BAAQ: An infrastructure for application integration and knowledge discovery in bioinformatics

Xiujun Gong, Kensuke Nakamura, Hua Yu, Kei Yura, Nobuhiro Go

Research output: Contribution to journalArticle

5 Citations (Scopus)

Abstract

The emerging grid computing technologies enable bioinformatics scientists to conduct their researches in a virtual laboratory, in which they share public databases, computational tools as well as their analysis workflows. However, the development of grid applications is still a nightmare for general bioinformatics scientists, due to the lack of grid programming environments, standards and high-level services. Here, we present a system, which we named Bioinformatics: Ask Any Questions (BAAQ), to automate this development procedure as much as possible. BAAQ allows scientists to store and manage remote biological data and programs, to build analysis workflows that integrate these resources seamlessly, and to discover knowledge from available resources. This paper addresses two issues in building grid applications in bioinformatics: how to smoothly compose an analysis workflow using heterogeneous resources and how to efficiently discover and re-use available resources in the grid community. Correspondingly an intelligent grid programming environment and an active solution recommendation service are proposed. Finally, we present a case study applying BAAQ to a bioinformatics problem.

Original languageEnglish
Pages (from-to)428-434
Number of pages7
JournalIEEE Transactions on Information Technology in Biomedicine
Volume11
Issue number4
DOIs
Publication statusPublished - 2007 Jul
Externally publishedYes

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Bioinformatics
Computational Biology
Data mining
Workflow
Grid computing
Databases
Technology
Research

Keywords

  • Active solution recommendation (ASR)
  • Bioinformatics
  • Grid application
  • Task mapping editor (TME)

ASJC Scopus subject areas

  • Biotechnology
  • Medicine(all)
  • Computer Science Applications
  • Electrical and Electronic Engineering

Cite this

BAAQ : An infrastructure for application integration and knowledge discovery in bioinformatics. / Gong, Xiujun; Nakamura, Kensuke; Yu, Hua; Yura, Kei; Go, Nobuhiro.

In: IEEE Transactions on Information Technology in Biomedicine, Vol. 11, No. 4, 07.2007, p. 428-434.

Research output: Contribution to journalArticle

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