TomatEST database -- in silico exploitation of EST data to explore expression patterns in tomato species
What you can do:
Find expressed sequence tag (EST)/cDNA sequence information from different libraries of multiple tomato species.
Highlights:
- TomatEST is a secondary database integrating expressed sequence tag (EST)/cDNA sequence information from different libraries of multiple tomato species.
- Redundant EST collections from each species are organized into clusters (gene indices)consisting of one or multiple contigs.
- Multiple contigs in a cluster represent alternatively transcribed forms of a gene.
- The set of stand-alone EST sequences (singletons) and contigs, representing all the computationally defined 'Transcript Indices', are annotated according to similarity versus protein and RNA family databases.
- Sequence function description is integrated with the Gene Ontologies and the Enzyme Commission identifiers for a standard classification of gene products and for the mapping of the expressed sequences onto metabolic pathways.
- Information on the origin of the ESTs, on their structural features, on clusters and contigs, as well as on functional annotations are accessible via a user-friendly web interface.
- Specific facilities in the database allow Transcript Indices from a query be automatically classified in Enzyme classes and in metabolic pathways.
- The 'on the fly' mapping onto the metabolic maps is integrated in the analytical tools.
Keywords:
- Lycopersicon esculentum/*genetics/metabolism
- Lycopersicon esculentum
- tomato
- tomato EST
- tomato expressed sequence tags
- plant EST
Literature & Tutorials:
This record last updated: 02-14-2008