EST2Prot: mapping EST sequences to proteins.
BACKGROUND
EST libraries are used in various biological studies, from microarray experiments to proteomic and genetic screens. These libraries usually contain many uncharacterized ESTs that are typically ignored since they cannot be mapped to known genes. Consequently, new discoveries are possibly overlooked.


RESULTS
We describe a system (EST2Prot) that uses multiple elements to map EST sequences to their corresponding protein products. EST2Prot uses UniGene clusters, substring analysis, information about protein coding regions in existing DNA sequences and protein database searches to detect protein products related to a query EST sequence. Gene Ontology terms, Swiss-Prot keywords, and protein similarity data are used to map the ESTs to functional descriptors.


CONCLUSIONS
EST2Prot extends and significantly enriches the popular UniGene mapping by utilizing multiple relations between known biological entities. It produces a mapping between ESTs and proteins in real-time through a simple web-interface. The system is part of the Biozon database and is accessible at http://biozon.org/tools/est/.
Shafer
Paul
P
Department of Computer Science, Cornell University, Ithaca, NY, USA. pes25@cornell.edu
Lin
David M
DM
Yona
Golan
G
D000818:Animals; D002874:Chromosome Mapping / Q000379:methods*; D019295:Computational Biology / Q000379:methods*; D003628:Database Management Systems; D030562:Databases, Protein; D020224:Expressed Sequence Tags; D006801:Humans; D011506:Proteins / Q000235:genetics / Q000378:metabolism; D017422:Sequence Analysis, DNA; D014584:User-Computer Interface
D011506:Proteins