TY - GEN
T1 - Toward building grid applications in bioinformatics
AU - Gong, Xiujun
AU - Nakamura, Kensuke
AU - Yura, Kei
AU - Go, Nobuhiro
PY - 2006
Y1 - 2006
N2 - In silico bioinformatics experiments involve integration of and access to computational tools and biological databases. 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 program resources, 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.
AB - In silico bioinformatics experiments involve integration of and access to computational tools and biological databases. 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 program resources, 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.
KW - Active solution recommendation
KW - Bioinformatics
KW - Grid application
KW - Task mapping editor
UR - http://www.scopus.com/inward/record.url?scp=84872778534&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=84872778534&partnerID=8YFLogxK
M3 - Conference contribution
AN - SCOPUS:84872778534
SN - 1920682368
SN - 9781920682361
T3 - Conferences in Research and Practice in Information Technology Series
SP - 17
EP - 24
BT - ACSW Frontiers 2006 - Proc. of the Fourth Australasian Symposium on Grid Computing and e-Research, AusGrid 2006 and the Fourth Australasian Information Security Workshop (Network Security), AISW 2006
T2 - 4th Australasian Symposium on Grid Computing and e-Research, AusGrid 2006 and 4th Australasian Information Security Workshop (Network Security), AISW 2006
Y2 - 16 January 2006 through 19 January 2006
ER -