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Support for Cooperative Experiments in e-Science: From Scientific Workflows to Knowledge Sharing

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Identification of Ligand Binding Site and Protein-Protein Interaction Area

Part of the book series: Focus on Structural Biology ((FOSB,volume 8))

Abstract

The term e-Science describes computational and data-intensive science. It has become a complementary experiment paradigm alongside the traditional in vivo and in vitro experiment paradigms. e-Science opens new doors for scientists and with it, it exposes a number of challenges such as how to organize huge datasets and coordinate distributed execution. For these challenges, a plethora of technologies and innovations have come together to enable e-Science (Foster and Kesselman 2006). Nowadays, complex scientific experiments designed following the e-Science paradigm are preformed using geographically distributed instruments, data and computing resources. The newly designed scientific experiments are costly, time-consuming, and multidisciplinary. Complex scientific experiments not only require access to geographically distributed hardware and software resources, but also extensive support to foster best practices, dissemination, and re-use.

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Notes

  1. 1.

    www.vl-e.nl

  2. 2.

    Globus Middleware: http://www.globus.org/

  3. 3.

    http://www.biocatalogue.org/services

  4. 4.

    http://www.cs.wisc.edu/condor/dagman

  5. 5.

    FreeFluo: http://freefluo.sourceforge.net

  6. 6.

    http://www.oasis-open.org/committees/tchome.php?wg abbrev=wsrf

  7. 7.

    http://protege.stanford.edu/

  8. 8.

    www.science.uva.nl/gvlam/wsvlam

  9. 9.

    Web Service Choreography Interface: http://www.w3.org/TR/wsci/

  10. 10.

    http://www.vl-e.nl/vbrowser

  11. 11.

    http://www.adaptivedisclosure.org

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Acknowledgments

This work was carried out in the context of the Virtual Laboratory for e-Science project (www.vl-e.nl) supported by the BSIK grant of the Dutch Ministry of Education, Culture and Science and ICT innovation program of the Ministry of Economic Affairs. Currently this research is supported by the COMMIT project (WP8 and WP9). The authors are also grateful to Piotr Nowakowski for his remarks.

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Authors and Affiliations

  1. The Informatics Institute, University of Amsterdam, Amsterdam, The Netherlands

    Adam S. Z. Belloum, Reginald Cushing, Spiros Koulouzis, Victor Guevara-Masis & Zhiming Zhao

  2. Faculty of Applied Math and Control Processes, St. Petersburg State University, Saint Petersburg, Russia

    Vladimir Korkhov & Dmitry Vasunin

  3. AGH University of Science and Technology Krakow, Poland and the Informatics Institute, University of Amsterdam, Amsterdam, The Netherlands

    Marian Bubak

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  1. Adam S. Z. Belloum
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  2. Reginald Cushing
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  3. Spiros Koulouzis
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  4. Vladimir Korkhov
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  5. Dmitry Vasunin
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  6. Victor Guevara-Masis
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  7. Zhiming Zhao
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  8. Marian Bubak
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Correspondence to Adam S. Z. Belloum .

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  1. Medical College, Bioinformatics and Telemedicine, Jagiellonian University, Lazarza 16, Cracow, 31-530, Poland

    Irena Roterman-Konieczna

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Belloum, A.S.Z. et al. (2013). Support for Cooperative Experiments in e-Science: From Scientific Workflows to Knowledge Sharing. In: Roterman-Konieczna, I. (eds) Identification of Ligand Binding Site and Protein-Protein Interaction Area. Focus on Structural Biology, vol 8. Springer, Dordrecht. https://doi.org/10.1007/978-94-007-5285-6_7

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