DocumentCode :
3410094
Title :
A knowledge base for computational pathway reconstruction
Author :
Wang, Peng ; Su, Zhengchang ; Dam, Phuongan ; Xu, Ying
Author_Institution :
Dept. of Biochem. & Molecular Biol., Georgia Univ., Athens, GA, USA
fYear :
2004
fDate :
16-19 Aug. 2004
Firstpage :
612
Lastpage :
613
Abstract :
The Synechococcus WH8102 knowledge base (http://www.csbl.bmb.uga.edu/WH8J02) is a Web based relational database developed to facilitate computational effort to reconstruct regulatory pathways and serve as a gateway for biologist to access the data. It is the repertoire that integrates a variety of knowledge derived both from literature and computational prediction. Those data are organized in hierarchical fashion. The basic building blocks are functional annotation and structure prediction of individual molecule. Those data are then organized into clusters based on computationally predicted operon, regulon and molecular complexes. Finally all data are complied into pathways derived from combined efforts of literature mining and computational prediction. A number of tools have been developed to facilitate the data retrieval including a SQL query engineer and several viewers to browse genome, molecular complexes and pathways.
Keywords :
SQL; Web sites; biology computing; data mining; genetics; information retrieval; knowledge based systems; molecular biophysics; relational databases; SQL query engineer; Synechococcus WH8102 knowledge base; Web based relational database; computational pathway reconstruction; computational prediction; data access; data retrieval; functional annotation; genome; literature mining; molecular complexes; molecular pathways; operon; regulatory pathways; regulon; structure prediction; Bioinformatics; Biology computing; Computational systems biology; Displays; Genomics; Information retrieval; Laboratories; Proteins; Relational databases; Visual databases;
fLanguage :
English
Publisher :
ieee
Conference_Titel :
Computational Systems Bioinformatics Conference, 2004. CSB 2004. Proceedings. 2004 IEEE
Print_ISBN :
0-7695-2194-0
Type :
conf
DOI :
10.1109/CSB.2004.1332516
Filename :
1332516
Link To Document :
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