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An Information Management System for Collaboration Within Distributed Working Environment

(Systems Paper)
  • Maria Samsonova
  • Andrei Pisarev
  • Konstantin Kozlov
  • Ekaterina Poustelnikova
  • Arthur Tkachenko
Part of the Lecture Notes in Computer Science book series (LNCS, volume 4075)

Abstract

Over a period of several years we apply the systems biology approach to investigate the dynamic regulatory mechanisms controlling the expression of segmentation genes in Drosophila embryo. Due to ongoing data acquisition, development of new processing and analysis methods, as well as modification and improvement of old ones serious problems arose with data and workflows management. Different geographical location of research groups poses additional difficulties. To solve these problems we have developed an information management system using multiagent and REST architectures. This system is easily extendable to deal with new data processing and analysis methods, flexible in specification and modification of these methods, scalable and supports distributed processing and analysis of data.

Keywords

Multiagent System Program Module Information Management System User Interface Agent Segmentation Gene 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

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References

  1. 1.
    Stevens, R.D., Robinson, A.J., Goble, C.A.: Mygrid: personalised bioinformatics on the information grid. Bioinformatics 19, 302–304 (2003)CrossRefGoogle Scholar
  2. 2.
    Oinn, T., Addis, M., Ferris, J., Marvin, D., Senger, M., Greenwood, M., Carver, T., Glover, K., Pocock, M.R., Wipat, A., Li, P.: Taverna: a tool for the composition and enactment of bioinformatics workflows. Bioinformatics 20, 3045–3054 (2004)CrossRefGoogle Scholar
  3. 3.
    Wilkinson, M., Schoof, H., Ernst, R., Haase, D.: Biomoby successfully integrates distributed heterogeneous bioinformatics web services. The planet exemplar case. Plant Physiology 138, 5–17 (2005)CrossRefGoogle Scholar
  4. 4.
    Senger, M., Rice, P., Oinn, T.: Soaplab - a unified sesame door to analysis tools. In: Proceedings of the UK eScience All Hands Meeting, pp. 509–513 (2003)Google Scholar
  5. 5.
    Fielding, R.T.: Architectural styles and the design of network-based software architectures. Doctoral dissertation (2000)Google Scholar
  6. 6.
    Myasnikova, E., Samsonova, A., Kozlov, K., Samsonova, M., Reinitz, J.: Registration of the expression patterns of drosophila segmentation genes by two independent methods. Bioinformatics 17, 3–12 (2001)CrossRefGoogle Scholar
  7. 7.
    Jaeger, J., Surkova, S., Blagov, M., Janssens, H., Kosman, D., Kozlov, K.N., Manu, M.E., Vanario-Alonso, C.E., Samsonova, M., Sharp, D.H., Reinitz, J.: Dynamic control of positional information in the early drosophila embryo. Nature 430, 368–371 (2004)CrossRefGoogle Scholar
  8. 8.
    Foe, V.E., Alberts, B.M.: Studies of nuclear and cytoplasmic behaviour during the five mitotic cycles that precede gastrulation in drosophila embryogenesis. The Journal of Cell Science 61, 31–70 (1983)Google Scholar
  9. 9.
    Ingham, P.W.: The molecular genetics of embryonic pattern formation in drosophila. Nature 335, 25–34 (1988)CrossRefGoogle Scholar
  10. 10.
    Jaeger, J., Blagov, M., Kosman, D., Kozlov, K.N., Manu, M.E., Surkova, S., Vanario-Alonso, C.E., Samsonova, M., Sharp, D.H., Reinitz, J.: Dynamical analysis of regulatory interactions in the gap gene system of drosophila melanogaster. Genetics 167, 1721–1737 (2004)CrossRefGoogle Scholar
  11. 11.
    Genesereth, M., Ketchpel, S.: Software agents. Communications of the ACM 37(7), 48–53 (1994)CrossRefGoogle Scholar
  12. 12.
    Poustelnikova, E., Pisarev, A., Blagov, M., Samsonova, M., Reinitz, J.: A database for management of gene expression data in situ. Bioinformatics 20, 2212–2221 (2004)CrossRefGoogle Scholar

Copyright information

© Springer-Verlag Berlin Heidelberg 2006

Authors and Affiliations

  • Maria Samsonova
    • 1
  • Andrei Pisarev
    • 1
  • Konstantin Kozlov
    • 1
  • Ekaterina Poustelnikova
    • 1
  • Arthur Tkachenko
    • 1
  1. 1.St.Petersburg State Polytechnical UniversitySt.PetersburgRussia

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