Encyclopedia of Database Systems

2018 Edition
| Editors: Ling Liu, M. Tamer Özsu

Biological Resource Discovery

  • Zoé Lacroix
  • Cartik R. Kothari
  • Peter Mork
  • Rami Rifaieh
  • Mark D. Wilkinson
  • Juliana Freire
  • Sarah Cohen-Boulakia
Reference work entry
DOI: https://doi.org/10.1007/978-1-4614-8265-9_1560

Definition

Resources for the Life Sciences include various expedients including (access to) data stored in flat files or databases (e.g., a query form or a textual search engine), links between resources (index or hyperlink), or services such as applications or tools. Resource discovery is the process of identifying and locating existing resources that have a particular property. Machine-based resource discovery relies on crawling, clustering, and classifying resources discovered on the Web automatically. Resource discovery systems allow the expression of queries to identify and locate resources that implement scientific tasks and have properties of interest.

Historical Background

Resource selection relies on the identification of the resources suitable to achieve each task and the ability to compose the selected resources into a meaningful and efficient executable protocol. Metadata constitute the core information requisite to evaluate the suitability of Life Sciences resources to...

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Recommended Reading

  1. 1.
    Barbosa L, Tandon S, Freire J. Automatically constructing a directory of molecular biology databases. In: Data integration in the life sciences. DILS 2007. LNCS, vol. 4544. Berlin: Springer. p. 6–16.Google Scholar
  2. 2.
    Clark T, Martin S, Liefeld T. Graphically distributed object identification for biological knowledge bases. Brief Bioinform. 2004;5(1):59–70.CrossRefGoogle Scholar
  3. 3.
    Cohen-Boulakia S, Biton O, Davidson S, Froidevaux C. BioGuideSRS: querying multiple sources with a user-centric perspective. Bioinformatics. 2006;23(10):1301–3.CrossRefGoogle Scholar
  4. 4.
    Cohen-Boulakia S, Davidson S, Froidevaux C, Lacroix Z, Vidal ME. Path-based systems to guide scientists in the maze of biological resources. J Bioinforma Comput Biol. 2006;4(5):1069–95.CrossRefGoogle Scholar
  5. 5.
    Etsold T, Harris H, Beaulah S. Chapter 5 – SRS: an integration platform for databanks and analysis tools in bioinformatics. In: Lacroix Z, Critchlow T, editors. Bioinformatics: managing scientific data. Los Altos: Morgan Kaufmann; 2003. p. 109–46.CrossRefGoogle Scholar
  6. 6.
    Fox GC, Gannon D, editors. Concurrency and Computation: Practice and Experience, Special Issue: Workflow in Grid Systems, vol. 18(10). Chichester: Wiley; 2006.Google Scholar
  7. 7.
    Galperin MY. The molecular biology database collection: 2007 update. Nucleic Acids Res. 2007;35(Database issue):D3–4.CrossRefGoogle Scholar
  8. 8.
    Good BM, Wilkinson MD. The life sciences semantic web is full of creeps! Brief Bioinform. 2006;7(3):275–86.CrossRefGoogle Scholar
  9. 9.
    Kawa EA, Senger M, Wilkinson MD. BioMoby extensions to the Taverna workflow management and enactment software. BMC Bioinf. 2006;7(1):523.CrossRefGoogle Scholar
  10. 10.
    Lacroix Z, Raschid L, Eckman B. Techniques for optimization of queries on integrated biological resources. J Bioinforma Comput Biol. 2004;2(2):375–411.CrossRefGoogle Scholar
  11. 11.
    Ngu AHH, Rocco D, Critchlow T, Buttler D. Automatic discovery and inferencing of complex bioinformatics web interfaces. World Wide Web. 2005;8(4):463–93.CrossRefGoogle Scholar
  12. 12.
    Wolstencroft K, Alper P, Hull D, Wroe C, Lord P, Stevens R, Goble C. The myGrid ontology: bioinformatics service discovery. Int J Bioinforma Res Appl. 2007;3(3):303–25.CrossRefGoogle Scholar

Copyright information

© Springer Science+Business Media, LLC, part of Springer Nature 2018

Authors and Affiliations

  • Zoé Lacroix
    • 1
  • Cartik R. Kothari
    • 2
  • Peter Mork
    • 3
  • Rami Rifaieh
    • 4
  • Mark D. Wilkinson
    • 5
  • Juliana Freire
    • 6
    • 7
    • 8
  • Sarah Cohen-Boulakia
    • 9
  1. 1.Arizona State UniversityTempeUSA
  2. 2.Biomedical InformaticsOhio State University, College of MedicineColumbusUSA
  3. 3.The MITRE CorporationMcLeanUSA
  4. 4.University of California-San DiegoSan DiegoUSA
  5. 5.University of British ColumbiaVancouverCanada
  6. 6.NYU Tandon School of EngineeringBrooklynUSA
  7. 7.NYU Center for Data ScienceNew YorkUSA
  8. 8.New York UniversityNew YorkUSA
  9. 9.University Paris-SudOrsay CedexFrance

Section editors and affiliations

  • Louiqa Raschid
    • 1
  1. 1.Robert H. Smith School of BusinessUniversity of MarylandCollege ParkUSA