Bioinformatics service reconciliation by heterogeneous schema transformation

This paper focuses on the problem of bioinformatics service reconciliation in a generic and scalable manner so as to enhance interoperability in a highly evolving field. Using XML as a common representation format, but also supporting existing flat-file representation formats, we propose an approach for the scalable semi-automatic reconciliation of services, possibly invoked from within a scientific workflows tool. Service reconciliation may use the AutoMed heterogeneous data integration system as an intermediary service, or may use AutoMed to produce services that mediate between services. We discuss the application of our approach for the reconciliation of services in an example bioinformatics workflow. The main contribution of this research is an architecture for the scalable reconciliation of bioinformatics services

UK utility data integration: overcoming schematic heterogeneity

In this paper we discuss syntactic, semantic and schematic issues which inhibit the integration of utility data in the UK. We then focus on the techniques employed within the VISTA project to overcome schematic heterogeneity. A Global Schema based architecture is employed. Although automated approaches to Global Schema definition were attempted the heterogeneities of the sector were too great. A manual approach to Global Schema definition was employed. The techniques used to define and subsequently map source utility data models to this schema are discussed in detail. In order to ensure a coherent integrated model, sub and cross domain validation issues are then highlighted. Finally the proposed framework and data flow for schematic integration is introduced

Active Ontology: An Information Integration Approach for Dynamic Information Sources

In this paper we describe an ontology-based information integration approach that is suitable for highly dynamic distributed information sources, such as those available in Grid systems. The main challenges addressed are: 1) information changes frequently and information requests have to be answered quickly in order to provide up-to-date information; and 2) the most suitable information sources have to be selected from a set of different distributed ones that can provide the information needed. To deal with the first challenge we use an information cache that works with an update-on-demand policy. To deal with the second we add an information source selection step to the usual architecture used for ontology-based information integration. To illustrate our approach, we have developed an information service that aggregates metadata available in hundreds of information services of the EGEE Grid infrastructure

An Extension of NDT to Model Entity Reconciliation Problems

Within the development of software systems, the development of web applications may be one of the most widespread at present due to the great number of advantages they provide such as: multiplatform, speed of access or the not requiring extremely powerful hardware among others. The fact that so many web applications are being developed, makes grotesque the volume of information that it is generated daily. In the management of all this information, it appears the entity reconciliation problem, which is to identify objects referring to the same real-world entity. This paper proposes to give a solution to this problem through a web perspective. To this end, the NDT methodology has been taken as a reference and has been extended adding new activities, artefacts and documents to cover this problem.Ministerio de Economía y Competitividad TIN2013-46928-C3-3-RMinisterio de Economía y Competitividad TIN2016-76956-C3-2-RMinisterio de Economía y Competitividad TIN2015-71938-RED

Blazes: Coordination Analysis for Distributed Programs

Distributed consistency is perhaps the most discussed topic in distributed systems today. Coordination protocols can ensure consistency, but in practice they cause undesirable performance unless used judiciously. Scalable distributed architectures avoid coordination whenever possible, but under-coordinated systems can exhibit behavioral anomalies under fault, which are often extremely difficult to debug. This raises significant challenges for distributed system architects and developers. In this paper we present Blazes, a cross-platform program analysis framework that (a) identifies program locations that require coordination to ensure consistent executions, and (b) automatically synthesizes application-specific coordination code that can significantly outperform general-purpose techniques. We present two case studies, one using annotated programs in the Twitter Storm system, and another using the Bloom declarative language.Comment: Updated to include additional materials from the original technical report: derivation rules, output stream label

Identification and reconciliation of semantic conflicts using metadata

"November 1989. -- Rev. version, June 1990."Includes bibliographical references (p. 17-18).Supported in part by Reuters and the International Financial Services Research Center at the Massachusetts Institute of Technology.Michael Siegel, Stuart E. Madnick

A framework for utility data integration in the UK

In this paper we investigate various factors which prevent utility knowledge from being fully exploited and suggest that integration techniques can be applied to improve the quality of utility records. The paper suggests a framework which supports knowledge and data integration. The framework supports utility integration at two levels: the schema and data level. Schema level integration ensures that a single, integrated geospatial data set is available for utility enquiries. Data level integration improves utility data quality by reducing inconsistency, duplication and conflicts. Moreover, the framework is designed to preserve autonomy and distribution of utility data. The ultimate aim of the research is to produce an integrated representation of underground utility infrastructure in order to gain more accurate knowledge of the buried services. It is hoped that this approach will enable us to understand various problems associated with utility data, and to suggest some potential techniques for resolving them

Multi-Source Spatial Entity Linkage

Besides the traditional cartographic data sources, spatial information can also be derived from location-based sources. However, even though different location-based sources refer to the same physical world, each one has only partial coverage of the spatial entities, describe them with different attributes, and sometimes provide contradicting information. Hence, we introduce the spatial entity linkage problem, which finds which pairs of spatial entities belong to the same physical spatial entity. Our proposed solution (QuadSky) starts with a time-efficient spatial blocking technique (QuadFlex), compares pairwise the spatial entities in the same block, ranks the pairs using Pareto optimality with the SkyRank algorithm, and finally, classifies the pairs with our novel SkyEx-* family of algorithms that yield 0.85 precision and 0.85 recall for a manually labeled dataset of 1,500 pairs and 0.87 precision and 0.6 recall for a semi-manually labeled dataset of 777,452 pairs. Moreover, we provide a theoretical guarantee and formalize the SkyEx-FES algorithm that explores only 27% of the skylines without any loss in F-measure. Furthermore, our fully unsupervised algorithm SkyEx-D approximates the optimal result with an F-measure loss of just 0.01. Finally, QuadSky provides the best trade-off between precision and recall, and the best F-measure compared to the existing baselines and clustering techniques, and approximates the results of supervised learning solutions

Report of the Stanford Linked Data Workshop

The Stanford University Libraries and Academic Information Resources (SULAIR) with the Council on Library and Information Resources (CLIR) conducted at week-long workshop on the prospects for a large scale, multi-national, multi-institutional prototype of a Linked Data environment for discovery of and navigation among the rapidly, chaotically expanding array of academic information resources. As preparation for the workshop, CLIR sponsored a survey by Jerry Persons, Chief Information Architect emeritus of SULAIR that was published originally for workshop participants as background to the workshop and is now publicly available. The original intention of the workshop was to devise a plan for such a prototype. However, such was the diversity of knowledge, experience, and views of the potential of Linked Data approaches that the workshop participants turned to two more fundamental goals: building common understanding and enthusiasm on the one hand and identifying opportunities and challenges to be confronted in the preparation of the intended prototype and its operation on the other. In pursuit of those objectives, the workshop participants produced:1. a value statement addressing the question of why a Linked Data approach is worth prototyping;2. a manifesto for Linked Libraries (and Museums and Archives and …);3. an outline of the phases in a life cycle of Linked Data approaches;4. a prioritized list of known issues in generating, harvesting & using Linked Data;5. a workflow with notes for converting library bibliographic records and other academic metadata to URIs;6. examples of potential “killer apps” using Linked Data: and7. a list of next steps and potential projects.This report includes a summary of the workshop agenda, a chart showing the use of Linked Data in cultural heritage venues, and short biographies and statements from each of the participants