ESTminer: a Web interface for mining EST contig and cluster databases.
ESTminer is a Web application and database schema for interactive mining of expressed sequence tag (EST) contig and cluster datasets. The Web interface contains a query frame that allows the selection of contigs/clusters with specific cDNA library makeup or a threshold number of members. The results are displayed as color-coded tree nodes, where the color indicates the fractional size of each cDNA library component. The nodes are expandable, revealing library statistics as well as EST or contig members, with links to sequence data, GenBank records or user configurable links. Also, the interface allows 'queries within queries' where the result set of a query is further filtered by the subsequent query.


BACKGROUND
ESTminer is implemented in Java/JSP and the package, including MySQL and Oracle schema creation scripts, is available from http://cggc.agtec.uga.edu/Data/download.asp


BACKGROUND
agingle@uga.edu.
Huang
Yecheng
Y
Center for Applied Genetic Technologies, University of Georgia 111 Riverbend Road, Athens, GA 30602, USA.
Pumphrey
Janie
J
Gingle
Alan R
AR
D000465:Algorithms; D016000:Cluster Analysis; D020451:Contig Mapping / Q000379:methods*; D003628:Database Management Systems; D030561:Databases, Nucleic Acid; D020224:Expressed Sequence Tags; D016247:Information Storage and Retrieval / Q000379:methods*; D020407:Internet; D010363:Pattern Recognition, Automated / Q000379:methods; D016415:Sequence Alignment / Q000379:methods; D017422:Sequence Analysis, DNA / Q000379:methods*; D012984:Software; D014584:User-Computer Interface