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Strömbäck, Lena
Publications (10 of 38) Show all publications
Ivanova, V. & Strömbäck, L. (2011). Creating Infrastructure for Tool-Independent Querying and Exploration of Scientific Workflows. In: 7th IEEE International Conference on e-Science: . Paper presented at 7th IEEE International Conference on e-Science (pp. 287-294). IEEE
Open this publication in new window or tab >>Creating Infrastructure for Tool-Independent Querying and Exploration of Scientific Workflows
2011 (English)In: 7th IEEE International Conference on e-Science, IEEE , 2011, p. 287-294Conference paper, Published paper (Refereed)
Abstract [en]

Many scientific experiments produce an enormous amount of data that needs to be explored. Scientific workflows and tools for managing workflows have been designed to streamline the computational processes that manipulate this data, from acquisition to analysis. However, the fact that each system has its own workflow format has greatly hampered efficient sharing and re-use. To address this problem, we propose a general model for workflows, based on OPM, which combines features from popular scientific workflow systems. We use this model to build infrastructure that supports system-agnostic workflow repositories. We describe the implementation of the infrastructure and present an experimental evaluation of its performance. We show that the proposed model and its implementation provide efficient support for queries over large repositories.

Place, publisher, year, edition, pages
IEEE, 2011
Keywords
Scientific workflows; provenance; OPM; querying; data models
National Category
Computer Sciences
Identifiers
urn:nbn:se:liu:diva-74385 (URN)10.1109/eScience.2011.47 (DOI)978-1-4577-2163-2 (ISBN)
Conference
7th IEEE International Conference on e-Science
Funder
Swedish Research Council
Available from: 2012-01-25 Created: 2012-01-25 Last updated: 2018-01-12
Strömbäck, L., Ivanova, V. & Hall, D. (2011). Exploring Statistical Information for Applications-Specific Design and Evaluation of Hybrid XML storage. In: Databases, Knowledge, and Data Applications: . Paper presented at The Third International Conference on Advances in Databases, Knowledge, and Data Applications (pp. 108-113).
Open this publication in new window or tab >>Exploring Statistical Information for Applications-Specific Design and Evaluation of Hybrid XML storage
2011 (English)In: Databases, Knowledge, and Data Applications, 2011, p. 108-113Conference paper, Published paper (Refereed)
Abstract [en]

Modern relational database management systems provide hybrid XML storage, combining relational and native technologies. Hybrid storage offers many design alternatives for XML data and in this paper we explore how to aid the user in effective design of hybrid storage. In particular we investigate how the XML schema and statistical information about the data can support the storage design process. We present an extended version of our tool HShreX that uses statistical information about a data to enable fast evaluation of alternative hybrid design solutions. In addition we show the benefit of the approach by a first evaluation where we discuss how the tool aids in the storage design and evaluation process.

Keywords
XML, Hybrid XML management, indexing, storage design
National Category
Computer Sciences
Identifiers
urn:nbn:se:liu:diva-74387 (URN)978-1-61208-115-1 (ISBN)
Conference
The Third International Conference on Advances in Databases, Knowledge, and Data Applications
Funder
Swedish Research Council
Available from: 2012-01-25 Created: 2012-01-25 Last updated: 2018-01-12
Strömbäck, L., Ivanova, V. & Hall, D. (2011). Using Statistical Information for Efficient Design and Evaluation of Hybrid XML Storage. International Journal On Advances in Software, 4(3-4), 389-400
Open this publication in new window or tab >>Using Statistical Information for Efficient Design and Evaluation of Hybrid XML Storage
2011 (English)In: International Journal On Advances in Software, ISSN 1942-2628, E-ISSN 1942-2628, Vol. 4, no 3-4, p. 389-400Article in journal (Refereed) Published
Abstract [en]

Modern relational database management systems provide hybrid XML storage, combining relational and native technologies. Hybrid storage offers many design alternatives for XML data. In this paper we explore how to aid the user in effective design of hybrid storage. In particular we investigate how the XML schema and statistical information about the data can support the storage design process. In our previous work, we presented our tool HShreX that uses statistical information about a data set to enable fast evaluation of alternative hybrid design solutions. In this paper, we extend this work by presenting more details about the tool and results of an extended evaluation. In particular, this paper gives a detailed presentation on how the tool aids in the storage design and evaluation process.

Place, publisher, year, edition, pages
IARIA, 2011
Keywords
XML, Hybrid XML management, indexing, storage design
National Category
Computer Systems
Identifiers
urn:nbn:se:liu:diva-102937 (URN)
Funder
Swedish Research Council
Available from: 2014-01-08 Created: 2014-01-08 Last updated: 2017-12-06
Strömbäck, L. & Freire, J. (2011). XML Management for Bioinformatics Applications. Computing in science & engineering (Print), 13(5), 12-22
Open this publication in new window or tab >>XML Management for Bioinformatics Applications
2011 (English)In: Computing in science & engineering (Print), ISSN 1521-9615, E-ISSN 1558-366X, Vol. 13, no 5, p. 12-22Article in journal (Refereed) Published
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.

Place, publisher, year, edition, pages
Institute of Electrical and Electronics Engineers (IEEE), 2011
National Category
Engineering and Technology
Identifiers
urn:nbn:se:liu:diva-70524 (URN)10.1109/MCSE.2010.100 (DOI)000294096200003 ()
Available from: 2011-09-12 Created: 2011-09-12 Last updated: 2017-12-08
Åsberg, M. & Strömbäck, L. (2010). Bioinformatics: From Disparate Web Services to Semantics and Interoperability. International Journal of Advances in Software, 3(3-4), 396-406
Open this publication in new window or tab >>Bioinformatics: From Disparate Web Services to Semantics and Interoperability
2010 (English)In: International Journal of Advances in Software, ISSN 1942-2628, Vol. 3, no 3-4, p. 396-406Article in journal (Refereed) Published
Abstract [en]

In the field of bioinformatics, there exists a large number of web service providers and many competing standards regarding how data should be represented and interfaced. However, these web services are often hard to use for a non-programmer and it can be especially hard to understand how different services can be used together to create scientific workflows. In this paper we have performed a literature study to identify problems involved in developing interoperable webservices for the bioinformatics community and steps taken by other projects to address them. We have also conducted a case study by developing our own bioinformatic web service to further investigate these problems. Based on our case study we have identified a number of design issues important to consider when designing web services. The paper is concluded by discussing current approaches aimed at making web services easier to use and by presenting our own proposal of an easy-to-use solution for integrating information from web services.

Place, publisher, year, edition, pages
IARIA, 2010
Keywords
bioinformatics, XML; web services; interoperability; semantics
National Category
Computer Sciences
Identifiers
urn:nbn:se:liu:diva-71060 (URN)
Available from: 2011-09-29 Created: 2011-09-29 Last updated: 2018-01-12
Hall, D. & Strömbäck, L. (2010). Generation of Synthetic XML for Evaluation of Hybrid XML Systems. In: Yoshikawa M, Meng X, Yumoto T, Ma Q, Sun L, Watanabe C (Ed.), Database Systems for Advanced Applications: 15th international conference, DASFAA 2010 International workshops: GDM, BenchmarX, MCIS, SNSMW, DIEW, UDM, Revised selected papers (pp. 191-202). Heidelberg: Springer
Open this publication in new window or tab >>Generation of Synthetic XML for Evaluation of Hybrid XML Systems
2010 (English)In: Database Systems for Advanced Applications: 15th international conference, DASFAA 2010 International workshops: GDM, BenchmarX, MCIS, SNSMW, DIEW, UDM, Revised selected papers / [ed] Yoshikawa M, Meng X, Yumoto T, Ma Q, Sun L, Watanabe C, Heidelberg: Springer , 2010, p. 191-202Chapter in book (Other academic)
Abstract [en]

This book constitutes the workshop proceedings of the 14th International Conference on Database Systems for Advanced Applications, DASFAA 2009, held in Brisbane, Australia, in April 2009. The volume contains six workshops, each focusing on specific research issues that contribute to the main themes of the DASFAA conference: The First International Workshop on Benchmarking of XML and Semantic Web Applications (BenchmarkX'09); The Second International Workshop on Managing Data Quality in Collaborative Information Systems (MCIS'09); The 1st International Workshop on Data and Process Provenance (WDPP'09); The First International Workshop on Privacy-Preserving Data Analysis (PPDA'09); The First International Workshop on Mobile Business Collaboration (MBC'09); and the First Ph.D. Workshop.

Place, publisher, year, edition, pages
Heidelberg: Springer, 2010
Series
LiH-RAD-R - Report / Department of Radiology, Linköping University, ISSN 0348-7679
Series
Lecture Notes in Computer Science, ISSN 0302-9743 ; 6193
National Category
Engineering and Technology
Identifiers
urn:nbn:se:liu:diva-60206 (URN)10.1007/978-3-642-14589-6_20 (DOI)9783642042041 (ISBN)
Available from: 2010-10-07 Created: 2010-10-07 Last updated: 2013-04-12Bibliographically approved
Åsberg, M. & Strömbäck, L. (2010). Interoperable and Easy-to-Use Web Services for the Bioinformatics Community - A Case Study. In: The Second International Conference on Advances in Databases, Knowledge, and Data Applications, DBKDA 2010: . Paper presented at The Second International Conference on Advances in Databases, Knowledge, and Data Applications, DBKDA 2010 (pp. 16-21).
Open this publication in new window or tab >>Interoperable and Easy-to-Use Web Services for the Bioinformatics Community - A Case Study
2010 (English)In: The Second International Conference on Advances in Databases, Knowledge, and Data Applications, DBKDA 2010, 2010, p. 16-21Conference paper, Published paper (Refereed)
Abstract [en]

In the field of bioinformatics, there exists a large number of web service providers and many competing standards regarding how data should be represented and interfaced. However, these web services are often hard to use for a non-expert programmer and it can be especially hard to see how different services can be used together to create scientific workflows. In this paper we have performed a literature study to identify problems involved in developing interoperable web services for the bioinformatics community and steps taken by other projects to, at least in part, address them. We have also conducted a case study by developing our own bioinformatic web service to further investigate these problems.

National Category
Engineering and Technology
Identifiers
urn:nbn:se:liu:diva-60204 (URN)10.1109/DBKDA.2010.22 (DOI)978-1-4244-6081-6 (ISBN)
Conference
The Second International Conference on Advances in Databases, Knowledge, and Data Applications, DBKDA 2010
Available from: 2010-10-07 Created: 2010-10-07 Last updated: 2017-02-14
Laux, F. & Strömbäck, L. (Eds.). (2010). The Second International Conference on Advances in Databases, Knowledge, and Data Applications, DBKDA 2010. IEEE
Open this publication in new window or tab >>The Second International Conference on Advances in Databases, Knowledge, and Data Applications, DBKDA 2010
2010 (English)Conference proceedings (editor) (Other academic)
Place, publisher, year, edition, pages
IEEE, 2010
Identifiers
urn:nbn:se:liu:diva-60211 (URN)
Available from: 2010-10-07 Created: 2010-10-07
Laux, F. & Strömbäck, L. (Eds.). (2010). The Second International Conference on Advances in Databases, Knowledge, and Data Applications, DBKDA 2010. IEEE
Open this publication in new window or tab >>The Second International Conference on Advances in Databases, Knowledge, and Data Applications, DBKDA 2010
2010 (English)Conference proceedings (editor) (Other academic)
Place, publisher, year, edition, pages
IEEE, 2010
Identifiers
urn:nbn:se:liu:diva-60208 (URN)
Available from: 2010-10-07 Created: 2010-10-07
Ellkvist, T., Strömbäck, L., Didier Linz, L. & Freire, J. (2009). A First Study on Strategies for Generating Workflow Snippets. In: The first International Workshop on Keyword Search ob structured data KEYS 2009, Collocated with ACM SIGMOD/PODS: . Paper presented at The first International Workshop on Keyword Search ob structured data KEYS 2009, Collocated with ACM SIGMOD/PODS (pp. 15-20). Association for Computing Machinery (ACM)
Open this publication in new window or tab >>A First Study on Strategies for Generating Workflow Snippets
2009 (English)In: 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, Published 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.

Place, publisher, year, edition, pages
Association for Computing Machinery (ACM), 2009
National Category
Engineering and Technology
Identifiers
urn:nbn:se:liu:diva-60209 (URN)10.1145/1557670.1557678 (DOI)978-1-60558-570-3 (ISBN)
Conference
The first International Workshop on Keyword Search ob structured data KEYS 2009, Collocated with ACM SIGMOD/PODS
Available from: 2010-10-07 Created: 2010-10-07 Last updated: 2015-05-28
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