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  • 1.
    Ellkvist, Tommy
    et al.
    Linköping University, Department of Computer and Information Science, Database and information techniques. Linköping University, The Institute of Technology.
    Koop, David
    University of Utah.
    Freire, Juliana
    Linköping University, Department of Computer and Information Science, Database and information techniques. Linköping University, The Institute of Technology. University of Utah.
    Silvia, Claudiu
    University of Utah.
    Strömbäck, Lena
    Linköping University, Department of Computer and Information Science, Database and information techniques. Linköping University, The Institute of Technology.
    Using Mediation to Achieve Provenance Interoperability2009In: 2009 Congress on Services - I, IEEE Press, 2009, p. 291-298Conference paper (Refereed)
    Abstract [en]

    Provenance is essential in scientific experiments. It contains information that is key to preserving the data, to determining their quality and authorship, and to reproduce as well as validate the results. In complex experiments and analyses, where multiple tools are used to derive data products, provenance captured by these tools must be combined in order to determine the complete lineage of the derived products. In this paper we describe a mediator-based architecture for integrating provenance information from multiple sources. This architecture contains two key components: a global mediated schema that is general and capable of representing provenance information represented in different model; and describe a new system-independent query API that is general and able to express complex queries over provenance information from different sources. We also present a case study where we show how this model was applied to integrate provenance from three provenance-enabled systems and discuss the issues involved in this integration process.

  • 2.
    Ellkvist, Tommy
    et al.
    Linköping University, Department of Computer and Information Science, Database and information techniques. Linköping University, The Institute of Technology.
    Strömbäck, Lena
    Linköping University, Department of Computer and Information Science, Database and information techniques. Linköping University, The Institute of Technology.
    Didier Linz, Lauro
    University of Utah.
    Freire, Juliana
    Linköping University, Department of Computer and Information Science, Database and information techniques. Linköping University, The Institute of Technology. University of Utah.
    A First Study on Strategies for Generating Workflow Snippets2009In: The first International Workshop on Keyword Search ob structured data KEYS 2009, Collocated with ACM SIGMOD/PODS, Association for Computing Machinery (ACM), 2009, p. 15-20Conference paper (Refereed)
    Abstract [en]

    Workflows are increasingly being used to specify computational tasks, from simulations and data analysis to the creation of Web mashups. Recently, a number of public workflow repositories have become available, for example, myExperiment for scientific workflows, and Yahoo! Pipes. Workflow collections are also commonplace in many scientific projects. Having such collections opens up new opportunities for knowledge sharing and re-use. But for this to become a reality, mechanisms are needed that help users explore these collections and locate useful workflows. Although there has been work on querying workflows, not much attention has been given to presenting query results. In this paper, we take a first look at the requirements for workflow snippets and study alternative techniques for deriving concise, yet informative snippets.

  • 3.
    Ellqvist, Tommy
    et al.
    Linköping University, Department of Computer and Information Science, Database and information techniques. Linköping University, The Institute of Technology.
    Koop, David
    CS University of Utah.
    Anderson, Erik W.
    SCI University of Utah.
    Freire, Juliana
    Linköping University, Department of Computer and Information Science, Database and information techniques. Linköping University, The Institute of Technology. University of Utah.
    Silva, Claudio
    SCI University of Utah.
    Using Provenance to Support Real-Time Collaborative Design of Workflows2008In: Second International Provenance and Annotation Workshop,2008, New York: Springer , 2008, Vol. 5272, p. 266-Conference paper (Refereed)
    Abstract [en]

    Because designing workflows is a notoriously difficult task, it often requires multiple users to collaborate. In such scenarios, sharing workflow evolution provenance in a timely manner is critical. We present an environment where collaborating users can see each other’s changes in real-time. The synchronization of workflow evolution provenance is automatic, immediate, and unobtrusive, allowing users to see collaborators’ changes as they are made. This enables a richer and fuller method of collaboration. We present the interface and algorithm for the synchronization and discuss common scenarios where this mechanism has been utilized.

  • 4.
    Ellqvist, Tommy
    et al.
    Linköping University, Department of Computer and Information Science, Database and information techniques. Linköping University, The Institute of Technology.
    Koop, David
    University of Utah, USA.
    Freire, Juliana
    Linköping University, Department of Computer and Information Science, Database and information techniques. Linköping University, The Institute of Technology. University of Utah.
    Silva, Claudio
    University of Utah, USA.
    Strömbäck, Lena
    Linköping University, Department of Computer and Information Science, Database and information techniques. Linköping University, The Institute of Technology.
    Using Mediation to Achieve Provenance Interoperability2008In: 2009 World Conference on Services - I, IEEE , 2008, p. 398-399Conference paper (Refereed)
    Abstract [en]

    Provenance is essential in scientific experiments. It contains information that is key to preserving the data and to determine its quality and uthorship. In complex experiments and analyses, where multiple tools are used to derive data products, provenance captured by these tools must be combined in order to determine the complete lineage of the derived products. We propose a mediator-based architecture to integrate provenance information from multiple sources, which contains two key components: a global mediated schema that is general and capable of representing provenance information represented in different models; and an expressive query interface that supports complex queries over provenance information spread over multiple different sources. We also present a case study where we show how this model was applied to integrate provenance from three provenance-enabled systems.

  • 5.
    Freire, Juliana
    Linköping University, Department of Computer and Information Science, Database and information techniques. Linköping University, The Institute of Technology. University of Utah.
    Provenance management for data exploration2010In: Proceedings of the Seventh International Conference on Data Integration in the Life Sciences / [ed] Patrick Lambrix and Graham Kemp, Springer Verlag , 2010, p. 1-2Conference paper (Refereed)
    Abstract [en]

    Computing has been an enormous accelerator to science and industry alike and it has led to an information explosion in many different fields. The unprecedented volume of data acquired by sensors, derived by simulations and analysis processes, and shared on the Web opens up new opportunities, but it also creates many challenges when it comes to managing and analyzing these data.

  • 6.
    Strömbäck, Lena
    et al.
    Linköping University, Department of Computer and Information Science, Database and information techniques. Linköping University, The Institute of Technology.
    Freire, Juliana
    Linköping University, Department of Computer and Information Science, Database and information techniques. Linköping University, The Institute of Technology. University of Utah.
    XML Management for Bioinformatics Applications2011In: Computing in science & engineering (Print), ISSN 1521-9615, E-ISSN 1558-366X, Vol. 13, no 5, p. 12-22Article in journal (Refereed)
    Abstract [en]

    Scientific exploration has become a data-intensive process, and increasing amounts of data need to be stored, analyzed, and shared. XML can help address these needs. As concrete examples from systems biology show, native XML storage can be combined with traditional relational databases to offer an effective, usable solution for storing scientific data.

1 - 6 of 6
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