EST2uni: an open, parallel tool for automated EST analysis and database creation, with a data mining web interface and microarra

Background: Expressed sequence tag (EST) collections are composed of a high number of single-pass, redundant, partial sequences, which need to be processed, clustered, and annotated to remove low-quality and vector regions, eliminate redundancy and sequencing errors, and provide biologically relevant information. In order to provide a suitable way of performing the different steps in the analysis of the ESTs, flexible computation pipelines adapted to the local needs of specific EST projects have to be developed. Furthermore, EST collections must be stored in highly structured relational databases available to researchers through user-friendly interfaces which allow efficient and complex data mining, thus offering maximum capabilities for their full exploitation. Results: We have created EST2uni, an integrated, highly-configurable EST analysis pipeline and data mining software package that automates the pre-processing, clustering, annotation, database creation, and data mining of EST c...

• Type: Journal
• Year: 2008
• Where: BMCBI
• Authors: Javier Forment, Francisco Gilabert Villamón, Antonio Robles, Vicente Conejero, Fernando Nuez, Jose M. Blanca
• Keywords: BMCBI 2008, Data Mining, EST Collections, EST Projects