ESTminer: a Web interface for mining EST contig and cluster databases | Zendy

Yecheng Huang | Zendy; Janie Pumphrey | Zendy; Alan R. Gingle | Zendy

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ESTminer: a Web interface for mining EST contig and cluster databases

Author(s) -

Yecheng Huang,

Janie Pumphrey,

Alan R. Gingle

Publication year - 2004

Publication title -

bioinformatics

Language(s) - English

Resource type - Journals

SCImago Journal Rank - 3.599

H-Index - 390

eISSN - 1367-4811

pISSN - 1367-4803

DOI - 10.1093/bioinformatics/bti030

Subject(s) - computer science , genbank , scripting language , database , contig , oracle , schema (genetic algorithms) , sequence database , information retrieval , data mining , programming language , biochemistry , chemistry , genome , gene

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.

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