Standard

Provenance for distributed biomedical workflow execution. / Madougou, Souley; Santcroos, Mark; Benabdelkader, Ammar; Van Schaik, Barbera D.C.; Shahand, Shayan; Korkhov, Vladimir; Van Kampen, Antoine H.C.; Olabarriaga, Sílvia D.

HealthGrid Applications and Technologies Meet Science Gateways for Life Sciences. IOS Press, 2012. p. 91-100 (Studies in Health Technology and Informatics; Vol. 175).

Research output: Chapter in Book/Report/Conference proceedingConference contributionResearchpeer-review

Harvard

Madougou, S, Santcroos, M, Benabdelkader, A, Van Schaik, BDC, Shahand, S, Korkhov, V, Van Kampen, AHC & Olabarriaga, SD 2012, Provenance for distributed biomedical workflow execution. in HealthGrid Applications and Technologies Meet Science Gateways for Life Sciences. Studies in Health Technology and Informatics, vol. 175, IOS Press, pp. 91-100, 10th HealthGrid Conference and the 4th International Workshop on Science Gateways for Life Sciences, IWSG-Life 2012, Amsterdam, Netherlands, 21/05/12. https://doi.org/10.3233/978-1-61499-054-3-91

APA

Madougou, S., Santcroos, M., Benabdelkader, A., Van Schaik, B. D. C., Shahand, S., Korkhov, V., Van Kampen, A. H. C., & Olabarriaga, S. D. (2012). Provenance for distributed biomedical workflow execution. In HealthGrid Applications and Technologies Meet Science Gateways for Life Sciences (pp. 91-100). (Studies in Health Technology and Informatics; Vol. 175). IOS Press. https://doi.org/10.3233/978-1-61499-054-3-91

Vancouver

Madougou S, Santcroos M, Benabdelkader A, Van Schaik BDC, Shahand S, Korkhov V et al. Provenance for distributed biomedical workflow execution. In HealthGrid Applications and Technologies Meet Science Gateways for Life Sciences. IOS Press. 2012. p. 91-100. (Studies in Health Technology and Informatics). https://doi.org/10.3233/978-1-61499-054-3-91

Author

Madougou, Souley ; Santcroos, Mark ; Benabdelkader, Ammar ; Van Schaik, Barbera D.C. ; Shahand, Shayan ; Korkhov, Vladimir ; Van Kampen, Antoine H.C. ; Olabarriaga, Sílvia D. / Provenance for distributed biomedical workflow execution. HealthGrid Applications and Technologies Meet Science Gateways for Life Sciences. IOS Press, 2012. pp. 91-100 (Studies in Health Technology and Informatics).

BibTeX

@inproceedings{ad92d915e4fb4db8927bb084c8f2834b,
title = "Provenance for distributed biomedical workflow execution",
abstract = "Scientific research has become very data and compute intensive because of the progress in data acquisition and measurement devices, which is particularly true in Life Sciences. To cope with this deluge of data, scientists use distributed computing and storage infrastructures. The use of such infrastructures introduces by itself new challenges to the scientists in terms of proper and efficient use. Scientific workflow management systems play an important role in facilitating the use of the infrastructure by hiding some of its complexity. Althought most scientific workflow management systems are provenance-aware, not all of them come with provenance functionality out of the box. In this paper we describe the improvement and integration of a provenance system into an e-infrastructure for biomedical research based on the MOTEUR workflow management system. The main contributions of the paper are: presenting an OPM implementation using relational database backend for the provenance store, providing an e-infrastructure with a comprehensive provenance system, defining a generic approach to provenance implementation, potentially suitable for other workflow systems and application domains and demonstrating the value of this system based on use cases presenting the provenance data through a user-friendly web interface.",
keywords = "Biomedical research, Distributed computing, E-science, Grid computing, Provenance, Scientific workflow management systems",
author = "Souley Madougou and Mark Santcroos and Ammar Benabdelkader and {Van Schaik}, {Barbera D.C.} and Shayan Shahand and Vladimir Korkhov and {Van Kampen}, {Antoine H.C.} and Olabarriaga, {S{\'i}lvia D.}",
year = "2012",
doi = "10.3233/978-1-61499-054-3-91",
language = "English",
isbn = "9781614990536",
series = "Studies in Health Technology and Informatics",
publisher = "IOS Press",
pages = "91--100",
booktitle = "HealthGrid Applications and Technologies Meet Science Gateways for Life Sciences",
address = "Netherlands",
note = "10th HealthGrid Conference and the 4th International Workshop on Science Gateways for Life Sciences, IWSG-Life 2012 ; Conference date: 21-05-2012 Through 25-05-2012",

}

RIS

TY - GEN

T1 - Provenance for distributed biomedical workflow execution

AU - Madougou, Souley

AU - Santcroos, Mark

AU - Benabdelkader, Ammar

AU - Van Schaik, Barbera D.C.

AU - Shahand, Shayan

AU - Korkhov, Vladimir

AU - Van Kampen, Antoine H.C.

AU - Olabarriaga, Sílvia D.

PY - 2012

Y1 - 2012

N2 - Scientific research has become very data and compute intensive because of the progress in data acquisition and measurement devices, which is particularly true in Life Sciences. To cope with this deluge of data, scientists use distributed computing and storage infrastructures. The use of such infrastructures introduces by itself new challenges to the scientists in terms of proper and efficient use. Scientific workflow management systems play an important role in facilitating the use of the infrastructure by hiding some of its complexity. Althought most scientific workflow management systems are provenance-aware, not all of them come with provenance functionality out of the box. In this paper we describe the improvement and integration of a provenance system into an e-infrastructure for biomedical research based on the MOTEUR workflow management system. The main contributions of the paper are: presenting an OPM implementation using relational database backend for the provenance store, providing an e-infrastructure with a comprehensive provenance system, defining a generic approach to provenance implementation, potentially suitable for other workflow systems and application domains and demonstrating the value of this system based on use cases presenting the provenance data through a user-friendly web interface.

AB - Scientific research has become very data and compute intensive because of the progress in data acquisition and measurement devices, which is particularly true in Life Sciences. To cope with this deluge of data, scientists use distributed computing and storage infrastructures. The use of such infrastructures introduces by itself new challenges to the scientists in terms of proper and efficient use. Scientific workflow management systems play an important role in facilitating the use of the infrastructure by hiding some of its complexity. Althought most scientific workflow management systems are provenance-aware, not all of them come with provenance functionality out of the box. In this paper we describe the improvement and integration of a provenance system into an e-infrastructure for biomedical research based on the MOTEUR workflow management system. The main contributions of the paper are: presenting an OPM implementation using relational database backend for the provenance store, providing an e-infrastructure with a comprehensive provenance system, defining a generic approach to provenance implementation, potentially suitable for other workflow systems and application domains and demonstrating the value of this system based on use cases presenting the provenance data through a user-friendly web interface.

KW - Biomedical research

KW - Distributed computing

KW - E-science

KW - Grid computing

KW - Provenance

KW - Scientific workflow management systems

UR - http://www.scopus.com/inward/record.url?scp=84866754230&partnerID=8YFLogxK

U2 - 10.3233/978-1-61499-054-3-91

DO - 10.3233/978-1-61499-054-3-91

M3 - Conference contribution

C2 - 22941992

SN - 9781614990536

T3 - Studies in Health Technology and Informatics

SP - 91

EP - 100

BT - HealthGrid Applications and Technologies Meet Science Gateways for Life Sciences

PB - IOS Press

T2 - 10th HealthGrid Conference and the 4th International Workshop on Science Gateways for Life Sciences, IWSG-Life 2012

Y2 - 21 May 2012 through 25 May 2012

ER -

ID: 53075895