repositories. Data is made findable by use of digital object identifiers that are associated with the research studies. Reuse of data is possible by searching through volumes of aggregated research data across multiple studies. The application of common data element(s) methodology for development of content-based repositories leads to increase in data interoperability that can further hypothesis-based biomedical research.

A rule-based methodology to extract building model views

Abstract In this paper, we present a novel approach called IfcView that relies on Semantic Web technologies for creating building views. To do so, we consider an ifcOWL ontology proposed by buildingSMART. The ifcOWL is an Industry Foundation Classes (IFC) based ontology. By combining the ifcOWL ontology with logical rules (expressed in Semantic Web Rule Language, SWRL), we demonstrate through several case studies that our approach can perform a more intuitive and flexible extraction of building views when compared to the Model View Definition (MVD) approach. This is because our rule-based approach dynamically creates sub-graphs (i.e. views) by specifying the IFC elements to extract as Globally Unique Identifiers (GUID), relationships or entities. Another benefit of our approach is the fact that it simplifies the maintenance and definition of building views. Once our rule-based system extracts such a building view (i.e. sub-graph), this view can be exported by using STEP (STandard for the Exchange of Product) or Turtle (a Resource Description Framework (RDF) syntax) formats.

Green digitization: Online botanical collections data answering real‐world questions

Green digitization: Online botanical collections data answering real‐world questions

Use of globally unique identifiers (GUIDs) to link herbarium specimen records to physical specimens.

With the advent of the U.S. National Science Foundation's Advancing Digitization of Biodiversity Collections program and related worldwide digitization initiatives, the rate of herbarium specimen digitization in the United States has expanded exponentially. As the number of electronic herbarium records proliferates, the importance of linking these records to the physical specimens they represent as well as to related records from other sources will intensify. Although a rich and diverse literature has developed over the past decade that addresses the use of specimen identifiers for facilitating linking across the internet, few implementable guidelines or recommended practices for herbaria have been advanced. Here we review this literature with the express purpose of distilling a specific set of recommendations especially tailored to herbarium specimen digitization, curation, and management. We argue that associating globally unique identifiers (GUIDs) with physical herbarium specimens and including these identifiers in all electronic records about those specimens is essential to effective digital data curation. We also address practical applications for ensuring these associations.

인증 정보를 이용한 전자책 ePub의 저작권 보호 시스템 설계

ABSTRACT In recent times, the high-tech society has become the most important issue by IT technology and publication network. Today such flows have also been the case in the e-book field. Today's electronic publication is changing day by day. But there are some problems according to the prevalence of e-book. E-book is similar to p-book(paper-book). There is a limit to have perfect feeling of a texture of p-book. In order to purchase an e-book, people use online. People having malicious intent could copy and distribute it illegally. It leads to cyber abuses. This paper aims at the copyright protection of e-book ePub writers. The proposed e-book copyright protection system is designed using e-book production Sigil environment and C program environment. This system uses client-server communication through e-book ePub as authentication information . It discerns whether to permit or not for a client to read the e-book using authentication information. Authentication information includes ID, password, IP address, limited time of authentication information, GUID(Globally Unique Identifier). If authentication information about e-book meets requirements, people can use it. But if not, it blocks people's approach by quitting program.

The trouble with triplets in biodiversity informatics: a data-driven case against current identifier practices.

The biodiversity informatics community has discussed aspirations and approaches for assigning globally unique identifiers (GUIDs) to biocollections for nearly a decade. During that time, and despite misgivings, the de facto standard identifier has become the “Darwin Core Triplet”, which is a concatenation of values for institution code, collection code, and catalog number associated with biocollections material. Our aim is not to rehash the challenging discussions regarding which GUID system in theory best supports the biodiversity informatics use case of discovering and linking digital data across the Internet, but how well we can link those data together at this moment, utilizing the current identifier schemes that have already been deployed. We gathered Darwin Core Triplets from a subset of VertNet records, along with vertebrate records from GenBank and the Barcode of Life Data System, in order to determine how Darwin Core Triplets are deployed “in the wild”. We asked if those triplets follow the recommended structure and whether they provide an easy and unambiguous means to track from specimen records to genetic sequence records. We show that Darwin Core Triplets are often riddled with semantic and syntactic errors when deployed and curated in practice, despite specifications about how to construct them. Our results strongly suggest that Darwin Core Triplets that have not been carefully curated are not currently serving a useful role for relinking data. We briefly consider needed next steps to overcome current limitations.

MobilityFirst

This paper presents an overview of the MobilityFirst network architecture, currently under development as part of the US National Science Foundation's Future Internet Architecture (FIA) program. The proposed architecture is intended to directly address the challenges of wireless access and mobility at scale, while also providing new services needed for emerging mobile Internet application scenarios. After briefly outlining the original design goals of the project, we provide a discussion of the main architectural concepts behind the network design, identifying key features such as separation of names from addresses, public-key based globally unique identifiers (GUIDs) for named objects, global name resolution service (GNRS) for dynamic binding of names to addresses, storage-aware routing and late binding, content- and context-aware services, optional in-network compute layer, and so on. This is followed by a brief description of the MobilityFirst protocol stack as a whole, along with an explanation of how the protocol works at end-user devices and inside network routers. Example of specific advanced services supported by the protocol stack, including multi-homing, mobility with disconnection, and content retrieval/caching are given for illustration. Further design details of two key protocol components, the GNRS name resolution service and the GSTAR routing protocol, are also described along with sample results from evaluation. In conclusion, a brief description of an ongoing multi-site experimental proof-of-concept deployment of the MobilityFirst protocol stack on the GENI testbed is provided.

Publishing re-usable phylogenetic trees, in theory and practice

AbstractSharing and re-use of data are essential to the progressive and self-correcting nature of science. In recognition of this principle, journals and funding agencies have adopted policies to encourage sharing of information ('data'), including empirical data as well as computed inferences such as phylogenetic trees.Here we summarize an ongoing analysis of 1) current practices for sharing phylogenetic trees and associated data; 2) current barriers to effective sharing and reuse of such data; and 3) prospects for reducing these barriers to promote more widespread sharing and re-use. Currently, the technical infrastructure is available to support (with some limitations) rudimentary archiving in conjunction with manuscript publication. Yet, most published trees are not archived, and there is no community standard governing the recommended format or content to ensure a re-usable phylogenetic record. Without a shift in emphasis toward re-usability, along with technology and standards to support such a shift, the value of trees (whether disseminated via public archives, or by other means) will be limited. Interviews with actual or potential secondary consumers of phylogenetic results suggest that there is a considerable market for re-use, but that most attempts end in disappointment. Phylogenetic results available via author requests, journal web sites, archival repositories and project web sites rarely include the critical information that secondary consumers seek, such as unique identifiers for biological sources (including species sources and accession numbers), indicators of quality, and documentation of the analytical methods used to obtain the results.Based on the analysis presented here, we suggest that enabling effective re-use entails a commitment by the research community to several changes from current practice: 1) using globally unique identifiers (GUIDs) to reference informational and material entities; 2) developing and using technology for documenting and exchanging the metadata that facilitate re-use; and 3) supporting development and use of a minimal reporting standard that indicates what data and metadata are considered essential for a re-useable phylogenetic record. We suggest that re-use may be catalyzed most rapidly by identifying and targeting (with appropriate technology) the most promising circumstances for re-use. These might include the extraction of sub-trees from large trees (for use in reconciliation, classification, and comparative analysis); the re-use of seed alignments, sub-alignments and homologized characters; the linking of phylogenies to geographic information (for use in ecology, phylogeography and biogeography); and the construction of supertrees and supermatrices.

Metrics for Quantifying the Similarities and Differences between IFC Files

Recently, several papers reported problems in data exchange using industry foundation classes (IFC). However, most comparisons were made based on a visual check, a manual count, and observation of properties that were selectively chosen. This study proposes a set of metrics for quantifying the similarities and differences between IFC files. The proposed metrics include the similarity rate, the matching rate, the globally unique identifier (GUID) preservation rate, the missing rate, and the addition rate. A long-term goal of this study is to develop a set of metrics for quantifying the information exchange rate between two IFC files. Automated identification of modified information versus newly generated information is an unsolved challenge. The proposed metrics were used in analyzing 88 IFC files generated from different systems to demonstrate the potential use of the proposed metrics.